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Revision 4958 - Directory Listing
Modified Wed May 21 01:32:53 2014 UTC (3 years, 6 months ago) by caltinay
merge more unittest2 wrapping.


Revision 4953 - Directory Listing
Modified Tue May 20 03:58:35 2014 UTC (3 years, 6 months ago) by caltinay
Cherry picked downunder bug fix and unittest2 integration.


Revision 4952 - Directory Listing
Modified Tue May 20 03:43:04 2014 UTC (3 years, 6 months ago) by caltinay
Copied from: release/3.4.2 revision 4951
Copy of 3.4.2


Revision 4925 - Directory Listing
Modified Thu May 1 02:15:06 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: release/3.4.2
Fixed revision on user guide

Revision 4924 - Directory Listing
Modified Wed Apr 30 23:27:04 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: release/3.4.2
disabling release use of fast assemblers by default

Revision 4923 - Directory Listing
Modified Wed Apr 30 23:10:27 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: release/3.4.2
3.4.1 -> 3.4.2


Revision 4922 - Directory Listing
Modified Wed Apr 30 23:06:46 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: release/3.4.2
updating release docs to show release

Revision 4921 - Directory Listing
Modified Wed Apr 30 23:06:32 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: release/3.4.2
Applying Cihans r4920

Revision 4919 - Directory Listing
Modified Wed Apr 30 06:25:55 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: release/3.4.2
Copied from: trunk revision 4918
Because we've got to!


Revision 4918 - Directory Listing
Modified Wed Apr 30 06:20:47 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: trunk
instructions for FreeBSD 10.0


Revision 4917 - Directory Listing
Modified Wed Apr 30 05:58:08 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: trunk
export LD_PRELOAD for tests.
added freebsd 10.0 options file.


Revision 4916 - Directory Listing
Modified Wed Apr 30 05:30:36 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
updating deb changelog

Revision 4915 - Directory Listing
Modified Wed Apr 30 05:29:23 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: trunk
Fixes for macports

Revision 4914 - Directory Listing
Modified Wed Apr 30 04:58:45 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
removing spare 'as'


Revision 4913 - Directory Listing
Modified Wed Apr 30 04:57:21 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: trunk
Reorder homebrew install

Revision 4912 - Directory Listing
Modified Wed Apr 30 04:57:01 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
update to comments and fixing of docstring


Revision 4911 - Directory Listing
Modified Wed Apr 30 04:43:23 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: trunk
fix unused var

Revision 4910 - Directory Listing
Modified Wed Apr 30 02:21:59 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
fix docstring error


Revision 4909 - Directory Listing
Modified Wed Apr 30 01:20:22 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: trunk
Fixed Wunused-functions picked up by g++ 4.9


Revision 4908 - Directory Listing
Modified Wed Apr 30 00:24:38 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
removing runmodel from /bin given it doesn't have x-permissions

Revision 4907 - Directory Listing
Modified Tue Apr 29 12:58:43 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
fix docstring indentation isssue for accousticwaveform


Revision 4906 - Directory Listing
Modified Tue Apr 29 05:27:34 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
restoring lost changes

Revision 4905 - Directory Listing
Modified Tue Apr 29 05:16:13 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
updated install doc


Revision 4904 - Directory Listing
Modified Tue Apr 29 04:40:30 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
removing test print


Revision 4903 - Directory Listing
Modified Tue Apr 29 04:12:59 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
updates for centos 6.5 install instructions


Revision 4902 - Directory Listing
Modified Tue Apr 29 04:07:28 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
add centos 6.5 scons option file.

Revision 4901 - Directory Listing
Modified Tue Apr 29 03:55:00 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: trunk
Updated info about macos commandline tools to note existance of xcodebuild command.


Revision 4900 - Directory Listing
Modified Tue Apr 29 01:44:02 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
update sympy version check


Revision 4899 - Directory Listing
Modified Tue Apr 29 01:42:23 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
sympy version check


Revision 4898 - Directory Listing
Modified Tue Apr 29 01:03:58 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
sympy version check


Revision 4897 - Directory Listing
Modified Tue Apr 29 00:43:58 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
sympy version check


Revision 4896 - Directory Listing
Modified Tue Apr 29 00:35:22 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: trunk
Added missing backslash
Corrected spelling mistake


Revision 4895 - Directory Listing
Modified Tue Apr 29 00:21:43 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
affected tests now skipped if pyproj not installed

Revision 4894 - Directory Listing
Modified Mon Apr 28 04:28:28 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
adding options for fedora 20, only changes boost_python-mt for now

Revision 4893 - Directory Listing
Modified Mon Apr 28 04:03:41 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: trunk
typo


Revision 4892 - Directory Listing
Modified Mon Apr 28 03:30:29 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: trunk
scaled down grav_netcdf test...


Revision 4891 - Directory Listing
Modified Mon Apr 28 03:20:38 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: trunk
some changes to user guide.


Revision 4890 - Directory Listing
Modified Mon Apr 28 01:24:21 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
added suggestion to copy options file from os directory.


Revision 4889 - Directory Listing
Modified Mon Apr 28 01:17:41 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
Updated warning message when no options file is provided


Revision 4888 - Directory Listing
Modified Mon Apr 28 00:52:20 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: trunk
Removing manual pagebreaks

Revision 4887 - Directory Listing
Modified Mon Apr 28 00:34:35 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
Minor updates


Revision 4886 - Directory Listing
Modified Sun Apr 27 13:12:23 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
rewording and checking


Revision 4885 - Directory Listing
Modified Sun Apr 27 11:48:36 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
Small changes


Revision 4884 - Directory Listing
Modified Thu Apr 24 04:47:39 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
this file is added so that we can import Symbolic by doing:
    import esys.escript.symbolic as symb instead of 
    import esys.escriptcore.symbolic as symb

the one line containined in the file is on line five for reasons prettiness



Revision 4883 - Directory Listing
Modified Thu Apr 24 00:00:33 2014 UTC (3 years, 7 months ago) by jfenwick
Original Path: trunk
Updated changes list and sorted dev lists


Revision 4882 - Directory Listing
Modified Wed Apr 23 14:54:26 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
fixing small errors


Revision 4881 - Directory Listing
Modified Wed Apr 23 14:20:28 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
grammar, spelling and formating changes.


Revision 4880 - Directory Listing
Modified Wed Apr 23 06:10:16 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
added sympy to bib and making small grammar, spelling and style changes.


Revision 4879 - Directory Listing
Modified Wed Apr 23 00:50:36 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
symbolic part of user guide nearly complete


Revision 4878 - Directory Listing
Modified Wed Apr 23 00:49:10 2014 UTC (3 years, 7 months ago) by jduplessis
Original Path: trunk
adding figures for symbolic part of user guide.


Revision 4877 - Directory Listing
Modified Tue Apr 22 07:24:32 2014 UTC (3 years, 7 months ago) by caltinay
Original Path: trunk
new intel cc,mkl & mpi on savanna.


Revision 4876 - Directory Listing
Modified Tue Apr 22 05:43:36 2014 UTC (3 years, 7 months ago) by sshaw
Original Path: trunk
fixing package requirements for ubuntu trusty packages

Revision 4875 - Directory Listing
Modified Thu Apr 17 06:14:54 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Updated changelog

Revision 4874 - Directory Listing
Modified Thu Apr 17 01:13:10 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
fixed ripley dirac test for multiple ranks and added protections against MPI causing problems due to premature exits by some ranks

Revision 4873 - Directory Listing
Modified Wed Apr 16 06:38:51 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
whitespace only changes.


Revision 4872 - Directory Listing
Modified Wed Apr 16 06:08:06 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
adding dirac point interpolation tests for ripley, all ranks will be used in subdividing each axis in turn

Revision 4871 - Directory Listing
Modified Wed Apr 16 05:28:27 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
changed symconsts to symconsts to fit the rest of escript 


Revision 4870 - Directory Listing
Modified Mon Apr 14 10:50:41 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Q: ...so what does this papi flag do?
A: darn, you got me.
[now it prints errors with the papi version shipped with debian, hooray]


Revision 4869 - Directory Listing
Modified Mon Apr 14 10:39:22 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
all of paso now lives in its own namespace.


Revision 4868 - Directory Listing
Modified Sat Apr 12 01:50:15 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
don't report an error when there isn't one.....


Revision 4867 - Directory Listing
Modified Fri Apr 11 12:29:49 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
paso: starting to polish


Revision 4866 - Directory Listing
Modified Fri Apr 11 03:28:35 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Remove reference to epydoc documentation from doxygen (since our debian doc package uses sphinx).


Revision 4865 - Directory Listing
Modified Fri Apr 11 02:38:11 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
bringing doxygen reported version number up to date

Revision 4864 - Directory Listing
Modified Fri Apr 11 02:04:18 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
fixing mkl build.


Revision 4863 - Directory Listing
Modified Thu Apr 10 06:24:55 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
cleansing


Revision 4862 - Directory Listing
Modified Thu Apr 10 05:35:56 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
removing leftover debug prints

Revision 4861 - Directory Listing
Modified Thu Apr 10 05:17:47 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
added exception for domain sizes that cause integer overflows

Revision 4860 - Directory Listing
Modified Thu Apr 10 04:08:42 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
wrapping resize exceptions for overly large domains (previous message to user was: 'RuntimeError: vector::_M_fill_insert')

Revision 4859 - Directory Listing
Modified Thu Apr 10 00:23:29 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Avoid division by zero


Revision 4858 - Directory Listing
Modified Wed Apr 9 23:34:17 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
skipping multirank segywriter tests now that multirank writes throw exceptions

Revision 4857 - Directory Listing
Modified Wed Apr 9 06:54:59 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
modified atoms code that when type is set to escript.Symbol, sympy.symbol get added to the type list. This is because escript.symbols are represented by sympy symbols in the _arr list


Revision 4856 - Directory Listing
Modified Wed Apr 9 06:46:55 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
some mopping in paso


Revision 4855 - Directory Listing
Modified Wed Apr 9 06:19:59 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
removing leftover python solveroptions

Revision 4854 - Directory Listing
Modified Wed Apr 9 06:17:09 2014 UTC (3 years, 8 months ago) by gross
Original Path: trunk
FWI is running

Revision 4853 - Directory Listing
Modified Wed Apr 9 05:41:57 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Added import division and changed a few / to //


Revision 4852 - Directory Listing
Modified Wed Apr 9 03:58:08 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
paso util sweep


Revision 4851 - Directory Listing
Modified Wed Apr 9 03:30:36 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
added exceptions to ripley for more informative deaths to negative element counts

Revision 4850 - Directory Listing
Modified Wed Apr 9 02:26:22 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
adding exception for multi-rank segy write instead of failing to write correctly and reporting success

Revision 4849 - Directory Listing
Modified Wed Apr 9 02:14:58 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
More vacuuming.


Revision 4848 - Directory Listing
Modified Wed Apr 9 00:26:32 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
lots of future print_function

Revision 4847 - Directory Listing
Modified Wed Apr 9 00:11:55 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
fixed awkard integer division in LinearMapping (py3 unaffected)

Revision 4846 - Directory Listing
Modified Tue Apr 8 23:55:38 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
paso::Options.


Revision 4845 - Directory Listing
Modified Tue Apr 8 11:35:27 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
I fink I broke it - now I thixed it.


Revision 4844 - Directory Listing
Modified Tue Apr 8 07:56:52 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Removing MPIInfo from pythonMPI

Revision 4843 - Directory Listing
Modified Tue Apr 8 05:32:07 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
checkpointing paso::Preconditioner.


Revision 4842 - Directory Listing
Modified Tue Apr 8 04:50:05 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
Removing variational problem as it will not be part of the release


Revision 4841 - Directory Listing
Modified Tue Apr 8 03:49:18 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
keeping older compilers happy

Revision 4840 - Directory Listing
Modified Tue Apr 8 03:24:47 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
scons options for trusty

Revision 4839 - Directory Listing
Modified Tue Apr 8 03:14:23 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Adding initial support for ubuntu trusty

Revision 4838 - Directory Listing
Modified Mon Apr 7 10:16:21 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Fixing non-mpi build.


Revision 4837 - Directory Listing
Modified Mon Apr 7 05:59:24 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
added test for evalf


Revision 4836 - Directory Listing
Modified Mon Apr 7 05:51:55 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
"Some" SystemMatrix clean up.....


Revision 4835 - Directory Listing
Modified Mon Apr 7 04:29:20 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
removing unused MIS


Revision 4834 - Directory Listing
Modified Mon Apr 7 00:32:14 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Added Jaco


Revision 4833 - Directory Listing
Modified Sun Apr 6 23:30:34 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Adding missing names.



Revision 4832 - Directory Listing
Modified Fri Apr 4 05:03:45 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
some incredibly long lines are now much, much nicer to read/wrap

Revision 4831 - Directory Listing
Modified Fri Apr 4 02:42:52 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
fixing MKL compile.


Revision 4830 - Directory Listing
Modified Thu Apr 3 04:45:06 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Removed obsolete file, reverted verbosity of test and a bit more cleanup.


Revision 4829 - Directory Listing
Modified Thu Apr 3 04:02:53 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
checkpointing some SparseMatrix cleanup.


Revision 4828 - Directory Listing
Modified Wed Apr 2 07:01:38 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
more tightly constrained checks on types and lengths of dirac points and tags in ripley python constructors

Revision 4827 - Directory Listing
Modified Wed Apr 2 07:00:15 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
dropping out of domain dirac points for ripley Brick as well

Revision 4826 - Directory Listing
Modified Wed Apr 2 03:54:18 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
changing ripley to drop dirac points outside domain rather than try to map them, matches finley behaviour

Revision 4825 - Directory Listing
Modified Wed Apr 2 03:53:23 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Addresses issue 241

Revision 4824 - Directory Listing
Modified Tue Apr 1 06:40:19 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
fixed sillyness with serial builds reporting as MPI

Revision 4823 - Directory Listing
Modified Tue Apr 1 05:46:07 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
SolverBuddy documentation changes from old python docstrings to doxygen format

Revision 4822 - Directory Listing
Modified Tue Apr 1 05:05:45 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
now with all required files at no extra cost

Revision 4821 - Directory Listing
Modified Tue Apr 1 04:58:33 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
moved SolverOptions to c++, split into SolverOptions for the options and SolverBuddy as the state as a precursor to per-pde solving... does break some use cases (e.g. pde.getSolverOptions().DIRECT will now fail, new value access is with SolverOptions.DIRECT), examples and documentation updated to match

Revision 4820 - Directory Listing
Modified Tue Apr 1 04:55:49 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
allowing for larger amounts of variable tracking with debug=true (mostly for escriptcpp.cpp)

Revision 4819 - Directory Listing
Modified Tue Apr 1 03:50:23 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Pattern shared ptrs


Revision 4818 - Directory Listing
Modified Mon Mar 31 00:16:20 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
SystemMatrixPattern shptr


Revision 4817 - Directory Listing
Modified Fri Mar 28 08:04:09 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Coupler/Connector shared ptrs.


Revision 4816 - Directory Listing
Modified Fri Mar 28 06:16:02 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
paso::SharedComponents now header-only and shared ptr managed.


Revision 4815 - Directory Listing
Modified Fri Mar 28 05:25:56 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
replacing awful config file debugthing

Revision 4814 - Directory Listing
Modified Fri Mar 28 04:31:02 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
paso::Distribution instances are now managed by a boost::shared_ptr, methods
are all inline.


Revision 4811 - Directory Listing
Modified Thu Mar 27 07:00:46 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
moving away from shared pointers in domain components

Revision 4810 - Directory Listing
Modified Thu Mar 27 07:00:30 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Removed some obsolete checkPtr's. More to come...


Revision 4809 - Directory Listing
Modified Thu Mar 27 05:52:41 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Removed code duplication and moved IndexList to esysUtils header only.
Renamed AML.cpp which is old,unused code.


Revision 4807 - Directory Listing
Modified Thu Mar 27 04:49:38 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
2 fixes to dirac points which fixes #240.


Revision 4806 - Directory Listing
Modified Thu Mar 27 03:03:13 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
fixed fetch error in type collation for lame assembler

Revision 4805 - Directory Listing
Modified Thu Mar 27 01:31:59 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
changing 2D wave assembler to use shared domain pointer

Revision 4803 - Directory Listing
Modified Wed Mar 26 06:52:28 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Removed obsolete wrappers for malloc and friends.
Paso_Pattern -> paso::Pattern


Revision 4801 - Directory Listing
Modified Wed Mar 26 03:26:58 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
paso::Coupler and paso::Connector.


Revision 4800 - Directory Listing
Modified Wed Mar 26 01:50:04 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
paso::SystemMatrixPattern


Revision 4799 - Directory Listing
Modified Wed Mar 26 00:37:59 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
storing the code generators for the relevant chunks of the lame assembler

Revision 4798 - Directory Listing
Modified Tue Mar 25 22:08:30 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
added missing const.


Revision 4797 - Directory Listing
Modified Mon Mar 24 05:42:42 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
put SparseMatrix into paso namespace, accompanied by minor code cleanup.


Revision 4795 - Directory Listing
Modified Mon Mar 24 01:50:32 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
code cleanup of paso::SparseMatrix_MatrixVector and variants.
Mostly a no-op.


Revision 4794 - Directory Listing
Modified Mon Mar 24 01:01:30 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
adding symbolic to user guide, work in progress


Revision 4793 - Directory Listing
Modified Fri Mar 21 06:44:26 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
changed 'dict_keys' object to list so that it can be indexed

Revision 4792 - Directory Listing
Modified Fri Mar 21 05:06:11 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
make escriptcore/ visible

Revision 4791 - Directory Listing
Modified Fri Mar 21 03:32:56 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
changed has_key to in for python 3

Revision 4789 - Directory Listing
Modified Fri Mar 21 00:30:32 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
changing more awkward logic into more obvious (and correct, though i doubt a negative length ever happens) logic

Revision 4788 - Directory Listing
Modified Fri Mar 21 00:11:09 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
fixed a broken numerical comparison

Revision 4787 - Directory Listing
Modified Fri Mar 21 00:08:15 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
changed header guard definition to match header guard check

Revision 4786 - Directory Listing
Modified Thu Mar 20 23:53:44 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
fixed silly naming issue

Revision 4783 - Directory Listing
Modified Thu Mar 20 06:23:23 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
refactored linearPDE tests (removing repetition)

Revision 4782 - Directory Listing
Modified Thu Mar 20 05:16:16 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
cleaned up and simplified run_seismic tests, including specific checking for obspy not being installed

Revision 4781 - Directory Listing
Modified Thu Mar 20 04:57:07 2014 UTC (3 years, 8 months ago) by jduplessis
Original Path: trunk
added test for preservation of data substitutions

Revision 4780 - Directory Listing
Modified Thu Mar 20 03:19:54 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
fixing a race condition in file tests

Revision 4779 - Directory Listing
Modified Thu Mar 20 01:52:49 2014 UTC (3 years, 8 months ago) by jfenwick
Original Path: trunk
Temporarily adjusting magic numbers

Revision 4778 - Directory Listing
Modified Thu Mar 20 00:41:58 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
python3ified tests using deprecated test methods ( #89 and #106 ), added run_seismic into downunder tests (with skips if obspy/segywriters fail to write)

Revision 4777 - Directory Listing
Modified Wed Mar 19 23:52:36 2014 UTC (3 years, 8 months ago) by sshaw
Original Path: trunk
replacing xrange with range for python3 compatibility, refs #106

Revision 4776 - Directory Listing
Modified Wed Mar 19 23:31:00 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Removed some superfluous checks and typos.


Revision 4775 - Directory Listing
Modified Wed Mar 19 23:12:53 2014 UTC (3 years, 8 months ago) by caltinay
Original Path: trunk
Moved matrix format exception further up the stack which fixes #109.
Also, removed default defines CORE_ID1 and BLOCKTIMER, added the former to
savanna's options.


Revision 4772 - Directory Listing
Modified Wed Mar 19 04:28:53 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
removing ridiculous remaining return

Revision 4771 - Directory Listing
Modified Wed Mar 19 04:22:37 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
fixed multiple ranks trying to unlink tempfiles

Revision 4770 - Directory Listing
Modified Wed Mar 19 03:48:43 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
relevant tests skipped if not built with USE_BOOSTIO

Revision 4769 - Directory Listing
Modified Wed Mar 19 03:43:52 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
added missing ifdefs for library presence

Revision 4768 - Directory Listing
Modified Wed Mar 19 02:51:33 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Removed commented for loops


Revision 4767 - Directory Listing
Modified Wed Mar 19 02:48:33 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Major issues with subs and data objects have been rectified. subs was also not working properly for symbol to symbol substitutions this has been rectified.


Revision 4766 - Directory Listing
Modified Wed Mar 19 00:57:21 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
allowed custom assemblers a value tolerance in tests (for case of 0 to 1 in objects, tolerance of 1e-8)

Revision 4765 - Directory Listing
Modified Wed Mar 19 00:17:16 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
added ripley rectangle reading from compressed files, added unit tests for binaryGrid reads and writes (only single ranks for compressed thus far) (#104)

Revision 4764 - Directory Listing
Modified Tue Mar 18 15:58:21 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
mapping test fixed

Revision 4761 - Directory Listing
Modified Tue Mar 18 00:25:55 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
fixed partially overridden class warnings with intel compiler

Revision 4760 - Directory Listing
Modified Mon Mar 17 23:48:37 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
moved functionspace type collation from RipleyDomain into custom assemblers, refs #102

Revision 4759 - Directory Listing
Modified Mon Mar 17 07:52:26 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Throw TypeError on any attempt to use relational ops on Data, FunctionSpace and Domain.  Also fixes a type error in run_mappings.py but the test still fails.

Revision 4758 - Directory Listing
Modified Mon Mar 17 05:00:27 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
fixed classname typo for AcousticVelocityMapping, added exceptions for ordered comparisons with Data objects from python (#107)

Revision 4755 - Directory Listing
Modified Mon Mar 17 02:58:52 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
added conflict test for ripley Brick

Revision 4754 - Directory Listing
Modified Mon Mar 17 02:51:12 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
now with 0% missing files!

Revision 4753 - Directory Listing
Modified Mon Mar 17 02:39:44 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
added exceptions for conflicting assembler types, added tests for lame assemblers

Revision 4751 - Directory Listing
Modified Fri Mar 14 06:49:06 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
completed LameAssemblers

Revision 4749 - Directory Listing
Modified Fri Mar 14 03:05:07 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
making inversioncostfunctions python3 compatible

Revision 4748 - Directory Listing
Modified Fri Mar 14 00:30:51 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
adjusted InversionCostFunction tests to run on arbitrary numbers of ranks

Revision 4744 - Directory Listing
Modified Wed Mar 12 21:30:10 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
first version of a FWI

Revision 4743 - Directory Listing
Modified Wed Mar 12 21:09:20 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
mapping for FWI added

Revision 4742 - Directory Listing
Modified Wed Mar 12 07:21:24 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
updated setitem and getitem to preserve data substitutions


Revision 4741 - Directory Listing
Modified Wed Mar 12 03:31:10 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Fix scoping because my compiler complained. g++4.8 thing?

Revision 4740 - Directory Listing
Modified Wed Mar 12 03:26:13 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
exporting compression support to buildvars

Revision 4739 - Directory Listing
Modified Wed Mar 12 03:25:32 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
fixing test file filename mismatch

Revision 4738 - Directory Listing
Modified Wed Mar 12 01:32:36 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
adding support for reading binary grids from gzip compressed binary files, ripley brick only so far

Revision 4737 - Directory Listing
Modified Tue Mar 11 13:23:21 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
missing file

Revision 4735 - Directory Listing
Modified Mon Mar 10 07:44:58 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
fixing/completing 2D lame assembler


Revision 4733 - Directory Listing
Modified Mon Mar 10 05:57:11 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
added a check to only get data substitutions on symbols


Revision 4729 - Directory Listing
Modified Sat Mar 8 00:56:37 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
a more general for of the inversioncostfunction has required for waveform inversin

Revision 4728 - Directory Listing
Modified Fri Mar 7 05:29:06 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
renamed

Revision 4727 - Directory Listing
Modified Fri Mar 7 05:28:12 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
added an optional evalf input to the evaluator, without this constants such as pi etc wont get evaluated. and renamed constants symconstants


Revision 4726 - Directory Listing
Modified Fri Mar 7 00:23:44 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
Added a success/fail line below config in build process ( redmine #26 )

Revision 4723 - Directory Listing
Modified Wed Mar 5 05:40:25 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
fixed presenservation of data objects(data substitutions) when subs is called on a symbol



Revision 4722 - Directory Listing
Modified Wed Mar 5 05:29:25 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
vastly decreased ripley domain setup time under MPI (approximately from O(n*m) to O(n+m), n being shared nodes, m being the rank DOF)

Revision 4721 - Directory Listing
Modified Fri Feb 28 03:51:07 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Fixing strange casts.
Removed old methods.


Revision 4720 - Directory Listing
Modified Fri Feb 28 01:38:09 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
ripley now tested with lame, helmholtz and nolumping linear PDEs

Revision 4719 - Directory Listing
Modified Fri Feb 28 00:27:29 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Modify run_forward test to account for small negative results.

Revision 4718 - Directory Listing
Modified Thu Feb 27 23:43:12 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
Added a missed include guard


Revision 4717 - Directory Listing
Modified Thu Feb 27 12:30:04 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Fix copy error from 3d down to 2d.



Revision 4716 - Directory Listing
Modified Thu Feb 27 11:02:55 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Fixed some bad indenting.
Skip non-linear tests if sympy is not available.



Revision 4715 - Directory Listing
Modified Thu Feb 27 07:57:45 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Fixing print statement

Revision 4714 - Directory Listing
Modified Thu Feb 27 05:04:15 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
made non-linearPDE tests on ripley work with any number of ranks

Revision 4713 - Directory Listing
Modified Thu Feb 27 02:00:15 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Added a temporay fix to get some of the unit tests passing again.
This mechanism will be removed before the release so don't get used to it.

Revision 4712 - Directory Listing
Modified Wed Feb 26 04:08:41 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
adding skeleton of fast Lame assemblers
adjusted automatic ripley domain subdivision ( should solve issue #94 )
more tab->space conversions


Revision 4711 - Directory Listing
Modified Tue Feb 25 00:04:04 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Another try at this test.



Revision 4710 - Directory Listing
Modified Mon Feb 24 03:41:06 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Fixing not enough elements for small numbers of ranks in test

Revision 4709 - Directory Listing
Modified Mon Feb 24 01:31:00 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Failed to take ripley padding into account when constructing tests.



Revision 4708 - Directory Listing
Modified Fri Feb 21 03:08:05 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Removed rotation from ydirection test


Revision 4707 - Directory Listing
Modified Fri Feb 21 03:07:09 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Modified domain in tests


Revision 4706 - Directory Listing
Modified Fri Feb 21 02:39:58 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Some additional cleanup I missed


Revision 4705 - Directory Listing
Modified Fri Feb 21 02:36:15 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Set the randomfill back to generating randoms and updated doco to tell people how to use it.


Revision 4704 - Directory Listing
Modified Fri Feb 21 01:11:30 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
added modification

double *F_p=NULL;
if(!p.F.isEmpty()) {
	p.F.requireWrite();
        F_p=p.F.getSampleDataRW(0);     
}

to all files such they will not operate on an empty F.

 


Revision 4703 - Directory Listing
Modified Fri Feb 21 00:55:31 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
This version has been tested in some detail. It does not actually do randoms though (since that wrecks the testing).  In will do a commit soon which puts the randomness back

Revision 4702 - Directory Listing
Modified Thu Feb 20 06:36:00 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
updated test_yDirection fixed a couple of small bugs


Revision 4701 - Directory Listing
Modified Thu Feb 20 06:32:12 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Put in a check to make sure F is not used when empty. This prevents an exception.


Revision 4700 - Directory Listing
Modified Thu Feb 20 03:57:17 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
some more work toward seismic data

Revision 4699 - Directory Listing
Modified Wed Feb 19 09:31:45 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Added test when adding incorrect Dim And Shape, for tryin to set Unknown Perameter and a test to make sure the definition of y is correct




Revision 4698 - Directory Listing
Modified Wed Feb 19 08:10:12 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
data sources support tags now

Revision 4697 - Directory Listing
Modified Wed Feb 19 08:03:56 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
data sources support tags now

Revision 4696 - Directory Listing
Modified Wed Feb 19 07:29:50 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Correcting python libname for sage.
Fixing bug where the number of values in the shape was not considered for buffer and message size.


Revision 4695 - Directory Listing
Modified Wed Feb 19 06:58:41 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
added warning output when saving as silo but not built with silo support (redmine #87 )

Revision 4694 - Directory Listing
Modified Wed Feb 19 06:25:55 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
fixed __getitem__ such that the symbol it return will have the same dimentionality as its parent symbol


Revision 4693 - Directory Listing
Modified Wed Feb 19 06:04:28 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
adding HTI support to 3D wave assembler

Revision 4692 - Directory Listing
Modified Wed Feb 19 05:26:55 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
fixed duplication for 2D constant data in wave assembler

Revision 4691 - Directory Listing
Modified Wed Feb 19 05:23:17 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
added support for HTI waves to the fast wave assembler

Revision 4690 - Directory Listing
Modified Wed Feb 19 05:22:16 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
adjusting porcupine config to use MPI by default

Revision 4689 - Directory Listing
Modified Wed Feb 19 05:13:17 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Give the unit test enough room


Revision 4688 - Directory Listing
Modified Wed Feb 19 03:18:58 2014 UTC (3 years, 9 months ago) by gross
Original Path: trunk
acoustic forward problem + testing add

Revision 4687 - Directory Listing
Modified Wed Feb 19 00:03:29 2014 UTC (3 years, 9 months ago) by jfenwick
Original Path: trunk
Remove randomFill python method from ripley domains.
All random data objects (for all domain types) should be generated 
using esys.escript.RandomData()

The only filtered random we have is gaussian on ripley but
it is triggered by passing the tuple as the last arg of RandomData().

While the interface is a bit more complicated (in that you always need
 to pass in shape and functionspace) it does mean we have a 
common interface for all domains. 

Removed randomFill from DataExpanded.
The reasoning behind this is to force domains to call the util function
themselves and enforce whatever consistancy requirements they have.

Added version of blocktools to deal with 2D case in Ripley.
Use blocktools for the 2D transfers [This was cleaner than modifying the
previous implementation to deal with variable shaped points].

Note that under MPI, ripley can not generate random data (even unfiltered)
if any of its per rank dimensions is <4 elements on any side.

Unit tests for these calls are in but some extra checks still needed.




Revision 4686 - Directory Listing
Modified Tue Feb 18 06:04:13 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
modified nonlinearPDE to be compatible with python 3.


Revision 4685 - Directory Listing
Modified Tue Feb 18 04:19:27 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Replaced python dictionary iteritems with item for python 3.0 compatibility


Revision 4684 - Directory Listing
Modified Tue Feb 18 01:17:02 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Removing Finley mesh import which was copied from run_linearPdeOnFinley... as it is not used.


Revision 4683 - Directory Listing
Modified Mon Feb 17 07:03:40 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
adding nonlinearpde test for ripley.


Revision 4682 - Directory Listing
Modified Mon Feb 17 05:24:14 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk


Revision 4681 - Directory Listing
Modified Mon Feb 17 04:05:11 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk


Revision 4680 - Directory Listing
Modified Mon Feb 17 04:04:40 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
changed name


Revision 4679 - Directory Listing
Modified Mon Feb 17 04:02:56 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Changed name


Revision 4678 - Directory Listing
Modified Mon Feb 17 03:35:08 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
adding ripley test for nlpde


Revision 4677 - Directory Listing
Modified Mon Feb 17 02:49:59 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
adding nlpde tests


Revision 4676 - Directory Listing
Modified Mon Feb 17 02:41:15 2014 UTC (3 years, 9 months ago) by jduplessis
Original Path: trunk
Unit test for nonlinear pde. 
test that it can generate a solution without error and that the appropriate coefficients are generated when setValue is called. 



Revision 4675 - Directory Listing
Modified Mon Feb 17 01:07:12 2014 UTC (3 years, 9 months ago) by sshaw
Original Path: trunk
expanded tab chars for consistentcy and removed trailing whitespace

Revision 4674 - Directory Listing
Modified Thu Feb 13 23:47:04 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Not using GNU only getopt arguments

Revision 4673 - Directory Listing
Modified Thu Feb 13 08:14:11 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Ammended install doco for OSX

Revision 4672 - Directory Listing
Modified Thu Feb 13 01:10:29 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
compacted older style C comparison structure

Revision 4671 - Directory Listing
Modified Thu Feb 13 00:18:10 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Fixed another comparator which wasn't strict


Revision 4670 - Directory Listing
Modified Wed Feb 12 08:24:31 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Correcting comparator function so it acts as < rather than <=

Revision 4669 - Directory Listing
Modified Tue Feb 11 06:10:27 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Replacing .eps figures in user guide with their pdf versions.
If you are creating new figures, then please don't use .eps



Revision 4668 - Directory Listing
Modified Tue Feb 11 03:44:10 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Improvements but still needs more validation


Revision 4667 - Directory Listing
Modified Tue Feb 11 00:47:26 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
adjusted launcher to run efficiently/properly on raijin

Revision 4666 - Directory Listing
Modified Mon Feb 10 03:33:51 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
check in util no longer necassary due to wrappings in contants.py


Revision 4665 - Directory Listing
Modified Mon Feb 10 03:29:02 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
This should help running on raijin without damaging anything.


Revision 4664 - Directory Listing
Modified Mon Feb 10 01:57:11 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
Trying to make the shell on osx happy.


Revision 4663 - Directory Listing
Modified Mon Feb 10 00:48:49 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
Adding wrapper for Symbolic constants such as pi
usage:
	symconsts.pi  ---> gives escript Symbol(sympy.pi)



Revision 4662 - Directory Listing
Modified Sun Feb 9 23:03:45 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
Cater for changed interface in sympy 0.7.2.
Also silenced a harmless warning.


Revision 4661 - Directory Listing
Modified Fri Feb 7 03:10:15 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
more informative exception for unsupported error message

Revision 4660 - Directory Listing
Modified Fri Feb 7 03:08:49 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
fixed dirac point->node mapping issues in ripley when using mpi

Revision 4659 - Directory Listing
Modified Fri Feb 7 00:13:47 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
New solution to cos(sympy.pi). This solution help to keep sympy optional in escript and provides the desired functionality.


Revision 4658 - Directory Listing
Modified Thu Feb 6 13:28:56 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
This seems to fix #65 but is a bit scary.
netcdf and gdal (and others?) seem to return bytearrays instead of strings in
py3, which when fed back into a library function caused a segfault.
Not sure if I caught every case and whether this is actually a bug in the lib...


Revision 4657 - Directory Listing
Modified Thu Feb 6 06:12:20 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
I changed some files.
Updated copyright notices, added GeoComp.




Revision 4656 - Directory Listing
Modified Thu Feb 6 05:12:01 2014 UTC (3 years, 10 months ago) by gross
Original Path: trunk
removed unwanted table

Revision 4655 - Directory Listing
Modified Thu Feb 6 04:15:42 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Reverting r4654

Revision 4654 - Directory Listing
Modified Wed Feb 5 06:55:35 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
Modified some of the util function so that they will operate with general sympy objects such as pi.

This is usefull when you want to do 

sin(pi) or cos(pi) for example 

where pi is a sympy object.



Revision 4653 - Directory Listing
Modified Wed Feb 5 05:20:41 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Made index chars unsigned to prevent warnings

Revision 4652 - Directory Listing
Modified Wed Feb 5 05:15:07 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Made index chars unsigned to prevent warnings

Revision 4651 - Directory Listing
Modified Wed Feb 5 05:00:34 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Fixed missing include

Revision 4650 - Directory Listing
Modified Wed Feb 5 04:16:01 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Fixed a spelling error and missing virtual (not sure that one matters).
Added _untested_ 3D gaussian smoothed random data



Revision 4649 - Directory Listing
Modified Wed Feb 5 02:09:21 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
Forgot something...


Revision 4648 - Directory Listing
Modified Wed Feb 5 02:03:08 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
Fix segfault reported in #57.


Revision 4647 - Directory Listing
Modified Mon Feb 3 03:29:43 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
Commiting to make sure line 309 doesn't contain print len(u_syms)\n


Revision 4646 - Directory Listing
Modified Mon Feb 3 00:25:58 2014 UTC (3 years, 10 months ago) by gross
Original Path: trunk
some extensions to synthetic_sonicHTI.py

Revision 4645 - Directory Listing
Modified Mon Feb 3 00:06:24 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
further optimisation of wave assemblers, added support for constant data

Revision 4644 - Directory Listing
Modified Mon Feb 3 00:03:52 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
fixed indent errors in coalgas, added future print import to seismic_wave, since it was using py3 style prints

Revision 4643 - Directory Listing
Modified Sun Feb 2 23:52:38 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
fixed some error message formatting interpreting tuples badly

Revision 4642 - Directory Listing
Modified Fri Jan 31 02:16:45 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Renamed the default options file to make it clear that it was used for g++.
There is now no default mole options file.
This is deliberate. You need to configure your environment based on the compiler you wish to use. (See scripts in /usr/local/env).

If you are doing a lot of building, symlink your chosen file to scons/mole_options.py. DO NOT COMMIT it though.



Revision 4641 - Directory Listing
Modified Fri Jan 31 02:13:47 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
line 966 

	"if not args.has_key(n): args[n]=Data()" was changed to "if not args.has_key(n) and not constants.has_key(n): args[n]=Data()".

also added: 

	args=dict(args.items()+constants.items())

to merge the two dictionaries.



Revision 4640 - Directory Listing
Modified Fri Jan 31 00:56:51 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Ensure that DYLD_LIBRARY_PATH is passed into scons.
Update mole_options to work with g++
(To get this to work, you will need to set up your env vars).



Revision 4639 - Directory Listing
Modified Thu Jan 30 06:43:03 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
They should be equivalent but just in case ! ==  is treated differently to !=

Revision 4638 - Directory Listing
Modified Thu Jan 30 06:25:10 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Fixes necessary to get a clang/macports build working on 10.9

Revision 4637 - Directory Listing
Modified Thu Jan 30 00:01:47 2014 UTC (3 years, 10 months ago) by gross
Original Path: trunk
TTI fixes

Revision 4636 - Directory Listing
Modified Tue Jan 28 04:24:30 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
fixed more whitespace issues


Revision 4635 - Directory Listing
Modified Tue Jan 28 03:34:04 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
fixed mixed tabs/spaces for python 3 compatibility

Revision 4634 - Directory Listing
Modified Tue Jan 28 03:33:03 2014 UTC (3 years, 10 months ago) by jfenwick
Original Path: trunk
Fixes to keep clang happy

Revision 4633 - Directory Listing
Modified Tue Jan 28 01:04:17 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
Fixed failure for lazy data when interpolating.


Revision 4632 - Directory Listing
Modified Tue Jan 28 00:22:53 2014 UTC (3 years, 10 months ago) by gross
Original Path: trunk
missing file

Revision 4631 - Directory Listing
Modified Fri Jan 24 04:13:56 2014 UTC (3 years, 10 months ago) by gross
Original Path: trunk
2d TTI added

Revision 4630 - Directory Listing
Modified Fri Jan 24 03:32:11 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
fixed a leftover from testin gin seismic, changed synthetic_VTI example back to original large 2D problem

Revision 4629 - Directory Listing
Modified Fri Jan 24 03:29:25 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
added dirac point interpolation to ripley (and fixed dirac points in Brick)
added fast wave assembler for Brick and minor correction to fast wave assembler for Rectangle


Revision 4628 - Directory Listing
Modified Fri Jan 24 02:09:19 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
Modifying nonlinearPDE.py comments to make the meaning clearer


Revision 4627 - Directory Listing
Modified Fri Jan 24 01:53:33 2014 UTC (3 years, 10 months ago) by jduplessis
Original Path: trunk
fixing error in comment


Revision 4626 - Directory Listing
Modified Wed Jan 22 06:07:34 2014 UTC (3 years, 10 months ago) by caltinay
Original Path: trunk
Eliminated all const_cast<Data*> hacks in ripley and finley now that
Data.getSampleDataRO returns a const pointer.


Revision 4625 - Directory Listing
Modified Mon Jan 20 03:42:55 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
amalgamated waveassembler constant construction into the one place

Revision 4624 - Directory Listing
Modified Sun Jan 19 23:03:59 2014 UTC (3 years, 10 months ago) by sshaw
Original Path: trunk
removed some leftover debug prints

Revision 4623 - Directory Listing
Modified Fri Jan 17 05:53:17 2014 UTC (3 years, 11 months ago) by sshaw
Original Path: trunk
added missing files and a spare missing comma, also the ability for finley VTIWaves to not crash

Revision 4622 - Directory Listing
Modified Fri Jan 17 04:55:41 2014 UTC (3 years, 11 months ago) by sshaw
Original Path: trunk
Added dirac support to ripley, added interface for custom assemblers for ripleydomains (also added the custom assembler for 2D VTI waves), changed synthetic_VTI example to use the new, faster custom assembler


Revision 4621 - Directory Listing
Modified Thu Jan 16 10:07:44 2014 UTC (3 years, 11 months ago) by jfenwick
Original Path: trunk
getSampleDataRO is now const

Revision 4620 - Directory Listing
Modified Thu Jan 16 03:17:20 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
py3 RuntimeError does not have 'message' member.


Revision 4619 - Directory Listing
Modified Thu Jan 16 02:10:26 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
updated gp py3 options.


Revision 4618 - Directory Listing
Modified Wed Jan 15 04:35:19 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
Implemented reverse reading of grid data from netcdf files.
Fixes #44.


Revision 4617 - Directory Listing
Modified Wed Jan 15 03:49:19 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
new name for boost library on guineapig


Revision 4616 - Directory Listing
Modified Tue Jan 14 22:57:47 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
- Fixed unit test failure by populating missing parts of the struct
- prepared for reversing read order from grids
- worked around a segfault caused by python version in jessie (2.7.6) in
  combination with gdal,pyproj and RTLD_GLOBAL in dlopen flags.



Revision 4615 - Directory Listing
Modified Mon Jan 13 05:05:33 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
Step 1 for #31: wrap parameters in an object.


Revision 4614 - Directory Listing
Modified Mon Jan 13 02:44:07 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
Corrected a faulty test.


Revision 4613 - Directory Listing
Modified Mon Jan 13 01:09:01 2014 UTC (3 years, 11 months ago) by caltinay
Original Path: trunk
Addresses #43 - altitude is now scaled according to reference system height
unit.
Also separated out UTM zone determination from the actual projection code
to silence bogus output.


Revision 4612 - Directory Listing
Modified Thu Jan 9 05:30:27 2014 UTC (3 years, 11 months ago) by gross
Original Path: trunk
modifications to sonic seismic

Revision 4611 - Directory Listing
Modified Mon Dec 23 04:03:00 2013 UTC (3 years, 11 months ago) by gross
Original Path: trunk
scaling corrected

Revision 4610 - Directory Listing
Modified Mon Dec 23 00:01:23 2013 UTC (3 years, 11 months ago) by gross
Original Path: trunk
exposed createAbsorbtionLayerFunction

Revision 4609 - Directory Listing
Modified Fri Dec 20 07:56:56 2013 UTC (3 years, 11 months ago) by gross
Original Path: trunk
fix to deal with empty right hand side vector F.



Revision 4608 - Directory Listing
Modified Fri Dec 20 01:53:04 2013 UTC (3 years, 11 months ago) by sshaw
Original Path: trunk
tiny grammar fix in user guide

Revision 4607 - Directory Listing
Modified Wed Dec 18 09:46:16 2013 UTC (3 years, 11 months ago) by jfenwick
Original Path: trunk
include cmath in all cases rather than math.h - the mathinf for intel on windows is still there (in part because we have no way to test if it is still relevant)

Revision 4606 - Directory Listing
Modified Wed Dec 18 08:21:25 2013 UTC (3 years, 11 months ago) by jfenwick
Original Path: trunk
Updating run_models to not call the old DarcyFlow methods



Revision 4605 - Directory Listing
Modified Wed Dec 18 06:05:43 2013 UTC (3 years, 11 months ago) by jfenwick
Original Path: trunk
Mantis issue #675 said

Cihan:
while merging symbolic into trunk I noticed that most dudley tests are
disabled. This happened in revision 3261 where you wrote:

"Disable some unit tests for dudley until I can fix MPI failures"

Is that fixed?

=== I'm renabling most of the test (which pass without difficulty).
But one of them appears to be out of date or something.
More investigation required.




Revision 4604 - Directory Listing
Modified Wed Dec 18 03:29:26 2013 UTC (3 years, 11 months ago) by sshaw
Original Path: trunk
fixed tabs/space mix for python3

Revision 4603 - Directory Listing
Modified Wed Dec 18 02:24:32 2013 UTC (3 years, 11 months ago) by jfenwick
Original Path: trunk
Added boost::noncopyable to remaining abstract base classes in the module file.
ie escriptcpp.cpp
Note I have not altered the c++ inheritance (this just just for the boost::python import)


Revision 4602 - Directory Listing
Modified Wed Dec 18 01:15:22 2013 UTC (3 years, 11 months ago) by jfenwick
Original Path: trunk
Fixed missing \


Revision 4601 - Directory Listing
Modified Tue Dec 17 23:37:08 2013 UTC (4 years ago) by gross
Original Path: trunk
downunder: self-demagnetization added as forward model. 



Revision 4600 - Directory Listing
Modified Tue Dec 17 04:28:40 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Using section: science in debian/control instead of main.
This new value for section has the virtue of actually existing


Revision 4599 - Directory Listing
Modified Sun Dec 15 23:51:13 2013 UTC (4 years ago) by sshaw
Original Path: trunk
merged 3.4.1 release changes into trunk

Revision 4598 - Directory Listing
Modified Sun Dec 15 23:39:16 2013 UTC (4 years ago) by rschaa
Original Path: trunk
Minor change to figure.
Replaced .pdf with .png


Revision 4597 - Directory Listing
Modified Sun Dec 15 22:36:24 2013 UTC (4 years ago) by gross
Original Path: trunk
unused variable fixed

Revision 4586 - Directory Listing
Modified Wed Dec 11 06:03:27 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
2D guassian smoothing of random data done.
Added more memory non-leaks to the supp file


Revision 4585 - Directory Listing
Modified Wed Dec 11 04:39:54 2013 UTC (4 years ago) by sshaw
Original Path: trunk
uint -> unsigned int

Revision 4584 - Directory Listing
Modified Wed Dec 11 04:24:15 2013 UTC (4 years ago) by sshaw
Original Path: trunk
more buildbot commit testing

Revision 4583 - Directory Listing
Modified Wed Dec 11 02:09:19 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
deliberate error to test buildbot

Revision 4582 - Directory Listing
Modified Wed Dec 11 02:08:41 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Added libpython version of suppressions to the aggressive file.
Rectangle now passes correct values around.
Random still to come.


Revision 4581 - Directory Listing
Modified Tue Dec 10 09:32:50 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Some more work on random
Added a more agressive (And smaller) supressions file for python


Revision 4580 - Directory Listing
Modified Tue Dec 10 06:10:44 2013 UTC (4 years ago) by sshaw
Original Path: trunk
fixed doc building relying on potentially missing python package installs (bug #739)

Revision 4579 - Directory Listing
Modified Tue Dec 10 04:08:20 2013 UTC (4 years ago) by sshaw
Original Path: trunk
adding porcupine's scons options file

Revision 4578 - Directory Listing
Modified Tue Dec 10 04:07:51 2013 UTC (4 years ago) by sshaw
Original Path: trunk
fixed gmsh Design deconstructor attempting to access non-existing members or files that were never created
also fixed a loose (non-)integer division for python3


Revision 4577 - Directory Listing
Modified Tue Dec 10 00:50:55 2013 UTC (4 years ago) by sshaw
Original Path: trunk
Undoing unintended commit of omp wrapper removal

Revision 4576 - Directory Listing
Modified Mon Dec 9 23:35:30 2013 UTC (4 years ago) by sshaw
Original Path: trunk
python3ified things, replaced mixed whitespace and xrange calls

Revision 4575 - Directory Listing
Modified Mon Dec 9 22:59:31 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Some more work on this


Revision 4574 - Directory Listing
Modified Mon Dec 9 04:29:44 2013 UTC (4 years ago) by gross
Original Path: trunk
some corrections

Revision 4573 - Directory Listing
Modified Mon Dec 9 03:42:50 2013 UTC (4 years ago) by gross
Original Path: trunk
HTI added

Revision 4572 - Directory Listing
Modified Sun Dec 8 00:54:37 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Some work on rectangle random MPI

Revision 4571 - Directory Listing
Modified Fri Dec 6 02:47:14 2013 UTC (4 years ago) by sshaw
Original Path: trunk
replaced a deliberate NULL dereference with abort() to satisfy lion-clang

Revision 4570 - Directory Listing
Modified Fri Dec 6 02:22:37 2013 UTC (4 years ago) by gross
Original Path: trunk
strain convention corrected.

Revision 4569 - Directory Listing
Modified Fri Dec 6 02:21:12 2013 UTC (4 years ago) by gross
Original Path: trunk
some update

Revision 4568 - Directory Listing
Modified Thu Dec 5 23:13:26 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Package building files for saucy


Revision 4567 - Directory Listing
Modified Thu Dec 5 09:00:23 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Options file for ubuntu 13.10


Revision 4566 - Directory Listing
Modified Thu Dec 5 01:02:47 2013 UTC (4 years ago) by sshaw
Original Path: trunk
fixed Dudley saveVTK crash on world size > 6 (mantis bug #738)

Revision 4565 - Directory Listing
Modified Wed Dec 4 06:42:30 2013 UTC (4 years ago) by gross
Original Path: trunk
and another typo fixed.

Revision 4564 - Directory Listing
Modified Wed Dec 4 06:34:14 2013 UTC (4 years ago) by gross
Original Path: trunk
VTI wave added  

Revision 4563 - Directory Listing
Modified Wed Dec 4 06:30:59 2013 UTC (4 years ago) by gross
Original Path: trunk
typo fixed

Revision 4562 - Directory Listing
Modified Wed Dec 4 05:41:10 2013 UTC (4 years ago) by gross
Original Path: trunk
VTI wave added  

Revision 4561 - Directory Listing
Modified Wed Dec 4 05:19:32 2013 UTC (4 years ago) by caltinay
Original Path: trunk
Removed spurious print and some minor changes in inversion example.


Revision 4560 - Directory Listing
Modified Wed Dec 4 03:43:57 2013 UTC (4 years ago) by rschaa
Original Path: trunk
Options file for ferret


Revision 4559 - Directory Listing
Modified Wed Dec 4 02:05:34 2013 UTC (4 years ago) by sshaw
Original Path: trunk
renamed design.Design to design.AbstractDesign as a more explicit/descriptive name, this will break any existing custom implementation until changed to match

updated gmsh.Design docstring to match that of the code

Revision 4558 - Directory Listing
Modified Tue Dec 3 22:37:38 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Moving MeshAdapter constructor call out of smartptr constructor.  I think a throw in there would lead to undefined behaviour

Revision 4557 - Directory Listing
Modified Tue Dec 3 12:53:38 2013 UTC (4 years ago) by caltinay
Original Path: trunk
Fixed boost/intel issue in dudley and synced options file with module on
savanna.


Revision 4556 - Directory Listing
Modified Tue Dec 3 05:40:53 2013 UTC (4 years ago) by sshaw
Original Path: trunk
fixed mixed tabs/spaces and py2 prints breaking the python3 compiler

Revision 4555 - Directory Listing
Modified Tue Dec 3 03:54:20 2013 UTC (4 years ago) by sshaw
Original Path: trunk
updated doc install instructions to match that required

Revision 4554 - Directory Listing
Modified Tue Dec 3 03:45:56 2013 UTC (4 years ago) by sshaw
Original Path: trunk
documentation spelling and whitespace corrections, added some Design.setOptions params that were missing from the userguide

Revision 4553 - Directory Listing
Modified Mon Dec 2 07:18:02 2013 UTC (4 years ago) by gross
Original Path: trunk
clarification on receiver array

Revision 4552 - Directory Listing
Modified Mon Dec 2 06:13:47 2013 UTC (4 years ago) by sshaw
Original Path: trunk
Replaced non-visible (when built) unicode endash with single dash in user guide source

Revision 4551 - Directory Listing
Modified Mon Dec 2 03:32:23 2013 UTC (4 years ago) by sshaw
Original Path: trunk
Fixed missing install keyword in instructions


Revision 4550 - Directory Listing
Modified Fri Nov 29 07:44:37 2013 UTC (4 years ago) by gross
Original Path: trunk
some modifications

Revision 4549 - Directory Listing
Modified Fri Nov 29 05:24:40 2013 UTC (4 years ago) by gross
Original Path: trunk
argument for lumping added.

Revision 4548 - Directory Listing
Modified Fri Nov 29 04:39:15 2013 UTC (4 years ago) by gross
Original Path: trunk
renamed file

Revision 4547 - Directory Listing
Modified Thu Nov 28 23:47:27 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Added msec unit


Revision 4546 - Directory Listing
Modified Thu Nov 28 05:30:48 2013 UTC (4 years ago) by gross
Original Path: trunk
sonic wave propagation added

Revision 4545 - Directory Listing
Modified Thu Nov 28 05:02:43 2013 UTC (4 years ago) by gross
Original Path: trunk
wave simulator base added

Revision 4544 - Directory Listing
Modified Thu Nov 28 04:01:46 2013 UTC (4 years ago) by gross
Original Path: trunk
wave simulator base added

Revision 4543 - Directory Listing
Modified Thu Nov 28 03:42:10 2013 UTC (4 years ago) by gross
Original Path: trunk
missing retirn statement added

Revision 4542 - Directory Listing
Modified Thu Nov 28 01:33:22 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Moving to new icc and associated modules.




Revision 4541 - Directory Listing
Modified Thu Nov 28 01:17:19 2013 UTC (4 years ago) by gross
Original Path: trunk
Ricker wavelet added

Revision 4540 - Directory Listing
Modified Thu Nov 28 01:06:10 2013 UTC (4 years ago) by gross
Original Path: trunk
segy writer added

Revision 4539 - Directory Listing
Modified Thu Nov 28 00:38:10 2013 UTC (4 years ago) by gross
Original Path: trunk
segy writer test added.

Revision 4538 - Directory Listing
Modified Thu Nov 28 00:37:48 2013 UTC (4 years ago) by gross
Original Path: trunk
segy writer added

Revision 4537 - Directory Listing
Modified Mon Nov 25 06:44:46 2013 UTC (4 years ago) by gross
Original Path: trunk
missing references and double labeling fixed.

Revision 4536 - Directory Listing
Modified Thu Nov 21 07:58:32 2013 UTC (4 years ago) by jfenwick
Original Path: trunk
Working around intelcc s seeming dislike of boost smart pointers

Revision 4535 - Directory Listing
Modified Wed Nov 20 06:37:53 2013 UTC (4 years ago) by gross
Original Path: trunk
strong correlation joint inversion fixed.

Revision 4534 - Directory Listing
Modified Thu Nov 7 08:17:02 2013 UTC (4 years, 1 month ago) by gross
Original Path: trunk
typo fixed

Revision 4533 - Directory Listing
Modified Thu Nov 7 04:56:11 2013 UTC (4 years, 1 month ago) by gross
Original Path: trunk
typo fixed

Revision 4532 - Directory Listing
Modified Thu Nov 7 04:54:56 2013 UTC (4 years, 1 month ago) by gross
Original Path: trunk
strongly coupled joint inversion added

Revision 4531 - Directory Listing
Modified Mon Nov 4 02:09:05 2013 UTC (4 years, 1 month ago) by jfenwick
Original Path: trunk
Removed strange looking dead code to resolve issue #710

Revision 4530 - Directory Listing
Modified Wed Oct 30 04:34:21 2013 UTC (4 years, 1 month ago) by caltinay
Original Path: trunk
Fix in finley loadMesh which needs to call updateTagList() for all ranks, even
if a rank has no elements.


Revision 4529 - Directory Listing
Modified Fri Oct 25 01:23:27 2013 UTC (4 years, 1 month ago) by caltinay
Original Path: trunk
Ripley can now read grids in non-native byte order. This is in preparation for
Gocad Voxet import.


Revision 4528 - Directory Listing
Modified Sun Sep 29 23:12:19 2013 UTC (4 years, 2 months ago) by caltinay
Original Path: trunk
Added timeStepFormat option to saveESD (mantis 723).


Revision 4527 - Directory Listing
Modified Mon Sep 2 21:54:35 2013 UTC (4 years, 3 months ago) by jfenwick
Original Path: trunk
use enums

Revision 4526 - Directory Listing
Modified Mon Sep 2 06:34:25 2013 UTC (4 years, 3 months ago) by jfenwick
Original Path: trunk
Single rank rectangle randoms.


Revision 4525 - Directory Listing
Modified Fri Aug 30 09:14:35 2013 UTC (4 years, 3 months ago) by jfenwick
Original Path: trunk
try this

Revision 4524 - Directory Listing
Modified Tue Aug 27 01:32:10 2013 UTC (4 years, 3 months ago) by jfenwick
Original Path: trunk
Steube!!!!!


Revision 4523 - Directory Listing
Modified Mon Aug 26 23:04:07 2013 UTC (4 years, 3 months ago) by caltinay
Original Path: trunk
New working raijin options.


Revision 4522 - Directory Listing
Modified Mon Aug 26 22:15:26 2013 UTC (4 years, 3 months ago) by caltinay
Original Path: trunk
Newer versions of proj require specifying ellipsoid parameter.


Revision 4521 - Directory Listing
Modified Mon Aug 26 11:51:30 2013 UTC (4 years, 3 months ago) by jfenwick
Original Path: trunk
Remove bool_t
Part of random.



Revision 4520 - Directory Listing
Modified Thu Aug 22 06:42:57 2013 UTC (4 years, 3 months ago) by caltinay
Original Path: trunk
Removing spurious usage of C compiler:
-Changed all scons tests to use C++ compiler
-Renamed paso profiling files (unused)
-Updated most options files (removal of options and updated comments)


Revision 4519 - Directory Listing
Modified Mon Aug 19 05:56:22 2013 UTC (4 years, 3 months ago) by caltinay
Original Path: trunk
Initial raijin options file.


Revision 4518 - Directory Listing
Modified Tue Aug 13 01:49:59 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
The line search step length caching should only be used within esys.downunder
inversions where the inverse Hessian approximation is not very good at the
moment.


Revision 4517 - Directory Listing
Modified Mon Aug 12 05:56:54 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
Implemented caching (and relaxation) of line search step size alpha.
Experiments show a significant decrease in the number of  iterations required
to converge with this change.


Revision 4516 - Directory Listing
Modified Thu Aug 8 05:41:49 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
Implemented more CF conventions for the netCDF datasource.
Also added a check to LatLonToUTM to pass through coordinates that are already
projected.
Data gridded by GDAL is now understood.


Revision 4515 - Directory Listing
Modified Mon Aug 5 06:09:01 2013 UTC (4 years, 4 months ago) by jfenwick
Original Path: trunk
Intel compiler mutter grumble

Revision 4514 - Directory Listing
Modified Mon Aug 5 03:28:44 2013 UTC (4 years, 4 months ago) by jfenwick
Original Path: trunk
Look at the MPI

Revision 4513 - Directory Listing
Modified Mon Aug 5 00:57:34 2013 UTC (4 years, 4 months ago) by jfenwick
Original Path: trunk
Dropping VSL random. Random data now uses more general routine.

Revision 4512 - Directory Listing
Modified Mon Jul 29 05:27:16 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
With current Intel compiler (13.5.192) on savanna any build with OMP and without MPI
will segfault in AbstractDomain->getPtr() for unknown reasons.
Trying a workaround for finley which can be adapted to dudley and ripley if it works.


Revision 4511 - Directory Listing
Modified Thu Jul 25 04:51:02 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
Print a warning on savanna if dev-deps is not loaded when building and add
debug symbols by default.


Revision 4510 - Directory Listing
Modified Thu Jul 25 04:02:07 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
Fixed a path which should fix unit tests.


Revision 4509 - Directory Listing
Modified Wed Jul 24 08:37:29 2013 UTC (4 years, 4 months ago) by jfenwick
Original Path: trunk
Fixed paths for utest.sh


Revision 4508 - Directory Listing
Modified Wed Jul 24 04:23:22 2013 UTC (4 years, 4 months ago) by jfenwick
Original Path: trunk
Moving to escriptcore

Revision 4507 - Directory Listing
Modified Wed Jul 24 02:50:22 2013 UTC (4 years, 4 months ago) by jfenwick
Original Path: trunk
It begins

Revision 4506 - Directory Listing
Modified Wed Jul 24 01:28:42 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
run-escript -m now takes an optional argument to allow for different valgrind
tools (callgrind & memcheck supported at the moment).


Revision 4505 - Directory Listing
Modified Tue Jul 23 02:09:45 2013 UTC (4 years, 4 months ago) by jfenwick
Original Path: trunk
Hopefully addresses mantis721

Revision 4504 - Directory Listing
Modified Mon Jul 22 02:04:34 2013 UTC (4 years, 4 months ago) by caltinay
Original Path: trunk
Fix to verbose parameter reporting in linear pdes


Revision 4503 - Directory Listing
Modified Wed Jul 17 05:27:36 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Skip new test with >1 rank.


Revision 4502 - Directory Listing
Modified Wed Jul 17 03:12:28 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Test reading IEEE8ByteReal data from ER Mapper files.


Revision 4501 - Directory Listing
Modified Wed Jul 17 00:02:26 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
This time I fixed the comment instead of the code for this special case.


Revision 4500 - Directory Listing
Modified Tue Jul 16 05:47:11 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
updated scons script


Revision 4499 - Directory Listing
Modified Tue Jul 16 05:42:19 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
finley: mainly const'ness fixes, some formatting.


Revision 4498 - Directory Listing
Modified Tue Jul 16 01:56:37 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Another special case fix.


Revision 4497 - Directory Listing
Modified Mon Jul 15 23:32:28 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Small fix for non-mpi build.


Revision 4496 - Directory Listing
Modified Mon Jul 15 06:53:44 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
finley (WIP):
-moved all of finley into its namespace
-introduced some shared pointers
-Mesh is now a class
-other bits and pieces...


Revision 4495 - Directory Listing
Modified Fri Jul 5 02:19:47 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Added support for more input data types in ER Mapper files.
Tests will follow soon.


Revision 4494 - Directory Listing
Modified Thu Jul 4 02:53:47 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Suppressions for savanna runs.


Revision 4493 - Directory Listing
Modified Wed Jul 3 06:32:11 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Fixed omp typo - gcc didn't pick it up...


Revision 4492 - Directory Listing
Modified Tue Jul 2 01:44:11 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Finley changes that were held back while in release mode - moved more stuff
into finley namespace.


Revision 4491 - Directory Listing
Modified Tue Jul 2 01:10:41 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Reintegrating changes from 3.4 branch (with changes).


Revision 4490 - Directory Listing
Modified Tue Jul 2 00:38:44 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
More python suppressions from savanna.


Revision 4489 - Directory Listing
Modified Fri Jun 28 00:05:31 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Moved to update 5 of intel libraries/compiler on savanna.


Revision 4483 - Directory Listing
Modified Wed Jun 26 02:36:15 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Added option to easily run escript with valgrind memcheck.


Revision 4482 - Directory Listing
Modified Tue Jun 25 05:20:01 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
More leak fixes and suppression file additions.


Revision 4481 - Directory Listing
Modified Mon Jun 24 06:22:27 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Hmm. That's a nasty undocumented "feature"...


Revision 4480 - Directory Listing
Modified Mon Jun 24 05:09:52 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
More valgrind suppressions and memory leak fixes identified in various places.


Revision 4479 - Directory Listing
Modified Thu Jun 20 10:54:09 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Missed a subtle fact about the stringstream constructor...


Revision 4478 - Directory Listing
Modified Thu Jun 20 06:34:02 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Moved appendRankToFilename to header within namespace to remove code duplication
and fixed memory leaks this way.


Revision 4477 - Directory Listing
Modified Thu Jun 20 02:41:28 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
escript: use scoped_array instead of scoped_ptr
ripley: netcdf returns a copy of an array so use scoped_array
downunder: s/Sperical/Spherical/
scripts: added a few more suppressions


Revision 4476 - Directory Listing
Modified Thu Jun 20 00:05:53 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Revised valgrind suppressions file with more generic Python & OpenMPI
suppressions.


Revision 4474 - Directory Listing
Modified Wed Jun 19 06:44:47 2013 UTC (4 years, 5 months ago) by caltinay
Original Path: trunk
Brought over leak fix, gcc 4.8 fix and mismatched new[]/delete fix from release
branch.


Revision 4465 - Directory Listing
Modified Mon Jun 17 06:49:39 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Remove superfluous \label


Revision 4463 - Directory Listing
Modified Mon Jun 17 06:11:32 2013 UTC (4 years, 6 months ago) by gross
Original Path: trunk
missing file

Revision 4462 - Directory Listing
Modified Mon Jun 17 04:12:06 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Raise exception if background magnetic field has not been set but is required.


Revision 4461 - Directory Listing
Modified Sun Jun 16 23:39:31 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
small py3 fix.


Revision 4455 - Directory Listing
Modified Thu Jun 13 03:13:36 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Removed \LG etc. from inversion document.
Documented new GOCAD Voxet writer. Needs to be mentioned in 'changes' too.


Revision 4454 - Directory Listing
Modified Thu Jun 13 03:12:17 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
More "delete test output files after checking"


Revision 4451 - Directory Listing
Modified Thu Jun 13 01:38:56 2013 UTC (4 years, 6 months ago) by jfenwick
Original Path: trunk
some pending changes on badger

Revision 4450 - Directory Listing
Modified Thu Jun 13 00:45:59 2013 UTC (4 years, 6 months ago) by jfenwick
Original Path: trunk
install docs - still waiting on Mac. Removing debug output.

Revision 4449 - Directory Listing
Modified Thu Jun 13 00:24:00 2013 UTC (4 years, 6 months ago) by jfenwick
Original Path: trunk
Finishing off this end.


Revision 4448 - Directory Listing
Modified Wed Jun 12 23:05:12 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Only one rank should delete file in tests.


Revision 4447 - Directory Listing
Modified Wed Jun 12 13:55:53 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Clean up some generated test files.


Revision 4446 - Directory Listing
Modified Tue Jun 11 04:00:15 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
This should fix the py3 error...


Revision 4445 - Directory Listing
Modified Tue Jun 11 03:35:55 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Apply weight rescaling to input weights before the coordinate scaling.
Also skipping a check when more than 1 rank is used.


Revision 4444 - Directory Listing
Modified Mon Jun 10 07:55:05 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Converted IndexList to a std::list.


Revision 4443 - Directory Listing
Modified Mon Jun 10 04:50:27 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Update test to take into account changed height scale.


Revision 4442 - Directory Listing
Modified Fri Jun 7 07:04:44 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
cosmetic changes.


Revision 4441 - Directory Listing
Modified Fri Jun 7 02:23:49 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
finley now uses Data objects directly instead of going through the C wrapper.


Revision 4440 - Directory Listing
Modified Wed Jun 5 05:22:20 2013 UTC (4 years, 6 months ago) by jfenwick
Original Path: trunk
options files changes and install changes

Revision 4439 - Directory Listing
Modified Wed Jun 5 02:09:35 2013 UTC (4 years, 6 months ago) by jfenwick
Original Path: trunk
some work on install doco

Revision 4438 - Directory Listing
Modified Tue Jun 4 09:00:50 2013 UTC (4 years, 6 months ago) by jfenwick
Original Path: trunk
Some changes to packaging

Revision 4437 - Directory Listing
Modified Tue Jun 4 05:37:18 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
finley:
-Removed obsolete reference files (OpenDX)
-Converted tag map to a std::map
-loosened tests to ignore tag order in file
-added some decorators for test skips


Revision 4436 - Directory Listing
Modified Mon Jun 3 05:37:31 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Tweak.


Revision 4435 - Directory Listing
Modified Mon Jun 3 04:27:57 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Fixed a few scaling problems for non-cartesian coordinates in domainbuilder.


Revision 4434 - Directory Listing
Modified Mon Jun 3 00:43:29 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
tab-fixes and an indexing fix.


Revision 4433 - Directory Listing
Modified Fri May 31 12:09:58 2013 UTC (4 years, 6 months ago) by gross
Original Path: trunk
some clarifications on geodetic coordinates. 
order of background magnetic flux density component has been corrected: input is now B_east, B_north, B_vertical.



Revision 4432 - Directory Listing
Modified Fri May 31 07:13:38 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
updated sconscript file


Revision 4431 - Directory Listing
Modified Fri May 31 07:09:03 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
finley ElementFile is now a class...


Revision 4430 - Directory Listing
Modified Fri May 31 00:38:42 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Don't panic - just forgot some brackets... D'oh!


Revision 4429 - Directory Listing
Modified Thu May 30 13:52:01 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Okay I now know that std::vector<bool> is evil, but WTF happens in this context???
It only crashes with more than one thread and more than one MPI process.



Revision 4428 - Directory Listing
Modified Thu May 30 06:39:10 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
finley's NodeFile is now a class.
Associated changes:
- use of some C++ constructs/functions/types (1st pass)
- removal of obsolete pointer check
- merging of some duplicated code
- ...


Revision 4426 - Directory Listing
Modified Mon May 27 06:14:19 2013 UTC (4 years, 6 months ago) by jfenwick
Original Path: trunk
Testing commit


Revision 4425 - Directory Listing
Modified Mon May 27 05:44:28 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
svn server test and finley stuff.


Revision 4424 - Directory Listing
Modified Mon May 27 04:48:31 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
SVN server test.


Revision 4423 - Directory Listing
Modified Mon May 27 04:38:59 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
finley bits.


Revision 4422 - Directory Listing
Modified Fri May 24 04:42:29 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
s/jacobeans/jacobians and other bits and pieces.


Revision 4421 - Directory Listing
Modified Tue May 21 05:16:39 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Finley... there were actually some long-standing errors in the checks.


Revision 4420 - Directory Listing
Modified Mon May 20 07:12:15 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Enabled metis on guineapig.


Revision 4419 - Directory Listing
Modified Mon May 20 05:03:35 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Fixed a typo.


Revision 4418 - Directory Listing
Modified Mon May 20 04:08:16 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Try...


Revision 4417 - Directory Listing
Modified Mon May 20 02:15:47 2013 UTC (4 years, 6 months ago) by caltinay
Original Path: trunk
Retab regularizations.


Revision 4416 - Directory Listing
Modified Fri May 17 02:32:33 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
Renaming a thing and adding some doco.

Revision 4415 - Directory Listing
Modified Fri May 17 00:33:02 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Commented unused var to make compiler happy.


Revision 4414 - Directory Listing
Modified Thu May 16 05:37:32 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Few more bits and pieces in finley.


Revision 4410 - Directory Listing
Modified Tue May 14 11:29:23 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Oops, I saw this coming.


Revision 4408 - Directory Listing
Modified Tue May 14 06:58:43 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Mostly no-op - trying to get some consistency in style while going through a
few files.
Also some minor changes related to C->C++ (e.g. no need to copy vector to pass
to functions etc.)


Revision 4407 - Directory Listing
Modified Tue May 14 05:17:24 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
Added output function to arithmetic tuple

Revision 4406 - Directory Listing
Modified Tue May 14 02:54:09 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Removed references to pyvisi which disappeared a few releases ago...


Revision 4405 - Directory Listing
Modified Sun May 12 23:27:33 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Once again..


Revision 4404 - Directory Listing
Modified Sun May 12 23:25:10 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Retab forwardmodels


Revision 4400 - Directory Listing
Modified Fri May 10 04:05:00 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Uaaargh - the minimizer ate my files! Fixed reporting of iteration number in
callback.


Revision 4399 - Directory Listing
Modified Thu May 9 10:46:41 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
just fiddling

Revision 4398 - Directory Listing
Modified Thu May 9 08:42:44 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
support for supressing doco subpackages. fiddling with one of the imports to try to reduce the number of places where Data appears.  Seriously it looks like we have 8 different Data classes

Revision 4397 - Directory Listing
Modified Thu May 9 06:17:15 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
Added some doco to make it a little easier to work out what is going on.
Cleaned up some reST ugliness


Revision 4396 - Directory Listing
Modified Wed May 8 09:27:10 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
fix extraction script to pick up more classes. Stop models from importing escript into its namespace

Revision 4395 - Directory Listing
Modified Wed May 8 03:05:05 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Changed trade-off factors for example to avoid unit test failures due to
scaling issues.


Revision 4394 - Directory Listing
Modified Tue May 7 04:56:59 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Fixed rounding with lat/lon coordinates and removed stray print statements.


Revision 4393 - Directory Listing
Modified Mon May 6 03:35:48 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Correct indexing of forward models.


Revision 4392 - Directory Listing
Modified Mon May 6 02:18:33 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
More saveSilo checks.


Revision 4391 - Directory Listing
Modified Mon May 6 02:15:48 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Do not claim success when saving silo without silo support.


Revision 4390 - Directory Listing
Modified Mon May 6 01:59:34 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Fixed advertising of NetCdfData availability.


Revision 4389 - Directory Listing
Modified Mon May 6 01:52:05 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
retab coordinates.py


Revision 4388 - Directory Listing
Modified Thu May 2 01:55:08 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
I need this

Revision 4387 - Directory Listing
Modified Thu May 2 00:46:49 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
The future is now

Revision 4386 - Directory Listing
Modified Tue Apr 30 02:58:02 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
Add missing [0]

Revision 4385 - Directory Listing
Modified Mon Apr 29 06:03:30 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
It was bugging me

Revision 4384 - Directory Listing
Modified Sat Apr 27 05:09:37 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
Partially complete new install instructions

Revision 4383 - Directory Listing
Modified Fri Apr 26 06:13:12 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
Changes to install doco


Revision 4382 - Directory Listing
Modified Thu Apr 25 04:44:14 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Finalised ripley PDE assembly optimisation work.

Stats (combined Rectangle & Brick):
  rev.4369: 7440 constants, 16985 lines, ~17m to compile w/ icc
       NOW: 4038 constants, 13579 lines, ~6.5m to compile w/ icc

Runtime of unit tests a few seconds shorter as well :-)


Revision 4381 - Directory Listing
Modified Thu Apr 25 01:57:54 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Prescribe data scale in tests to silence message.


Revision 4380 - Directory Listing
Modified Wed Apr 24 23:59:49 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
Attempt to help windows

Revision 4379 - Directory Listing
Modified Wed Apr 24 20:31:19 2013 UTC (4 years, 7 months ago) by gross
Original Path: trunk
more documentation on geodetic coordinates.

Revision 4378 - Directory Listing
Modified Wed Apr 24 06:21:42 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
ripley work: Almost done - one more round in Brick left....


Revision 4377 - Directory Listing
Modified Tue Apr 23 05:30:02 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
More work on ripley - Brick is under 10000 lines now.


Revision 4376 - Directory Listing
Modified Mon Apr 22 08:44:45 2013 UTC (4 years, 7 months ago) by gross
Original Path: trunk
domumentation update on coordinate systems - part I

Revision 4375 - Directory Listing
Modified Mon Apr 22 05:35:52 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
More ripley code cleaning/optimisation.


Revision 4374 - Directory Listing
Modified Mon Apr 22 03:21:48 2013 UTC (4 years, 7 months ago) by gross
Original Path: trunk
some typo fixed.

Revision 4373 - Directory Listing
Modified Mon Apr 22 03:16:24 2013 UTC (4 years, 7 months ago) by gross
Original Path: trunk
more on geodetic coordinates

Revision 4372 - Directory Listing
Modified Mon Apr 22 00:02:36 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
Retab...


Revision 4371 - Directory Listing
Modified Fri Apr 19 08:47:57 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
As far as I can tell, passes unit tests on freebsd with non-default compiler==gcc46

Revision 4370 - Directory Listing
Modified Fri Apr 19 06:15:24 2013 UTC (4 years, 7 months ago) by caltinay
Original Path: trunk
WIP: ripley hand-optimisation & further rules to generator
-> drastically reduced number of constants
-> compile time of Brick.cpp less than half of what it was on savanna
-> additional runtime savings
-> to be continued...


Revision 4369 - Directory Listing
Modified Fri Apr 19 02:32:34 2013 UTC (4 years, 7 months ago) by jfenwick
Original Path: trunk
fix problems revealed on freebsd

Revision 4368 - Directory Listing
Modified Thu Apr 18 02:26:35 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
put back std::

Revision 4367 - Directory Listing
Modified Wed Apr 17 09:55:25 2013 UTC (4 years, 8 months ago) by plaub
Original Path: trunk
Allow access to the individual components of the weighted sum cost function.


Revision 4366 - Directory Listing
Modified Wed Apr 17 04:41:16 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Be more careful with namespace & includes.


Revision 4365 - Directory Listing
Modified Wed Apr 17 03:46:22 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Skip tests for #ranks > 1 again.


Revision 4364 - Directory Listing
Modified Wed Apr 17 01:56:00 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Decorated some test cases.


Revision 4363 - Directory Listing
Modified Wed Apr 17 01:07:38 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
retab coordinates.py.


Revision 4362 - Directory Listing
Modified Tue Apr 16 04:37:13 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Implemented NumpyData downunder source (w/ tests).
Added check of data dimensionality to domainbuilder since data_dim must equal
domain_dim-1 at the moment.


Revision 4361 - Directory Listing
Modified Mon Apr 15 04:43:19 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
beginnings of an option file for macports

Revision 4360 - Directory Listing
Modified Mon Apr 15 02:41:42 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
some mismatched memory ops

Revision 4359 - Directory Listing
Modified Fri Apr 12 04:54:20 2013 UTC (4 years, 8 months ago) by gross
Original Path: trunk
more on coordinate systems

Revision 4358 - Directory Listing
Modified Fri Apr 12 04:54:00 2013 UTC (4 years, 8 months ago) by gross
Original Path: trunk
more on coordinate systems

Revision 4357 - Directory Listing
Modified Thu Apr 11 06:07:14 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
templated writeBinaryGrid and a bit of cleanup.


Revision 4356 - Directory Listing
Modified Tue Apr 9 00:15:59 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Retabbed file for py3 pleasure.


Revision 4355 - Directory Listing
Modified Fri Apr 5 07:25:02 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
start install guide overhall

Revision 4354 - Directory Listing
Modified Fri Apr 5 03:55:03 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
adding option files for distros

Revision 4353 - Directory Listing
Modified Fri Apr 5 00:14:35 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
For some reason std::isnan<float> is not available on NCI so changed this
to ::isnan. Added options file for NCI vayu.


Revision 4352 - Directory Listing
Modified Thu Apr 4 04:28:57 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk


Revision 4349 - Directory Listing
Modified Wed Apr 3 09:37:54 2013 UTC (4 years, 8 months ago) by gross
Original Path: trunk
first contributions for geodeic coordinates

Revision 4348 - Directory Listing
Modified Tue Apr 2 07:15:43 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Reapply some of the spelling fixes that got lost....


Revision 4347 - Directory Listing
Modified Tue Apr 2 04:58:44 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
Fixed some const char* conversions


Revision 4346 - Directory Listing
Modified Tue Apr 2 04:46:45 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
Bringing the changes from doubleplusgood branch.
Can't merge directly because svn doesn't transfer changes to renamed files (mutter grumble).

Revision 4344 - Directory Listing
Modified Wed Mar 27 07:58:34 2013 UTC (4 years, 8 months ago) by gross
Original Path: trunk
fix potential at botttom added.

Revision 4343 - Directory Listing
Modified Wed Mar 27 06:44:36 2013 UTC (4 years, 8 months ago) by gross
Original Path: trunk
 

Revision 4342 - Directory Listing
Modified Tue Mar 26 02:31:41 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
get rid of the escript link that snuck in somehow.   deal with cases where the root of the install is in a path with spaces in it.

Revision 4341 - Directory Listing
Modified Mon Mar 25 04:01:25 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
GOCAD Voxet writer in weipa.


Revision 4340 - Directory Listing
Modified Fri Mar 22 04:38:36 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
added ripley method that returns grid parameters as python tuple.


Revision 4339 - Directory Listing
Modified Fri Mar 22 02:25:37 2013 UTC (4 years, 8 months ago) by jfenwick
Original Path: trunk
options file for all standalone builds

Revision 4337 - Directory Listing
Modified Fri Mar 22 00:05:25 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Detect a few more byte swap/endianness headers and silence output from
'detectModule' scons helper


Revision 4334 - Directory Listing
Modified Thu Mar 21 06:00:14 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Preparations for Voxet (GOCAD) binary grid output + code clean up.
Changed node id's order to remove code duplication in weipa.
More work to do...


Revision 4326 - Directory Listing
Modified Wed Mar 20 02:50:46 2013 UTC (4 years, 8 months ago) by caltinay
Original Path: trunk
Removed stray print statement.


Revision 4323 - Directory Listing
Modified Tue Mar 19 00:17:36 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Bringing across changes from release3.3.1. (Version names are set back to Development).

Revision 4322 - Directory Listing
Modified Mon Mar 18 00:09:02 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Test for calling I/O redirect or not was wrong... fixed.


Revision 4320 - Directory Listing
Modified Fri Mar 15 02:57:15 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Moved file writer helper class to esysUtils and made it header-only. It will
be used by ripley writer methods.


Revision 4311 - Directory Listing
Modified Tue Mar 12 04:26:24 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
gracefully end if pyproj is not installed

Revision 4310 - Directory Listing
Modified Tue Mar 12 03:23:26 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
examples don't FAIL if tool is not installed

Revision 4309 - Directory Listing
Modified Mon Mar 11 05:07:39 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Temporary workaround for sys.exit() causing unclean exit with MPI.


Revision 4308 - Directory Listing
Modified Mon Mar 11 02:47:59 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Added missing import.


Revision 4307 - Directory Listing
Modified Mon Mar 11 02:46:17 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
shake29->weasel


Revision 4306 - Directory Listing
Modified Mon Mar 11 02:36:55 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
python 3 compat.


Revision 4303 - Directory Listing
Modified Mon Mar 11 01:17:39 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Enabled index in inversion doc. Eliminated some typos.


Revision 4301 - Directory Listing
Modified Mon Mar 11 00:52:31 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Updated copyright on doco that has not existed all the way back to 2003.
Added Azadeh and Vince to credits


Revision 4300 - Directory Listing
Modified Mon Mar 11 00:50:19 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Always invoke external python to check for modules. For some reason scipy
detection did not work properly using the old way.


Revision 4299 - Directory Listing
Modified Mon Mar 11 00:40:09 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Exit with a warning in example files that require unavailable scipy.
bollide->hamster
added warnings to scons for scipy and gdal


Revision 4298 - Directory Listing
Modified Mon Mar 11 00:03:22 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
changing Magnetic Images


Revision 4297 - Directory Listing
Modified Fri Mar 8 06:14:17 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Removing the sphinx spelling checker since it breaks my build.  Updated the genrst script so that non-package modules still show up in the doco. Still needs a bit of a tweak in the long term

Revision 4296 - Directory Listing
Modified Fri Mar 8 05:37:44 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Oopsie


Revision 4295 - Directory Listing
Modified Fri Mar 8 04:42:01 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
de-cluttered sconstruct a bit and fixed a script.


Revision 4294 - Directory Listing
Modified Fri Mar 8 03:37:10 2013 UTC (4 years, 9 months ago) by gross
Original Path: trunk
text for magnetic inversion tutorial added.

Revision 4293 - Directory Listing
Modified Fri Mar 8 00:07:07 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
fixing sneaky bug in grouptest

Revision 4292 - Directory Listing
Modified Thu Mar 7 22:39:32 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Broken? It ain't broken ;-) Sorry Joel.


Revision 4290 - Directory Listing
Modified Thu Mar 7 07:04:29 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Ignore __pycache__ when generating sphinx docs

Revision 4289 - Directory Listing
Modified Thu Mar 7 07:02:59 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
including inversion examples in bundles and tests

Revision 4288 - Directory Listing
Modified Thu Mar 7 06:35:14 2013 UTC (4 years, 9 months ago) by gross
Original Path: trunk
some modifications clarifying the B field orientation

Revision 4287 - Directory Listing
Modified Thu Mar 7 05:26:44 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Removed simpleGeoMagnetic field function from doco and example source.


Revision 4286 - Directory Listing
Modified Thu Mar 7 04:28:11 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Assorted spelling fixes.


Revision 4285 - Directory Listing
Modified Thu Mar 7 01:08:43 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Corrected some spelling.


Revision 4284 - Directory Listing
Modified Thu Mar 7 00:43:48 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Replaced dummy implementations by pure virtual methods.


Revision 4283 - Directory Listing
Modified Thu Mar 7 00:11:36 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Minor epydoc fixes.


Revision 4282 - Directory Listing
Modified Wed Mar 6 08:33:59 2013 UTC (4 years, 9 months ago) by gross
Original Path: trunk
first contribution for the magnetic cookbook.

Revision 4281 - Directory Listing
Modified Wed Mar 6 07:08:36 2013 UTC (4 years, 9 months ago) by gross
Original Path: trunk
typo - sorry

Revision 4279 - Directory Listing
Modified Wed Mar 6 05:10:44 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Update to API doco and separate section for multiple data sets.


Revision 4278 - Directory Listing
Modified Wed Mar 6 04:45:40 2013 UTC (4 years, 9 months ago) by gross
Original Path: trunk
joint inversion chapter in part I replaced by announcment

Revision 4277 - Directory Listing
Modified Wed Mar 6 01:30:41 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Implemented claimed support for mixing data with different resolutions.


Revision 4274 - Directory Listing
Modified Tue Mar 5 06:10:17 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Small fix to example file.


Revision 4273 - Directory Listing
Modified Tue Mar 5 04:14:44 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
More doco updates and change to the return value of minimizers.


Revision 4272 - Directory Listing
Modified Tue Mar 5 01:06:45 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Finished gravity part in cookbook. Started review of class descriptions.


Revision 4271 - Directory Listing
Modified Mon Mar 4 05:59:59 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Finished data-with-holes section and added a few more notes about optional
arguments further up. Changed example scripts to show usage of special
features.


Revision 4270 - Directory Listing
Modified Mon Mar 4 04:01:28 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Corrected test for modified handling of ER Mapper origin.


Revision 4269 - Directory Listing
Modified Mon Mar 4 00:54:29 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Some more work.


Revision 4268 - Directory Listing
Modified Mon Mar 4 00:41:08 2013 UTC (4 years, 9 months ago) by gross
Original Path: trunk
some citation fixed.


Revision 4267 - Directory Listing
Modified Fri Mar 1 04:50:54 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Updated inversion example scripts, added ER Mapper data, checked results
and corrected some issues. Cookbook does not reflect the changes yet.


Revision 4266 - Directory Listing
Modified Fri Mar 1 01:37:41 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Deleted old data files.


Revision 4265 - Directory Listing
Modified Fri Mar 1 00:52:30 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
because we arent using python 2.5 anymore

Revision 4264 - Directory Listing
Modified Thu Feb 28 11:32:57 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Trying

Revision 4263 - Directory Listing
Modified Thu Feb 28 05:59:04 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
No more xrange in downunder.


Revision 4262 - Directory Listing
Modified Thu Feb 28 05:49:11 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
removed use of xrange and hack.


Revision 4260 - Directory Listing
Modified Wed Feb 27 04:58:47 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
adding gravity and magnetic data files which used for inversions


Revision 4259 - Directory Listing
Modified Wed Feb 27 03:52:35 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
cookmagnetic


Revision 4258 - Directory Listing
Modified Wed Feb 27 03:50:08 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
cookmagnetic


Revision 4256 - Directory Listing
Modified Wed Feb 27 03:25:05 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
changing some magnetic result image names


Revision 4255 - Directory Listing
Modified Wed Feb 27 03:06:21 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Hopefully, this will address the interpolation problems.

New canInterpolate() function exposed to python which calls probeInterpolation

AbstractDomain now has an additional virtual.
preferredIntrpolationOnDomain()

This will return 0 if interpolation is impossible, 1 if possible and preferred.
It will return -1 if interpolation is possible and preferred in the 
oposite direction.

A value of -1 does not say that the proposed interpolation is possible or not.
Rather it indicates "please use the other way".
If you really _need_ to test it that way, use probeInterpolationOnDomain 



Revision 4254 - Directory Listing
Modified Wed Feb 27 02:59:29 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
added joint result 


Revision 4253 - Directory Listing
Modified Wed Feb 27 02:55:32 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
removed joint result


Revision 4252 - Directory Listing
Modified Wed Feb 27 02:49:06 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
added magnetic inversion results


Revision 4251 - Directory Listing
Modified Wed Feb 27 02:47:10 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
removed old magnetic images
This line, and those below, will be ignored--

D    QLDMagMu10Contour.png
D    QLDMagMu01Slice.png
D    QLDMagMu1Contour.png
D    QLDMagMu100Slice.png
D    QLDMagMu01Contour.png
D    QLDMagMu10Slice.png
D    QLDMagMu100Contour.png
D    QLDMagMu1Slice.png


Revision 4250 - Directory Listing
Modified Wed Feb 27 00:26:12 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Fix for joint example.


Revision 4249 - Directory Listing
Modified Tue Feb 26 01:01:59 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
s/shake75/bollide. Made build_full succeed without cppunit.


Revision 4248 - Directory Listing
Modified Mon Feb 25 05:53:55 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
This should not trigger the build

Revision 4247 - Directory Listing
Modified Mon Feb 25 05:51:41 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk


Revision 4246 - Directory Listing
Modified Mon Feb 25 05:49:49 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
still testing

Revision 4245 - Directory Listing
Modified Mon Feb 25 05:45:06 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
again

Revision 4244 - Directory Listing
Modified Mon Feb 25 05:37:50 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
More testing and a target in scons for the pdf docs


Revision 4243 - Directory Listing
Modified Mon Feb 25 05:33:01 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
For testing buildbot


Revision 4242 - Directory Listing
Modified Mon Feb 25 03:16:14 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Allow pure virtual classes to be exported to python.
Temporary fix for a ripley interpolation issue


Revision 4241 - Directory Listing
Modified Fri Feb 22 11:35:11 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Added py3 config

Revision 4240 - Directory Listing
Modified Fri Feb 22 01:51:19 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
options file for a clang buildbot

Revision 4239 - Directory Listing
Modified Fri Feb 22 00:35:01 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
initialize utm zone in er mapper reader.


Revision 4238 - Directory Listing
Modified Thu Feb 21 09:58:49 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
fixed some relative imports and uses of xrange

Revision 4237 - Directory Listing
Modified Thu Feb 21 07:27:36 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Fixed bad tabbing so this revision works with python3 or clang.
(clang at least up to the tests which need pyproj)


Revision 4236 - Directory Listing
Modified Thu Feb 21 05:05:05 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Noted that saveDX and saveVTK have been removed.


Revision 4235 - Directory Listing
Modified Thu Feb 21 04:05:53 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
small fix.


Revision 4234 - Directory Listing
Modified Thu Feb 21 04:00:31 2013 UTC (4 years, 9 months ago) by gross
Original Path: trunk
typo fixed

Revision 4233 - Directory Listing
Modified Thu Feb 21 02:00:09 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
updated content file (wishlist). Added byte swapping to plotter.


Revision 4232 - Directory Listing
Modified Wed Feb 20 08:31:31 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Fixed the WrappedArray class so it doesn't generate warnings


Revision 4231 - Directory Listing
Modified Wed Feb 20 07:41:52 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Updating doco for pyproj and a few other minor inconsistancies.  The inversion doco still needs to mention them.

Revision 4230 - Directory Listing
Modified Wed Feb 20 03:57:37 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Removed some superfluous files.


Revision 4229 - Directory Listing
Modified Wed Feb 20 03:39:46 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
cookgravity


Revision 4228 - Directory Listing
Modified Wed Feb 20 03:34:07 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Tweak & fix for data plotters


Revision 4227 - Directory Listing
Modified Wed Feb 20 03:10:50 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
ER Mapper data source updates.


Revision 4226 - Directory Listing
Modified Wed Feb 20 03:07:36 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
typo.


Revision 4225 - Directory Listing
Modified Wed Feb 20 02:45:09 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
moving images to figures folder


Revision 4224 - Directory Listing
Modified Wed Feb 20 02:34:18 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
changing images in cook gravity


Revision 4223 - Directory Listing
Modified Wed Feb 20 01:47:26 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
$#@%%^@(!


Revision 4222 - Directory Listing
Modified Wed Feb 20 01:27:40 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Disabled docs about NonlinearPDE and removed inversion from user's guide.


Revision 4221 - Directory Listing
Modified Wed Feb 20 01:24:29 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
The numpy 1.7 macro does not help since the new style API/macros are not
present in 1.6. So when compiling with numpy 1.7 werror needs to be set to
False.


Revision 4220 - Directory Listing
Modified Wed Feb 20 01:17:30 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
adding gravity images with color bar in a folder


Revision 4219 - Directory Listing
Modified Wed Feb 20 00:26:19 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Not sure why, but this fixes all failures in the linearPDE tests with ripley.


Revision 4218 - Directory Listing
Modified Tue Feb 19 06:11:35 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Added gravity data in ER Mapper format and inversion script for it.


Revision 4217 - Directory Listing
Modified Tue Feb 19 06:09:51 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
numpy 1.7 introduced a warning for deprecation of certain APIs. We have to
acknowledge that to get rid of the warning...


Revision 4216 - Directory Listing
Modified Tue Feb 19 05:15:38 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Report if pyproj is available.


Revision 4215 - Directory Listing
Modified Tue Feb 19 02:52:40 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
adding gravity coarse data


Revision 4214 - Directory Listing
Modified Tue Feb 19 02:42:43 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Added capstartfalse/true to escript cookbook figures with no caption so
the build succeeds with the hypcap package enabled.


Revision 4213 - Directory Listing
Modified Tue Feb 19 01:16:29 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Some cleanup and more consistent logging.


Revision 4212 - Directory Listing
Modified Tue Feb 19 00:11:28 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Even friendlier message when pyproj is not installed but required.


Revision 4211 - Directory Listing
Modified Mon Feb 18 23:54:46 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Implemented interpolation from Reduced[Face]Elements to [Face]Elements and
changed regularization to compute gradient on Function instead of
ReducedFunction. Results differ slightly so this should help with the accuracy.


Revision 4210 - Directory Listing
Modified Mon Feb 18 23:47:09 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
Added suggests for new libraries used by downunder.


Revision 4209 - Directory Listing
Modified Mon Feb 18 06:00:56 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Fixed joint example file, added ER Mapper plot script, updated content file.


Revision 4208 - Directory Listing
Modified Mon Feb 18 05:02:28 2013 UTC (4 years, 9 months ago) by jfenwick
Original Path: trunk
rename so the poor case-sensitive mac can checkout

Revision 4207 - Directory Listing
Modified Mon Feb 18 03:17:11 2013 UTC (4 years, 9 months ago) by azadeh
Original Path: trunk
adding bar for gravity image


Revision 4206 - Directory Listing
Modified Sun Feb 17 23:32:07 2013 UTC (4 years, 9 months ago) by caltinay
Original Path: trunk
Import minimizers by default so the exception classes are exposed.


Revision 4205 - Directory Listing
Modified Fri Feb 15 06:02:07 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Work on inversion cookbook. Also tweak to hyperref and a few more references.


Revision 4204 - Directory Listing
Modified Thu Feb 14 08:06:26 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
more on gravity and cleaning up file names

Revision 4203 - Directory Listing
Modified Thu Feb 14 07:05:58 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
Clarification of file names.

Revision 4202 - Directory Listing
Modified Thu Feb 14 06:53:41 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
Some adjustments to the sturture and naming

Revision 4201 - Directory Listing
Modified Thu Feb 14 06:40:01 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
DomainBuilder now ensures all data is in same UTM zone (with test).


Revision 4200 - Directory Listing
Modified Thu Feb 14 04:35:38 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
adding content folder to show input files


Revision 4199 - Directory Listing
Modified Wed Feb 13 08:39:05 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
more in the inversion cook-book

Revision 4198 - Directory Listing
Modified Wed Feb 13 06:49:10 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
name adjustments and remove unused files

Revision 4197 - Directory Listing
Modified Wed Feb 13 05:53:19 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Changes to netCDF data source:
-removed assumptions
-added parameters to override data/error variable names, scale factor and null
value.


Revision 4196 - Directory Listing
Modified Wed Feb 13 00:58:37 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Small fix so ERS files with DOS newline are parsed correctly.


Revision 4195 - Directory Listing
Modified Tue Feb 12 04:08:19 2013 UTC (4 years, 10 months ago) by jfenwick
Original Path: trunk
Fixing case mismatch that was preventing bibtex from building

Revision 4194 - Directory Listing
Modified Tue Feb 12 03:04:17 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
Fixing some naming clashes

Revision 4193 - Directory Listing
Modified Tue Feb 12 00:59:49 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
reference


Revision 4192 - Directory Listing
Modified Tue Feb 12 00:28:47 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
problem with nc reader for dudley and finley fixed: the reader builds now the taginuse lists.

Revision 4191 - Directory Listing
Modified Mon Feb 11 08:22:47 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
more on gravity cook book

Revision 4190 - Directory Listing
Modified Mon Feb 11 05:10:00 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
unit gal added

Revision 4189 - Directory Listing
Modified Mon Feb 11 04:17:00 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
some images added

Revision 4188 - Directory Listing
Modified Mon Feb 11 01:51:22 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Removed unneeded (large) result files.


Revision 4187 - Directory Listing
Modified Mon Feb 11 01:05:10 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
adding gravity magnetic and joint inversion files in netcdf format 


Revision 4186 - Directory Listing
Modified Mon Feb 11 00:47:34 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
adding gravity plots with different Mu


Revision 4185 - Directory Listing
Modified Fri Feb 8 09:06:21 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
modifications to cookbook

Revision 4184 - Directory Listing
Modified Fri Feb 8 04:33:48 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
new images in cookgravity


Revision 4183 - Directory Listing
Modified Mon Feb 4 02:58:02 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
joint result image updated


Revision 4182 - Directory Listing
Modified Fri Feb 1 02:29:53 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Revised Intro/Overview text.


Revision 4181 - Directory Listing
Modified Fri Feb 1 02:16:56 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
cook joint


Revision 4180 - Directory Listing
Modified Thu Jan 31 04:58:16 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
updating


Revision 4179 - Directory Listing
Modified Thu Jan 31 04:30:50 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
More doco.


Revision 4178 - Directory Listing
Modified Thu Jan 31 03:18:56 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Some more doco.


Revision 4177 - Directory Listing
Modified Thu Jan 31 02:23:02 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
cook joint and magnetic


Revision 4176 - Directory Listing
Modified Wed Jan 30 05:30:30 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Removed tests that are known not to work.


Revision 4175 - Directory Listing
Modified Wed Jan 30 05:01:50 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
joint netcdf example and some minor fixes to other example/test case.


Revision 4174 - Directory Listing
Modified Wed Jan 30 03:21:27 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
ripley's readBinaryGrid and readNcGrid now filter out NaN leaving the relevant
destination data points untouched.


Revision 4173 - Directory Listing
Modified Wed Jan 30 03:05:01 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Do not use -ffast-math by default (see mantis 691).


Revision 4172 - Directory Listing
Modified Wed Jan 30 01:24:03 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
cookjoint
--This line, and those below, will be ignored

M    CookJoint.tex


Revision 4168 - Directory Listing
Modified Fri Jan 25 07:31:47 2013 UTC (4 years, 10 months ago) by jfenwick
Original Path: trunk
Release title and dep fix

Revision 4167 - Directory Listing
Modified Fri Jan 25 05:21:30 2013 UTC (4 years, 10 months ago) by jfenwick
Original Path: trunk
fixes for doco for earlier releases

Revision 4166 - Directory Listing
Modified Fri Jan 25 04:18:45 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
gravity


Revision 4165 - Directory Listing
Modified Fri Jan 25 01:07:57 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
joint


Revision 4164 - Directory Listing
Modified Thu Jan 24 05:34:13 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
netcdf data source description.


Revision 4163 - Directory Listing
Modified Thu Jan 24 05:03:48 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
changing


Revision 4162 - Directory Listing
Modified Thu Jan 24 03:53:19 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Added missing example file to display netcdf data.


Revision 4161 - Directory Listing
Modified Thu Jan 24 03:22:38 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
modifying 


Revision 4160 - Directory Listing
Modified Thu Jan 24 00:13:32 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Moved figures to subdir and added more DataSource doco.


Revision 4159 - Directory Listing
Modified Thu Jan 24 00:05:28 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
dding magnetic images


Revision 4158 - Directory Listing
Modified Wed Jan 23 07:02:21 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Write output even when max iterations reached.


Revision 4157 - Directory Listing
Modified Wed Jan 23 03:52:07 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
added magnetic netcdf example (no data yet).


Revision 4156 - Directory Listing
Modified Wed Jan 23 03:45:14 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
changes in document


Revision 4155 - Directory Listing
Modified Wed Jan 23 00:05:03 2013 UTC (4 years, 10 months ago) by jfenwick
Original Path: trunk
Removed some incorrect ACcESS copyright attributions [2010 or later] since ACcESS did not exist at that point. Also added 2013 to a couple of files which I missed.

Revision 4154 - Directory Listing
Modified Tue Jan 22 09:30:23 2013 UTC (4 years, 10 months ago) by jfenwick
Original Path: trunk
Round 1 of copyright fixes

Revision 4153 - Directory Listing
Modified Tue Jan 22 01:57:50 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
no driver example added. Doe not work yet.

Revision 4152 - Directory Listing
Modified Tue Jan 22 00:29:03 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Moved figures to subdirectory.


Revision 4151 - Directory Listing
Modified Tue Jan 22 00:23:39 2013 UTC (4 years, 10 months ago) by azadeh
Original Path: trunk
update joint and magnetic cookbook.


Revision 4150 - Directory Listing
Modified Mon Jan 21 04:14:24 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Raise an exception if some methods are called after domain creation.


Revision 4149 - Directory Listing
Modified Mon Jan 21 02:03:31 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Checkpoint - DomainBuilder documented.


Revision 4148 - Directory Listing
Modified Mon Jan 21 01:04:20 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Updated netcdf gravity inversion example.


Revision 4147 - Directory Listing
Modified Fri Jan 18 03:35:15 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
added some words in the overview and clean-up of bib.

Revision 4146 - Directory Listing
Modified Fri Jan 18 01:36:49 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
some remarks on the class dependency added.

Revision 4145 - Directory Listing
Modified Fri Jan 18 00:51:49 2013 UTC (4 years, 10 months ago) by caltinay
Original Path: trunk
Checkpoint.


Revision 4144 - Directory Listing
Modified Fri Jan 18 00:34:21 2013 UTC (4 years, 10 months ago) by gross
Original Path: trunk
new diagrams

Revision 4143 - Directory Listing
Modified Thu Jan 17 08:48:47 2013 UTC (4 years, 11 months ago) by gross
Original Path: trunk
documentation of minimizer update plus clarification of notations on the code

Revision 4142 - Directory Listing
Modified Tue Jan 15 09:06:06 2013 UTC (4 years, 11 months ago) by gross
Original Path: trunk
documentation of inversion cost function added

Revision 4141 - Directory Listing
Modified Tue Jan 15 04:11:12 2013 UTC (4 years, 11 months ago) by jfenwick
Original Path: trunk
Fixed to scripts to allow doco to build in pbuilder.
Looking for libraries in the place they were built is a good I've found.


Revision 4140 - Directory Listing
Modified Tue Jan 15 02:34:41 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Updated example inversion files.


Revision 4139 - Directory Listing
Modified Tue Jan 15 00:13:28 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Added L-BFGS reference and some minor changes.


Revision 4138 - Directory Listing
Modified Mon Jan 14 23:57:00 2013 UTC (4 years, 11 months ago) by gross
Original Path: trunk
some rearrangement of part II

Revision 4137 - Directory Listing
Modified Mon Jan 14 22:59:13 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Disabled another test.


Revision 4136 - Directory Listing
Modified Mon Jan 14 05:20:34 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
clarifications about cartesian domain


Revision 4135 - Directory Listing
Modified Mon Jan 14 04:54:14 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Fixed test file.


Revision 4134 - Directory Listing
Modified Sun Jan 13 23:24:35 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Removed failing test.


Revision 4133 - Directory Listing
Modified Fri Jan 11 06:41:10 2013 UTC (4 years, 11 months ago) by gross
Original Path: trunk
some documentation on Inversion Cost function added.

Revision 4132 - Directory Listing
Modified Fri Jan 11 05:46:49 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Range of epydoc fixes.


Revision 4131 - Directory Listing
Modified Fri Jan 11 03:54:16 2013 UTC (4 years, 11 months ago) by gross
Original Path: trunk
documentaion of inversion driver API added.

Revision 4130 - Directory Listing
Modified Thu Jan 10 03:38:17 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Do not end document after chapter :-)


Revision 4129 - Directory Listing
Modified Thu Jan 10 03:30:45 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Fixed small typo


Revision 4128 - Directory Listing
Modified Thu Jan 10 02:04:08 2013 UTC (4 years, 11 months ago) by caltinay
Original Path: trunk
Use fixed low number of iterations for the callback test.


Revision 4127 - Directory Listing
Modified Thu Jan 10 00:46:56 2013 UTC (4 years, 11 months ago) by azadeh
Original Path: trunk
add documentation for gravity.


Revision 4126 - Directory Listing
Modified Tue Jan 8 02:37:48 2013 UTC (4 years, 11 months ago) by gross
Original Path: trunk
some work on the level set class. no testing yet.

Revision 4125 - Directory Listing
Modified Wed Jan 2 06:15:00 2013 UTC (4 years, 11 months ago) by gross
Original Path: trunk
some fixes in the inversion set-up

Revision 4124 - Directory Listing
Modified Fri Dec 21 01:35:43 2012 UTC (4 years, 11 months ago) by gross
Original Path: trunk
joint inversion added

Revision 4123 - Directory Listing
Modified Thu Dec 20 23:47:55 2012 UTC (4 years, 11 months ago) by gross
Original Path: trunk
small fix

Revision 4122 - Directory Listing
Modified Thu Dec 20 05:42:35 2012 UTC (4 years, 11 months ago) by gross
Original Path: trunk
More work towards joint inversion. There is now one class for inversion cost function which can handle all relevant cases 
for a single model inversion, cross gradient case and functional dependence of physical parameters.



Revision 4121 - Directory Listing
Modified Wed Dec 19 00:24:50 2012 UTC (4 years, 11 months ago) by gross
Original Path: trunk
changes to the boundary conditions.

Revision 4120 - Directory Listing
Modified Tue Dec 18 04:49:37 2012 UTC (4 years, 11 months ago) by gross
Original Path: trunk
some improvements to the robutness of the minimizer:
  a break down in the orthogonalization is hnadles via a restart.
  a restart can now be set manually
  the iteration throughs now an exception in case of failure.

It is also possible to set the density anomaly to zero for regions below a certain depth. 





Revision 4119 - Directory Listing
Modified Mon Dec 17 04:53:15 2012 UTC (5 years ago) by gross
Original Path: trunk
some adjustments to the documentation

Revision 4118 - Directory Listing
Modified Mon Dec 17 00:50:47 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Some tweaks for auto building - need more though

Revision 4117 - Directory Listing
Modified Fri Dec 14 07:29:35 2012 UTC (5 years ago) by gross
Original Path: trunk
some adjustments with names

Revision 4116 - Directory Listing
Modified Fri Dec 14 07:21:14 2012 UTC (5 years ago) by gross
Original Path: trunk
tests for oscillatory data added.

Revision 4115 - Directory Listing
Modified Fri Dec 14 04:48:48 2012 UTC (5 years ago) by gross
Original Path: trunk
terminolgy for magnetic flux density clarified. clean up on synthetic data

Revision 4114 - Directory Listing
Modified Fri Dec 14 04:24:46 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Time to remove deprecated saveVTK/DX methods from Data and Domain.


Revision 4113 - Directory Listing
Modified Fri Dec 14 01:54:53 2012 UTC (5 years ago) by caltinay
Original Path: trunk
shake29 options file.


Revision 4112 - Directory Listing
Modified Fri Dec 14 01:51:30 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Added simple gravity inversion example to be included in cookbook.


Revision 4111 - Directory Listing
Modified Fri Dec 14 01:46:13 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Fixed the genrst script to be executable

Revision 4110 - Directory Listing
Modified Fri Dec 14 01:21:33 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Fixed to use whatever python is leading the path.
Disabled epydoc


Revision 4109 - Directory Listing
Modified Fri Dec 14 01:08:52 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Fixed tests.


Revision 4108 - Directory Listing
Modified Thu Dec 13 06:38:11 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Changed methods to add padding areas.


Revision 4107 - Directory Listing
Modified Thu Dec 13 05:54:03 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Now building doc using sphinx. Doc builds will fail until I get stuff installed on savanna

Revision 4106 - Directory Listing
Modified Thu Dec 13 05:08:44 2012 UTC (5 years ago) by gross
Original Path: trunk
some clarification on how to handle back ground magnetic field plus renaming of SyntheticData

Revision 4105 - Directory Listing
Modified Thu Dec 13 04:11:59 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Updated test to reflect interface changes.


Revision 4104 - Directory Listing
Modified Thu Dec 13 03:30:23 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Ensuring we are using new-style classes
This may not be strictly necessary since our code does not depend on the difference.


Revision 4103 - Directory Listing
Modified Wed Dec 12 07:03:02 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Got rid of some unwanted sidebar elts. Correctly detect standalone functions exposed by boost

Revision 4102 - Directory Listing
Modified Wed Dec 12 06:17:03 2012 UTC (5 years ago) by gross
Original Path: trunk
more improvements on rescaling of weights. We now try to balance the gradients rather than the values.

Revision 4101 - Directory Listing
Modified Wed Dec 12 04:22:58 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
First attempt at a sphinx generated API docs
In the project root:

mkdir doctest
python doc/sphinx_api/genrst.py
cd doctest
make html

should do



Revision 4100 - Directory Listing
Modified Tue Dec 11 06:55:20 2012 UTC (5 years ago) by gross
Original Path: trunk
minimizer uses now a relative change to solution to terminate iteration. Gravity still has problems

Revision 4099 - Directory Listing
Modified Tue Dec 11 04:04:47 2012 UTC (5 years ago) by gross
Original Path: trunk
Clarification of terminology and scaling.
Joint inversion is not working yet.


Revision 4098 - Directory Listing
Modified Fri Dec 7 03:45:20 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Unbroke my breakage.


Revision 4097 - Directory Listing
Modified Fri Dec 7 01:18:35 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Minor edits.


Revision 4096 - Directory Listing
Modified Thu Dec 6 04:05:29 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
temporary doc fixes and moving tsunami out of the way

Revision 4095 - Directory Listing
Modified Wed Dec 5 05:32:22 2012 UTC (5 years ago) by caltinay
Original Path: trunk
A bit of doco cleanup.


Revision 4094 - Directory Listing
Modified Mon Dec 3 23:28:38 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Fixed typo.


Revision 4093 - Directory Listing
Modified Fri Nov 30 04:52:01 2012 UTC (5 years ago) by gross
Original Path: trunk
There is now a coherent implementation of gravity and magnetic forward model including an update of the user's guide.

Revision 4092 - Directory Listing
Modified Thu Nov 29 10:42:39 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Minor change. Test commit.


Revision 4091 - Directory Listing
Modified Mon Nov 26 10:27:29 2012 UTC (5 years ago) by gross
Original Path: trunk
Some terminology introduced and magnetic inversion corrected.

Revision 4090 - Directory Listing
Modified Mon Nov 26 03:51:04 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Savanna tweaks.


Revision 4089 - Directory Listing
Modified Fri Nov 23 04:41:54 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Switch to new toolchain on Savanna.


Revision 4088 - Directory Listing
Modified Thu Nov 22 23:31:37 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Use kronecker, not numpy's identity in wave (why do these issues come up now?)


Revision 4087 - Directory Listing
Modified Thu Nov 22 22:28:01 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Moved matplotlib imports in test scripts before escript since there is an
import chain which pulls it so the use() function has no effect.


Revision 4086 - Directory Listing
Modified Wed Nov 21 02:48:12 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Doco for 1D interpolation [resolves #631]

Revision 4085 - Directory Listing
Modified Tue Nov 20 07:04:11 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
nonuniformInterolate and Slope added.
Doco later


Revision 4084 - Directory Listing
Modified Tue Nov 20 06:22:07 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Adding some linebreaks

Revision 4083 - Directory Listing
Modified Mon Nov 19 22:19:42 2012 UTC (5 years ago) by caltinay
Original Path: trunk
removed manually set weights from scripts.


Revision 4082 - Directory Listing
Modified Mon Nov 19 06:16:06 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Minor changes to install doco

Revision 4081 - Directory Listing
Modified Mon Nov 19 02:35:18 2012 UTC (5 years ago) by caltinay
Original Path: trunk
Updated unit test to test LinearMapping instead of old ScalingMapping


Revision 4080 - Directory Listing
Modified Mon Nov 19 01:45:38 2012 UTC (5 years ago) by jfenwick
Original Path: trunk
Epydoc fixes


Revision 4079 - Directory Listing
Modified Fri Nov 16 07:59:01 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
some modifications to scaling in downunder. still not perfect.

Revision 4078 - Directory Listing
Modified Fri Nov 16 07:50:49 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Unit tests for binary install with no scons and no source tree.
Script for installing and testing a .deb within a chroot.




Revision 4077 - Directory Listing
Modified Fri Nov 16 04:31:02 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Minor change.


Revision 4076 - Directory Listing
Modified Thu Nov 15 03:45:24 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
    def getDirectionalDerivative(self, m, d, grad_m):
        

Revision 4075 - Directory Listing
Modified Thu Nov 15 03:31:37 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
missing latex files

Revision 4074 - Directory Listing
Modified Thu Nov 15 03:30:59 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
this will break the downundermodule: major revision of the classes.

Revision 4073 - Directory Listing
Modified Thu Nov 15 03:28:33 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Fixing doco build error


Revision 4072 - Directory Listing
Modified Thu Nov 15 01:58:35 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Fix to prevent escript from segfaulting on quantal


Revision 4071 - Directory Listing
Modified Tue Nov 13 21:43:11 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
small fix

Revision 4070 - Directory Listing
Modified Tue Nov 13 07:55:22 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
File for quantal. Now to work out why on earth quantal manages to make epydoc segfault


Revision 4069 - Directory Listing
Modified Tue Nov 13 07:47:16 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
ArithmeticTuple supports empty data object as components now.

Revision 4068 - Directory Listing
Modified Tue Nov 13 04:42:08 2012 UTC (5 years, 1 month ago) by vboros
Original Path: trunk
Small corrections to the magnetic forward model



Revision 4067 - Directory Listing
Modified Mon Nov 12 07:35:14 2012 UTC (5 years, 1 month ago) by vboros
Original Path: trunk
Magnetostatics background added



Revision 4066 - Directory Listing
Modified Mon Nov 12 06:18:47 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
renaming wheezyoptions file

Revision 4065 - Directory Listing
Modified Mon Nov 12 04:47:32 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Trying without uml

Revision 4064 - Directory Listing
Modified Fri Nov 9 07:25:14 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Tweaks

Revision 4063 - Directory Listing
Modified Fri Nov 9 06:15:00 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Fixed a typo in method description.


Revision 4062 - Directory Listing
Modified Fri Nov 9 04:53:08 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Start of module reference section in inversion guide.


Revision 4061 - Directory Listing
Modified Fri Nov 9 04:05:28 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Updated data source test cases.


Revision 4060 - Directory Listing
Modified Fri Nov 9 03:50:19 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
-Overhaul of inversion data sources. Domain is now generated and managed by separate class.
-Removed UBCDataSource which was only used for testing.
-Updated example scripts.


Revision 4059 - Directory Listing
Modified Fri Nov 9 03:20:23 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Start of substitution for rules


Revision 4058 - Directory Listing
Modified Fri Nov 2 06:47:06 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
-Ripley now checks for input fs when calling gradient
-interactive mode works again when filename is supplied (typo)
-forward model PDE sets symmetry on now


Revision 4057 - Directory Listing
Modified Fri Nov 2 04:15:09 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
toc/hyperref fixes for inversion pdf.


Revision 4056 - Directory Listing
Modified Thu Nov 1 07:20:38 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Allow doxygen to build in another target
Debian build stuff begins


Revision 4055 - Directory Listing
Modified Thu Nov 1 00:22:01 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
Renaming of filenames

Revision 4054 - Directory Listing
Modified Wed Oct 31 23:27:57 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
prilimary checkin 

Revision 4053 - Directory Listing
Modified Wed Oct 31 07:27:35 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Do not fix potential on sides of domain by default.


Revision 4052 - Directory Listing
Modified Wed Oct 31 05:50:35 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
missing references added (mantis id=683)

Revision 4051 - Directory Listing
Modified Wed Oct 31 03:40:47 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Split inversion cookbook into two parts...


Revision 4050 - Directory Listing
Modified Wed Oct 31 01:01:24 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Changed initial Hessian in magnetic test and removed some debug output.


Revision 4049 - Directory Listing
Modified Wed Oct 31 00:50:50 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Fixed typos.


Revision 4048 - Directory Listing
Modified Tue Oct 30 21:54:15 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
fixed modification in the DataSource creator

Revision 4047 - Directory Listing
Modified Tue Oct 30 09:10:07 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
More on magnetic inversion

Revision 4046 - Directory Listing
Modified Tue Oct 30 04:43:25 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Deprecated saveDX and made sure DeprecationWarnings are shown (py2.7 disabled
those). Also a fix to $BUILD_DIR being non-absolute.


Revision 4045 - Directory Listing
Modified Tue Oct 30 03:57:22 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Imported inversion cookbook.


Revision 4044 - Directory Listing
Modified Tue Oct 30 03:35:17 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Some doco fixes for downunder.


Revision 4043 - Directory Listing
Modified Tue Oct 30 03:34:43 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Compile fixes for install guide.


Revision 4042 - Directory Listing
Modified Mon Oct 29 05:55:58 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
New SaveSilo tests (only run if Silo module available and MPI size=1).
Tests are somewhat limited due to missing functionality in Silo module (devs
contacted about that).


Revision 4041 - Directory Listing
Modified Sun Oct 28 23:42:35 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Fixed a typo


Revision 4040 - Directory Listing
Modified Sun Oct 28 22:37:45 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Some py3 changes that didn't get committed for some reason


Revision 4039 - Directory Listing
Modified Fri Oct 26 07:34:06 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
magnetic inversion added

Revision 4038 - Directory Listing
Modified Fri Oct 26 04:47:25 2012 UTC (5 years, 1 month ago) by jfenwick
Original Path: trunk
Minor fix to control file

Revision 4037 - Directory Listing
Modified Fri Oct 26 03:04:30 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
some modifictaions to make implementation for magnetic inversion easier

Revision 4036 - Directory Listing
Modified Thu Oct 25 06:21:03 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Added saveVTK tests for ripley domains.


Revision 4035 - Directory Listing
Modified Thu Oct 25 03:10:14 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Tweaked scons files so tests work even when specifying non-absolute build_dir.


Revision 4034 - Directory Listing
Modified Thu Oct 25 02:54:01 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Fixes to inversion. Using resetRightHandSideCoefficients() now.


Revision 4033 - Directory Listing
Modified Wed Oct 24 08:14:41 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
some typos fixed.

Revision 4032 - Directory Listing
Modified Wed Oct 24 08:06:15 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
Gravity inversion is disconnect from DataSource objects now in order to allow for more  flexibility
when it comes to the definition of of Mapping and Regulariztion. GravityInversion does not hold a reference to the datasource object anymore.

use   inv=GravityInversion()
      inv.setUp(datasource) 

rather than inv.setDataSource(datasource); inv.setUp()




Revision 4031 - Directory Listing
Modified Wed Oct 24 03:36:37 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Added option -x to run xterm to run-escript and replaced a few bashims.


Revision 4030 - Directory Listing
Modified Wed Oct 24 00:57:36 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Silenced the no-visit-in-path warning and fixed not-in-path run-escript in
utest.sh.


Revision 4029 - Directory Listing
Modified Wed Oct 24 00:29:15 2012 UTC (5 years, 1 month ago) by caltinay
Original Path: trunk
Reapplied changes from rev. 3853 which got lost in a merge...


Revision 4028 - Directory Listing
Modified Tue Oct 23 05:16:38 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
changes in pycad to address feature request 0000661

Revision 4027 - Directory Listing
Modified Tue Oct 23 04:56:33 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
setting a constant value to the initial solution of the Transport problem 
had a problem. initial data object needs to be expanded before copied to the 
paso transport object.




Revision 4026 - Directory Listing
Modified Tue Oct 23 03:12:50 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
missing file

Revision 4025 - Directory Listing
Modified Mon Oct 22 08:18:47 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
 linearPDE.resetRightHandSideCoefficients has been implemented and tested.

Revision 4024 - Directory Listing
Modified Mon Oct 22 06:11:29 2012 UTC (5 years, 1 month ago) by gross
Original Path: trunk
tag testing for finley and dudley files added.

Revision 4023 - Directory Listing
Modified Tue Oct 16 04:17:48 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Another fix to the PDE assembly logic in ripley.


Revision 4022 - Directory Listing
Modified Mon Oct 15 23:52:24 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Fixed checks in ripley::addPDEToRHS().


Revision 4021 - Directory Listing
Modified Mon Oct 15 02:31:00 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
Doco fixes.
Unit test fix for sys.version_info type change


Revision 4020 - Directory Listing
Modified Thu Oct 11 22:27:33 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Removed print() that slipped in in last commit.


Revision 4019 - Directory Listing
Modified Thu Oct 11 08:12:55 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
More tabbing errors,
range/xrange
...

Revision 4018 - Directory Listing
Modified Thu Oct 11 04:43:39 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
Used "new" raise syntax in a few places
Fixed some tabbing
Fixed some funnies involving changes to xrange/range
added a quick and nasty __hash__ function to Symbol
   def __hash__(self):
        return id(self)
This does mean that __hash__ and == do not match exactly.   Not sure if that matters for our purposes

Revision 4017 - Directory Listing
Modified Thu Oct 11 03:13:28 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Modified a test so roundoff errors don't cause failures.


Revision 4016 - Directory Listing
Modified Tue Oct 9 03:50:27 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Skip data source tests under MPI for now as there is no straightforward way
of comparing the data (saveVTK appears to be the best option).


Revision 4015 - Directory Listing
Modified Mon Oct 8 01:19:04 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Updated savanna options file to use latest compiler, mkl


Revision 4014 - Directory Listing
Modified Thu Oct 4 03:28:35 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Changed data source to use ripley's netCDF reader,
added tests and changed ERMapper test to have different x and y sizes.


Revision 4013 - Directory Listing
Modified Thu Oct 4 03:13:27 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Implemented netCDF grid reader analogous to binary grid reader in ripley.


Revision 4012 - Directory Listing
Modified Wed Oct 3 02:25:10 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Initialize X_reduced in forward model to avoid issues later on.


Revision 4011 - Directory Listing
Modified Wed Oct 3 00:47:55 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Updated test reference file.


Revision 4010 - Directory Listing
Modified Tue Oct 2 06:57:11 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Fixed a potential div by zero in ripley's automatic domain subdivider....


Revision 4009 - Directory Listing
Modified Tue Oct 2 05:53:37 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
don't try to flip y-coord in reader. some more fixes and doco.


Revision 4008 - Directory Listing
Modified Tue Oct 2 04:33:27 2012 UTC (5 years, 2 months ago) by gross
Original Path: trunk
point coordinates are now written in %.14e rather then %f. This fixes accuracy problems when it comes to geometrically small domains.



Revision 4007 - Directory Listing
Modified Tue Oct 2 02:12:01 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Doco updates.
Data source paddings now take x,y not xy,z as Z padding can be done by setting
vertical extents.


Revision 4006 - Directory Listing
Modified Fri Sep 28 06:16:46 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Update vm options to use pip-installed numpy.


Revision 4005 - Directory Listing
Modified Fri Sep 28 06:09:03 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
test fixes, doco updates, annoyance removals.


Revision 4004 - Directory Listing
Modified Fri Sep 28 04:45:25 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
don't use escript.escript.Data...


Revision 4003 - Directory Listing
Modified Fri Sep 28 00:20:01 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
Load balancing on unit tests

Revision 4002 - Directory Listing
Modified Fri Sep 28 00:16:56 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Fixed a memory leak (freeing paso coupler) in ripley.


Revision 4001 - Directory Listing
Modified Thu Sep 27 01:35:52 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Removed obsolete files.


Revision 4000 - Directory Listing
Modified Thu Sep 27 01:32:07 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
s/escript/escore/


Revision 3999 - Directory Listing
Modified Thu Sep 27 01:31:07 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
Splitting tests


Revision 3998 - Directory Listing
Modified Thu Sep 27 01:17:28 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Finley now throws in ownSample() for reduced function with mpisize>1.


Revision 3997 - Directory Listing
Modified Thu Sep 27 01:09:12 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Add note to documentation that saveDataCSV will not work in all cases.


Revision 3996 - Directory Listing
Modified Thu Sep 27 00:54:10 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Don't test saveCSV for cases it does not work with.


Revision 3995 - Directory Listing
Modified Wed Sep 26 12:43:17 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
More module fiddles

Revision 3994 - Directory Listing
Modified Wed Sep 26 07:38:38 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
Install doco still needs work.
Removing some of the weird:
     esys.finley.finley
type modules

Revision 3993 - Directory Listing
Modified Wed Sep 26 07:00:55 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Addressing mantis 651. Test for finley will fail under MPI since there is
sth wrong with the way ReducedContinuousFunction samples are interrogated.


Revision 3992 - Directory Listing
Modified Wed Sep 26 02:50:48 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Data.cpp: Removed some namespace ambiguities which fixes doxygen warnings, some
cleanup and reindent.
*: doxygen fixes.


Revision 3991 - Directory Listing
Modified Tue Sep 25 23:52:22 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Updated doxygen cfg file and made a few first changes to doco.


Revision 3990 - Directory Listing
Modified Tue Sep 25 05:03:20 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
First set of assorted epydoc fixes/additions.


Revision 3989 - Directory Listing
Modified Tue Sep 25 02:21:54 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
More copyright fixes.
pyvisi traces removed.
Some install doco

Revision 3988 - Directory Listing
Modified Mon Sep 24 01:08:19 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Scale coordinates if pyproj is not available


Revision 3987 - Directory Listing
Modified Sun Sep 23 23:24:37 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Fix to test which fails when ripley adjusts number of elements (domain decomp.)


Revision 3986 - Directory Listing
Modified Sun Sep 23 23:01:10 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Added explicit cast to make osx happy.


Revision 3985 - Directory Listing
Modified Fri Sep 21 06:44:17 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Unit test for ER Mapper reader.


Revision 3984 - Directory Listing
Modified Fri Sep 21 06:41:54 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
invert Y coordinate in ripley's 3d data reader. This needs to be configurable
and added to 2d as well...


Revision 3983 - Directory Listing
Modified Fri Sep 21 06:41:03 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Use ReducedFunction for data sources.


Revision 3982 - Directory Listing
Modified Fri Sep 21 03:23:22 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
More edits + removing pyvisi from trunk


Revision 3981 - Directory Listing
Modified Fri Sep 21 02:47:54 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
First pass of updating copyright notices

Revision 3980 - Directory Listing
Modified Fri Sep 21 01:55:39 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Now using NullCellValue to initialise data object for ERS reader.


Revision 3979 - Directory Listing
Modified Thu Sep 20 06:18:49 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Fixed tests under MPI.


Revision 3978 - Directory Listing
Modified Thu Sep 20 04:36:17 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Make sympy optional as it was intended initially. Trying to instantiate anything
from symbolic will raise an exception if sympy is not available.


Revision 3977 - Directory Listing
Modified Thu Sep 20 04:27:10 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Export KMP_MONITOR_STACKSIZE so tests work on savanna.


Revision 3976 - Directory Listing
Modified Thu Sep 20 03:26:47 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
fixed python-2.7'ism.


Revision 3975 - Directory Listing
Modified Thu Sep 20 01:54:06 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Merged symbolic branch into trunk. Curious what daniel and spartacus have to
say...


Revision 3972 - Directory Listing
Modified Wed Sep 19 03:08:39 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Can now constrain sides of domain.


Revision 3971 - Directory Listing
Modified Wed Sep 19 02:55:35 2012 UTC (5 years, 2 months ago) by caltinay
Original Path: trunk
Implemented binary grid reader in ripley which is now used in ER Mapper source.
Interface/details likely to change but need to get this running now.


Revision 3970 - Directory Listing
Modified Wed Sep 19 02:28:27 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
More install doc fixes


Revision 3969 - Directory Listing
Modified Tue Sep 18 05:34:38 2012 UTC (5 years, 2 months ago) by jfenwick
Original Path: trunk
Removing reference to nose


Revision 3968 - Directory Listing
Modified Mon Sep 17 06:30:02 2012 UTC (5 years, 3 months ago) by jfenwick
Original Path: trunk
Starting updates to the install guide


Revision 3967 - Directory Listing
Modified Mon Sep 17 04:02:58 2012 UTC (5 years, 3 months ago) by jfenwick
Original Path: trunk
Changes to SConstruct to allow building with clang


Revision 3966 - Directory Listing
Modified Mon Sep 17 00:45:39 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Changed unit scale for ER Mapper files. Fixed an issue with UBC source.


Revision 3965 - Directory Listing
Modified Fri Sep 14 01:23:17 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Data sources have to end up in the Function fs or we get into trouble when
interpolating. Now using setValueOfDataPoint() which doesn't seem to slow
things down too much.


Revision 3964 - Directory Listing
Modified Thu Sep 13 03:49:55 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Hopefully this will fix the interpolation in data sources.


Revision 3963 - Directory Listing
Modified Thu Sep 13 01:39:00 2012 UTC (5 years, 3 months ago) by jfenwick
Original Path: trunk
Fix to keep the warning-free-build happy


Revision 3962 - Directory Listing
Modified Tue Sep 11 09:12:07 2012 UTC (5 years, 3 months ago) by jfenwick
Original Path: trunk
Fix in brick for ambiguous typing.

Python work around for unit tests.
Passing cpp tests as well.

omp is disabled due to a weird linking error.


Revision 3961 - Directory Listing
Modified Tue Sep 11 07:21:41 2012 UTC (5 years, 3 months ago) by jfenwick
Original Path: trunk
Options file for mole.
Work around for python compile errors


Revision 3960 - Directory Listing
Modified Mon Sep 10 01:39:40 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Added accessors to fwd model, regularization and cost function plus access
to gravity survey data.


Revision 3959 - Directory Listing
Modified Fri Sep 7 04:48:07 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
support for geodetic coordinates in ER Mapper files. Correction to UTM
conversion (now assumes southern hemisphere).


Revision 3958 - Directory Listing
Modified Fri Sep 7 02:56:42 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Fixes to netcdf data source and new ERS (ER Mapper) datasource.


Revision 3957 - Directory Listing
Modified Wed Sep 5 23:49:23 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Do not require pyproj module-wide. Print a warning if it is not available but
needed instead of raising an exception.


Revision 3956 - Directory Listing
Modified Wed Sep 5 04:57:43 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Fixes to netcdf reader for inversions.


Revision 3955 - Directory Listing
Modified Tue Sep 4 01:44:41 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Added CentOS 6 vm options file.


Revision 3954 - Directory Listing
Modified Tue Sep 4 01:43:58 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Fixed an issue with incompatible nose.


Revision 3953 - Directory Listing
Modified Mon Sep 3 00:57:12 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Some test output adjustments.


Revision 3952 - Directory Listing
Modified Sun Sep 2 23:42:25 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Made a test slightly more relaxed since roundoff errors caused it to fail on
one system.


Revision 3951 - Directory Listing
Modified Tue Aug 28 23:58:08 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Fixed tests with python versions <2.7.


Revision 3950 - Directory Listing
Modified Fri Aug 24 06:10:02 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
More tests and corrections in the alternative minimizers.


Revision 3949 - Directory Listing
Modified Fri Aug 24 02:37:47 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Added tests for mappings.


Revision 3948 - Directory Listing
Modified Fri Aug 24 01:01:34 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Some interface changes to make the inversion more flexible.


Revision 3947 - Directory Listing
Modified Wed Aug 22 23:19:10 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Compiling and installing downunder module now. Adjusted import statements
accordingly. Added a gravity test run.


Revision 3946 - Directory Listing
Modified Wed Aug 22 02:08:12 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Initial import of inversion code from devteam area, rev. 51.
Nothing is scons built/installed/tested yet.


Revision 3945 - Directory Listing
Modified Tue Aug 21 04:11:13 2012 UTC (5 years, 3 months ago) by jfenwick
Original Path: trunk
Changing utest behaviour for MPI


Revision 3944 - Directory Listing
Modified Mon Aug 20 02:11:22 2012 UTC (5 years, 3 months ago) by caltinay
Original Path: trunk
Fixed ordering of Hex's in weipa's ripley writer.
Fixed an issue with auto domain subdivisions in ripley Brick.


Revision 3943 - Directory Listing
Modified Thu Aug 9 04:43:24 2012 UTC (5 years, 4 months ago) by caltinay
Original Path: trunk
Added heuristics for number of domain subdivisions to ripley so ripley domains
can now be created without specifying the values manually (but a warning will
be printed).


Revision 3942 - Directory Listing
Modified Fri Jul 27 01:04:48 2012 UTC (5 years, 4 months ago) by jfenwick
Original Path: trunk
Porting changes back from 3.3 release branch


Revision 3941 - Directory Listing
Modified Fri Jul 27 00:38:10 2012 UTC (5 years, 4 months ago) by jfenwick
Original Path: trunk
Some more test disabling


Revision 3940 - Directory Listing
Modified Thu Jul 26 05:54:58 2012 UTC (5 years, 4 months ago) by jfenwick
Original Path: trunk
Disabling tests which do not allow MPI
Previously we allowed these if there was only one rank


Revision 3939 - Directory Listing
Modified Mon Jul 23 01:50:46 2012 UTC (5 years, 4 months ago) by caltinay
Original Path: trunk
Added return value checks for freopen in mpi redirect code. Ubuntu has a
warn_unused_result attribute set for the function.
Re-indented the file while at it.


Revision 3934 - Directory Listing
Modified Fri Jul 13 09:01:16 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Added unit test for tagreader


Revision 3931 - Directory Listing
Modified Tue Jul 10 00:39:09 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Fixing spelling


Revision 3928 - Directory Listing
Modified Mon Jul 9 23:23:43 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Do not allow attempts to setValue using a Locator which does not match the funcionSpace of the Data


Revision 3927 - Directory Listing
Modified Mon Jul 9 11:11:47 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Avoid warning


Revision 3923 - Directory Listing
Modified Mon Jul 9 05:12:12 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Fixing build error.


Revision 3922 - Directory Listing
Modified Mon Jul 9 02:19:51 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Adds setvalue to locator
Addresses mantis #531


Revision 3921 - Directory Listing
Modified Thu Jul 5 05:02:49 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Fix build error


Revision 3920 - Directory Listing
Modified Thu Jul 5 03:42:30 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Copied over tagname reading stuff from finley


Revision 3919 - Directory Listing
Modified Thu Jul 5 03:12:02 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Don't know what caused this to show as an error.
Compiler update perhaps?




Revision 3918 - Directory Listing
Modified Thu Jul 5 02:44:07 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Added unit test which uses the TestDomain to check reduction.
TestDomains can no longer be created directly from python 
(fixes problem I had earlier)

TestDomain can now create testdomains with aribtrarily sized 
coordinate vectors.


Revision 3917 - Directory Listing
Modified Thu Jul 5 00:17:50 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Fixing a bug in lazy reduction operations.
Will add extra test to prevent regression once I can find out why the test is crashing


Revision 3916 - Directory Listing
Modified Wed Jul 4 06:16:52 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Deal correctly with scalars passed into inplace update operators.
Fixes mantis 669

Revision 3915 - Directory Listing
Modified Mon Jun 25 02:17:58 2012 UTC (5 years, 5 months ago) by caltinay
Original Path: trunk
Added declspecs for all ripley classes.


Revision 3914 - Directory Listing
Modified Wed Jun 20 04:51:47 2012 UTC (5 years, 5 months ago) by jfenwick
Original Path: trunk
Only allow setX from ContinuousFunctions.
This addresses mantis 644.

Revision 3913 - Directory Listing
Modified Tue Jun 19 06:21:58 2012 UTC (5 years, 5 months ago) by caltinay
Original Path: trunk
Fixed misuse of getSampleDataRO with lazy data in ripley.


Revision 3912 - Directory Listing
Modified Fri Jun 15 05:02:42 2012 UTC (5 years, 6 months ago) by jfenwick
Original Path: trunk
GetMeshFromFile wrapper to load .fly or .msh depending on the extension.
Note that this only works on one of the two formats named .msh

Addresses mantis issue 641.



Revision 3911 - Directory Listing
Modified Thu Jun 14 01:01:03 2012 UTC (5 years, 6 months ago) by jfenwick
Original Path: trunk
Copyright changes

Revision 3910 - Directory Listing
Modified Thu Jun 14 00:45:03 2012 UTC (5 years, 6 months ago) by gross
Original Path: trunk
Small bug fixed.

Revision 3909 - Directory Listing
Modified Wed Jun 13 07:03:06 2012 UTC (5 years, 6 months ago) by gross
Original Path: trunk
darcy solver removes hydrostatic pressure from problem now

Revision 3908 - Directory Listing
Modified Wed Jun 13 05:43:45 2012 UTC (5 years, 6 months ago) by caltinay
Original Path: trunk
Fixed an error in ripley computing shared node id's.
pythonMPIredirect now redirects again.


Revision 3907 - Directory Listing
Modified Fri Jun 8 01:20:09 2012 UTC (5 years, 6 months ago) by jfenwick
Original Path: trunk
Only switch on useElementsOnFace  by default where we actually support it


Revision 3906 - Directory Listing
Modified Thu Jun 7 11:00:50 2012 UTC (5 years, 6 months ago) by jfenwick
Original Path: trunk
Disable AMG on MPI builds


Revision 3905 - Directory Listing
Modified Tue Jun 5 08:33:41 2012 UTC (5 years, 6 months ago) by gross
Original Path: trunk
length scale changed

Revision 3904 - Directory Listing
Modified Tue Jun 5 08:30:24 2012 UTC (5 years, 6 months ago) by gross
Original Path: trunk
incorrect macro element argument removed

Revision 3903 - Directory Listing
Modified Tue Jun 5 08:26:20 2012 UTC (5 years, 6 months ago) by gross
Original Path: trunk
offset removed: not clear why this was there

Revision 3901 - Directory Listing
Modified Wed May 23 08:09:45 2012 UTC (5 years, 6 months ago) by jfenwick
Original Path: trunk
Rectangle and Brick use rich face element by default. 
This is to address issue #653

Updated unit tests to explicitly not use them where they didn't
specify previoulsy



Revision 3897 - Directory Listing
Modified Wed May 16 03:17:26 2012 UTC (5 years, 7 months ago) by jfenwick
Original Path: trunk
correcting example

Revision 3896 - Directory Listing
Modified Fri May 11 01:31:29 2012 UTC (5 years, 7 months ago) by caltinay
Original Path: trunk
Re-enable numpy header detection with python 2.


Revision 3895 - Directory Listing
Modified Mon Apr 16 00:09:42 2012 UTC (5 years, 8 months ago) by jfenwick
Original Path: trunk
Adding some files which went missing in the merge


Revision 3894 - Directory Listing
Modified Wed Apr 11 03:13:15 2012 UTC (5 years, 8 months ago) by jfenwick
Original Path: trunk
Still need to add notes to the install guide about Python3.


Revision 3893 - Directory Listing
Modified Wed Apr 11 01:40:10 2012 UTC (5 years, 8 months ago) by jfenwick
Original Path: trunk
Pycad now generates scripts with floating points at 6 decimal places.
Tests have been ammended to match this.


Revision 3892 - Directory Listing
Modified Tue Apr 10 08:57:23 2012 UTC (5 years, 8 months ago) by jfenwick
Original Path: trunk
Merged changes across from the attempt2 branch.
This version builds and passes python2 tests.
It also passes most python3 tests.




Revision 3887 - Directory Listing
Modified Thu Apr 5 03:14:59 2012 UTC (5 years, 8 months ago) by gross
Original Path: trunk
low level system in AMG is created one only now.

Revision 3886 - Directory Listing
Modified Thu Apr 5 00:50:30 2012 UTC (5 years, 8 months ago) by gross
Original Path: trunk
some minor problems with MPI AMG fixed.

Revision 3885 - Directory Listing
Modified Wed Apr 4 22:12:26 2012 UTC (5 years, 8 months ago) by gross
Original Path: trunk
some fix in AMG

Revision 3884 - Directory Listing
Modified Wed Apr 4 04:55:43 2012 UTC (5 years, 8 months ago) by gross
Original Path: trunk
some fix in AMG

Revision 3883 - Directory Listing
Modified Mon Mar 26 03:24:14 2012 UTC (5 years, 8 months ago) by caltinay
Original Path: trunk
Modified dlopenflags in escript's init module so newer MKL libraries can
successfully load support libraries.


Revision 3882 - Directory Listing
Modified Thu Mar 22 02:15:57 2012 UTC (5 years, 8 months ago) by caltinay
Original Path: trunk
Added another constraint for the numpy optimized array access: endianness.
The scipy netcdf reader gave me big endian data which resulted in garbage.
Can use the astype() method in python to convert.


Revision 3867 - Directory Listing
Modified Thu Mar 15 05:45:54 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
weipa treats shapes (1,) and (1,1) as scalars. Fixes bogus output in VTK writer.


Revision 3866 - Directory Listing
Modified Wed Mar 14 02:06:13 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Use system silo on guineapig now.


Revision 3865 - Directory Listing
Modified Mon Mar 12 23:49:05 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Re-enabled threaded MKL on epic.


Revision 3863 - Directory Listing
Modified Mon Mar 12 00:15:40 2012 UTC (5 years, 9 months ago) by gross
Original Path: trunk
some debug prints removed

Revision 3861 - Directory Listing
Modified Fri Mar 9 02:06:29 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Added options file that disables openMP and replaces the MKL library for savanna.


Revision 3853 - Directory Listing
Modified Thu Mar 1 07:25:03 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Fixed hybrid mode when using OpenMPI by adding --cpus-per-rank argument to
mpirun in the launcher. Updated epic options file accordingly.


Revision 3852 - Directory Listing
Modified Thu Mar 1 05:34:52 2012 UTC (5 years, 9 months ago) by jfenwick
Original Path: trunk
Correcting some indent errors


Revision 3851 - Directory Listing
Modified Wed Feb 29 05:23:30 2012 UTC (5 years, 9 months ago) by jfenwick
Original Path: trunk
Start of cross-compile build for py3

Revision 3850 - Directory Listing
Modified Tue Feb 28 06:04:42 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Support for CSC in ripley.


Revision 3843 - Directory Listing
Modified Mon Feb 27 05:50:58 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Updated epic options, disabled OpenMP until problems solved.


Revision 3842 - Directory Listing
Modified Mon Feb 27 04:19:16 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Updated savanna libraries and compiler version.


Revision 3841 - Directory Listing
Modified Mon Feb 27 04:18:53 2012 UTC (5 years, 9 months ago) by caltinay
Original Path: trunk
Added support for OFFSET1 matrices in ripley.


Revision 3837 - Directory Listing
Modified Thu Feb 16 03:58:58 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Test cleanup.


Revision 3836 - Directory Listing
Modified Thu Feb 16 03:17:18 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Transport problem support for ripley.


Revision 3835 - Directory Listing
Modified Wed Feb 15 23:19:01 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
and another attempt to fix MPI compilation

Revision 3834 - Directory Listing
Modified Wed Feb 15 07:09:09 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
some declaration problems fixed 

Revision 3833 - Directory Listing
Modified Wed Feb 15 06:19:45 2012 UTC (5 years, 10 months ago) by lgao
Original Path: trunk
Fix the merging problem for this file. 



Revision 3830 - Directory Listing
Modified Wed Feb 15 04:27:47 2012 UTC (5 years, 10 months ago) by lgao
Original Path: trunk
Add comments for Smoother 



Revision 3829 - Directory Listing
Modified Wed Feb 15 03:33:08 2012 UTC (5 years, 10 months ago) by lgao
Original Path: trunk
Fix warnings from another machine. 



Revision 3828 - Directory Listing
Modified Wed Feb 15 03:27:58 2012 UTC (5 years, 10 months ago) by lgao
Original Path: trunk
Fix all warnings reported on guineapig.



Revision 3827 - Directory Listing
Modified Tue Feb 14 11:42:08 2012 UTC (5 years, 10 months ago) by lgao
Original Path: trunk
 Merge branch "amg_from_3530" back into trunk.



Revision 3825 - Directory Listing
Modified Tue Feb 14 06:11:58 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
don't call MPI withing parallel regions

Revision 3824 - Directory Listing
Modified Tue Feb 14 01:22:16 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
fix for openmp

Revision 3823 - Directory Listing
Modified Mon Feb 13 08:09:32 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
some fixes for openmp/mpi compilation and linearNC can now handel constraints.

Revision 3822 - Directory Listing
Modified Mon Feb 13 06:22:06 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
Transport solver supports now constraints (except the linear CN)

Revision 3816 - Directory Listing
Modified Thu Feb 9 05:46:36 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
WrappedArray now honours the 'strides' field in the numpy array interface
and supports more data types. Fixes test failures on savanna which for some
reason did not surface on other machines.


Revision 3814 - Directory Listing
Modified Thu Feb 9 00:11:08 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Changes to savanna options file to use intel 12 and numpy 1.6.1.


Revision 3808 - Directory Listing
Modified Mon Feb 6 06:17:47 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
some modifications to the test examples

Revision 3807 - Directory Listing
Modified Mon Feb 6 06:14:25 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
LINEAR_CRANK_NICOLSON solver added

Revision 3806 - Directory Listing
Modified Mon Feb 6 02:32:48 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
ripley::getSize() also returns circumcircle now.


Revision 3805 - Directory Listing
Modified Mon Feb 6 01:42:20 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
return circumcircle  now.

Revision 3804 - Directory Listing
Modified Mon Feb 6 00:48:22 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Fixed utest.sh generator so tests can be run if the installation prefix is
not `pwd`


Revision 3803 - Directory Listing
Modified Fri Feb 3 06:16:30 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Fixes to ripley unit test setup


Revision 3802 - Directory Listing
Modified Fri Feb 3 06:05:57 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Quick fix for potential invalid memory access in paso.


Revision 3801 - Directory Listing
Modified Fri Feb 3 05:21:02 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Fixed OpenMP bug in paso local AMG.


Revision 3800 - Directory Listing
Modified Fri Feb 3 01:18:06 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Fixed integration with constant data on ripley.


Revision 3799 - Directory Listing
Modified Thu Feb 2 10:41:28 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
test for gradient of constant data added

Revision 3798 - Directory Listing
Modified Thu Feb 2 09:47:27 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
test for interpolation of constant data added

Revision 3797 - Directory Listing
Modified Thu Feb 2 09:28:59 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
test for integration of constant data added.

Revision 3796 - Directory Listing
Modified Thu Feb 2 06:26:15 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
typo in grad calculation fixed.

Revision 3795 - Directory Listing
Modified Thu Feb 2 05:54:34 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Had to remove 'nowait' directive from PDE boundary conditions since all
4 (2D) / 8 (3D) values are updated the way it is implemented. This caused
race conditions when updating RHS.


Revision 3794 - Directory Listing
Modified Wed Feb 1 23:02:26 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
uninitialied variable fixed.

Revision 3793 - Directory Listing
Modified Wed Feb 1 07:39:43 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
new implementation of FCT solver with some modifications to the python interface

Revision 3792 - Directory Listing
Modified Wed Feb 1 06:16:25 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Merged ripley rectangular domain into trunk.


Revision 3788 - Directory Listing
Modified Mon Jan 30 04:41:33 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Fixed showEscriptParams() which hasn't worked for 2 years or so.


Revision 3787 - Directory Listing
Modified Fri Jan 27 01:43:47 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Changed test cases from y.interpolateTable(...x...) to x.interpolateTable(...y...)


Revision 3786 - Directory Listing
Modified Wed Jan 25 04:46:39 2012 UTC (5 years, 10 months ago) by jfenwick
Original Path: trunk
Made 2D interpolation call consistant with 1D and 3D.
Doco updates later


Revision 3784 - Directory Listing
Modified Wed Jan 25 01:31:42 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Implemented optimized copy from numpy in WrappedArray (#652).


Revision 3782 - Directory Listing
Modified Tue Jan 24 01:30:38 2012 UTC (5 years, 10 months ago) by caltinay
Original Path: trunk
Another attempt to fix #649


Revision 3778 - Directory Listing
Modified Fri Jan 20 05:09:52 2012 UTC (5 years, 10 months ago) by gross
Original Path: trunk
better error reporting from UMFPACK

Revision 3775 - Directory Listing
Modified Wed Jan 18 07:26:34 2012 UTC (5 years, 11 months ago) by jfenwick
Original Path: trunk
Weipa updated


Revision 3774 - Directory Listing
Modified Wed Jan 18 06:29:34 2012 UTC (5 years, 11 months ago) by jfenwick
Original Path: trunk
dudley, pasowrap, pycad


Revision 3772 - Directory Listing
Modified Wed Jan 18 04:19:33 2012 UTC (5 years, 11 months ago) by jfenwick
Original Path: trunk
Converting finley directories


Revision 3771 - Directory Listing
Modified Wed Jan 18 02:30:48 2012 UTC (5 years, 11 months ago) by jfenwick
Original Path: trunk
First stage of 2.6/3 conversion


Revision 3747 - Directory Listing
Modified Thu Dec 15 02:13:14 2011 UTC (6 years ago) by gross
Original Path: trunk
inconsistent notation fixed.

Revision 3739 - Directory Listing
Modified Tue Dec 13 00:48:26 2011 UTC (6 years ago) by caltinay
Original Path: trunk
Ok, the python wrappers do use esysUtils for the exception translator.
Anything else?


Revision 3738 - Directory Listing
Modified Tue Dec 13 00:37:55 2011 UTC (6 years ago) by caltinay
Original Path: trunk
Windoze: Fixed warning and linker error
Don't look for non-existing pasowrap tests.


Revision 3737 - Directory Listing
Modified Tue Dec 13 00:04:39 2011 UTC (6 years ago) by caltinay
Original Path: trunk
Reordered and removed superfluous libraries from link lines. Hope W32 likes
that.


Revision 3736 - Directory Listing
Modified Mon Dec 12 01:26:51 2011 UTC (6 years ago) by jfenwick
Original Path: trunk
Fixed apparent multiple instances of Esys


Revision 3734 - Directory Listing
Modified Fri Dec 9 04:48:08 2011 UTC (6 years ago) by caltinay
Original Path: trunk
pycad kept creating temporary files. This should hopefully fix it.


Revision 3729 - Directory Listing
Modified Thu Dec 8 06:46:49 2011 UTC (6 years ago) by jfenwick
Original Path: trunk
Fixed mistake in Finley_Assemble_PDE and the dudley equivalent.

Cihan - you might want to look to see if Ripley is affected



Revision 3728 - Directory Listing
Modified Thu Dec 8 05:11:19 2011 UTC (6 years ago) by jfenwick
Original Path: trunk
Oops


Revision 3727 - Directory Listing
Modified Thu Dec 8 04:55:56 2011 UTC (6 years ago) by jfenwick
Original Path: trunk
More broken linkage


Revision 3726 - Directory Listing
Modified Thu Dec 8 04:35:52 2011 UTC (6 years ago) by jfenwick
Original Path: trunk
Fixing some broken linkage on windows


Revision 3723 - Directory Listing
Modified Wed Dec 7 05:59:04 2011 UTC (6 years ago) by caltinay
Original Path: trunk
Don't eat exceptions when using MPI with one rank.


Revision 3720 - Directory Listing
Modified Wed Dec 7 04:32:21 2011 UTC (6 years ago) by caltinay
Original Path: trunk
Fixed off-by-one error in FunctionSpace


Revision 3689 - Directory Listing
Modified Wed Nov 23 01:39:45 2011 UTC (6 years ago) by gross
Original Path: trunk
integration nodes fixed

Revision 3681 - Directory Listing
Modified Fri Nov 18 04:54:15 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Moved implementation of getTransportTypeId() and getSystemMatrixTypeId() into
pasowrap.


Revision 3678 - Directory Listing
Modified Thu Nov 17 06:32:05 2011 UTC (6 years, 1 month ago) by jfenwick
Original Path: trunk
Reversing other changes which made it in somehow


Revision 3677 - Directory Listing
Modified Thu Nov 17 04:01:12 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Fixed order of libraries which makes static esysUtils work again.


Revision 3676 - Directory Listing
Modified Thu Nov 17 03:52:25 2011 UTC (6 years, 1 month ago) by jfenwick
Original Path: trunk
Removed some debug text
Corrected some dudley where they should not have been.
Set savanna to build shared for now


Revision 3675 - Directory Listing
Modified Thu Nov 17 00:53:38 2011 UTC (6 years, 1 month ago) by jfenwick
Original Path: trunk
pasowrap joins the trunk.


Revision 3667 - Directory Listing
Modified Tue Nov 15 23:29:23 2011 UTC (6 years, 1 month ago) by gross
Original Path: trunk
better consistence of script and notation

Revision 3666 - Directory Listing
Modified Tue Nov 15 23:10:20 2011 UTC (6 years, 1 month ago) by gross
Original Path: trunk
fix for https://mantis.esscc.uq.edu.au/view.php?id=647

Revision 3650 - Directory Listing
Modified Fri Nov 4 07:02:55 2011 UTC (6 years, 1 month ago) by gross
Original Path: trunk
ode solver added

Revision 3649 - Directory Listing
Modified Fri Nov 4 04:35:15 2011 UTC (6 years, 1 month ago) by gross
Original Path: trunk
gmsh reader understand name tags now.

Revision 3648 - Directory Listing
Modified Thu Nov 3 08:13:31 2011 UTC (6 years, 1 month ago) by gross
Original Path: trunk
typos fixed

Revision 3647 - Directory Listing
Modified Tue Nov 1 23:33:18 2011 UTC (6 years, 1 month ago) by lgao
Original Path: trunk
With this option file, unit tests finished successfully with the following order to load module: 

module load mpi/gcc/openmpi/1.4.3
module load python/2.6.7
module load boost/1.46.1-python-2.6
module load netcdf/4.0.1
module load scons/2.0.1-python-2.6
module load intel-compilers/11.1.075
module load intel-mkl/10.3.5.220
module load python-numpy/1.3.0-python-2.6
module load cppunit/1.12.1
module load python-matplotlib/0.98.5.3-python-2.6
module load hdf5/1.8.6
module load silo/4.7.2
module load hypre/2.0.0

HYPRE is loaded but not used yet since the installed hypre module on epic comes with static library only. 



Revision 3646 - Directory Listing
Modified Fri Oct 28 05:20:38 2011 UTC (6 years, 1 month ago) by lgao
Original Path: trunk
working option file on epic



Revision 3645 - Directory Listing
Modified Fri Oct 28 00:11:30 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Fixed typos.


Revision 3644 - Directory Listing
Modified Thu Oct 27 06:42:56 2011 UTC (6 years, 1 month ago) by gross
Original Path: trunk
hint to add surface items in pycad

Revision 3643 - Directory Listing
Modified Thu Oct 27 06:23:16 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Updated savanna options file. We're now using silo 4.8, netcdf 4.1.1 and boost 1.42 on savanna.


Revision 3642 - Directory Listing
Modified Thu Oct 27 03:41:51 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Assorted spelling/comment fixes in paso.


Revision 3641 - Directory Listing
Modified Thu Oct 27 02:16:12 2011 UTC (6 years, 1 month ago) by gross
Original Path: trunk
more work on the assemblage

Revision 3639 - Directory Listing
Modified Tue Oct 25 02:13:26 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Assorted spelling fixes in finley C.


Revision 3637 - Directory Listing
Modified Fri Oct 21 04:29:33 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Fixed memory leaks in loadMesh() for dudley and finley.


Revision 3635 - Directory Listing
Modified Fri Oct 21 00:26:01 2011 UTC (6 years, 1 month ago) by caltinay
Original Path: trunk
Fixed minor issues.


Revision 3630 - Directory Listing
Modified Wed Oct 19 03:04:53 2011 UTC (6 years, 2 months ago) by gross
Original Path: trunk
minor fix to dary flux

Revision 3629 - Directory Listing
Modified Wed Oct 19 03:04:27 2011 UTC (6 years, 2 months ago) by gross
Original Path: trunk
darcy example added

Revision 3628 - Directory Listing
Modified Wed Oct 19 02:09:36 2011 UTC (6 years, 2 months ago) by caltinay
Original Path: trunk
Prepend our libraries instead of appending. This should fix HYPRE link
issue on epic.


Revision 3627 - Directory Listing
Modified Fri Oct 14 13:54:49 2011 UTC (6 years, 2 months ago) by caltinay
Original Path: trunk
Reverted some changes that slipped in and caused the Silo writer to not behave.


Revision 3626 - Directory Listing
Modified Fri Oct 14 02:34:55 2011 UTC (6 years, 2 months ago) by gross
Original Path: trunk
Silo and cppunit added for epic (there is still a problem with hypre)

Revision 3625 - Directory Listing
Modified Thu Oct 13 01:54:27 2011 UTC (6 years, 2 months ago) by gross
Original Path: trunk
missing argument in gmsh reader documentation added

Revision 3624 - Directory Listing
Modified Wed Oct 12 07:58:25 2011 UTC (6 years, 2 months ago) by gross
Original Path: trunk
changes for epic.ivec.org

Revision 3623 - Directory Listing
Modified Tue Oct 11 03:59:40 2011 UTC (6 years, 2 months ago) by caltinay
Original Path: trunk
Added option to enable/disable saving of mesh data in weipa.
Now defaults to false since it's mainly for debugging.
Fixes #640.


Revision 3622 - Directory Listing
Modified Thu Oct 6 08:06:41 2011 UTC (6 years, 2 months ago) by trankine
Original Path: trunk
Epic.ivec.org scons build template

Revision 3620 - Directory Listing
Modified Wed Oct 5 06:06:14 2011 UTC (6 years, 2 months ago) by gross
Original Path: trunk
bug fixed

Revision 3619 - Directory Listing
Modified Wed Oct 5 03:53:34 2011 UTC (6 years, 2 months ago) by gross
Original Path: trunk
some rescaling of permeability in the darcy solver added

Revision 3618 - Directory Listing
Modified Fri Sep 30 04:07:09 2011 UTC (6 years, 2 months ago) by jfenwick
Original Path: trunk
Allowed 'no' as an mpi type.
Allowed SVN_VERSION to be specified from the command line.
TO BE USED ONLY FOR RELEASE PURPOSES where you do not have a .svn checkout


Revision 3616 - Directory Listing
Modified Fri Sep 30 00:56:37 2011 UTC (6 years, 2 months ago) by jfenwick
Original Path: trunk
Center a table that I noticed and use upquote package to stop LaTeX from
mucking about with ' in python code.

Fixes #632


Revision 3607 - Directory Listing
Modified Mon Sep 19 22:08:24 2011 UTC (6 years, 2 months ago) by caltinay
Original Path: trunk
Fixed double/float warning.


Revision 3606 - Directory Listing
Modified Mon Sep 19 16:26:51 2011 UTC (6 years, 2 months ago) by trankine
Original Path: trunk
Trial nosetests runner tests for better integration

Revision 3605 - Directory Listing
Modified Mon Sep 19 07:47:23 2011 UTC (6 years, 2 months ago) by trankine
Original Path: trunk
cppunit actually does do the install step in the msvc project files and does put the build products where scons can find them.

Revision 3604 - Directory Listing
Modified Mon Sep 19 04:47:53 2011 UTC (6 years, 2 months ago) by caltinay
Original Path: trunk
Changed detection of pdflatex since some versions of scons require .ltx or
.latex file extensions when pdflatex is not available.
Also added cleanup of utest.sh and buildvars file.


Revision 3603 - Directory Listing
Modified Mon Sep 19 03:42:53 2011 UTC (6 years, 2 months ago) by caltinay
Original Path: trunk
Fixed some unused var errors in non-mpi build.


Revision 3602 - Directory Listing
Modified Mon Sep 19 02:38:11 2011 UTC (6 years, 2 months ago) by caltinay
Original Path: trunk
Fix scons checks on windows


Revision 3601 - Directory Listing
Modified Mon Sep 19 01:21:33 2011 UTC (6 years, 2 months ago) by trankine
Original Path: trunk
Updating cgisrv3 options for external cppunit - because I cant see brackets.

Revision 3600 - Directory Listing
Modified Mon Sep 19 00:58:15 2011 UTC (6 years, 2 months ago) by trankine
Original Path: trunk
Updating cgisrv3 options for external cppunit

Revision 3599 - Directory Listing
Modified Fri Sep 16 01:34:46 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Updated install guide to mention external CppUnit dependency for unit tests.


Revision 3598 - Directory Listing
Modified Fri Sep 16 01:01:17 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
New config option build_shared (which replaces share_paso & share_esysUtils).
Also enabled building escriptreader library on Windows which should now
work in both shared and static mode.


Revision 3597 - Directory Listing
Modified Thu Sep 15 06:03:17 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Switching to external cppunit:
-removed tools/CppUnitTest
-updated scons script and files
-updated tests to changed API
-updated readme

Bumped scons options file version to 201. Additions:
-cppunit*
-boomeramg*
-vsl_random



Revision 3596 - Directory Listing
Modified Thu Sep 15 05:58:15 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Deleted some obsolete options files.


Revision 3595 - Directory Listing
Modified Thu Sep 15 05:56:47 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Skip some more gmsh-dependend tests if gmsh is not available.


Revision 3594 - Directory Listing
Modified Thu Sep 15 00:45:04 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Added missing declspecs in paso. Thanks Terry.


Revision 3589 - Directory Listing
Modified Mon Sep 12 03:25:25 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
This fixes the bug 616. Problem was that the Coupler used the pattern of original rather than unrolled pattern.

Revision 3588 - Directory Listing
Modified Mon Sep 12 01:53:17 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
Typo fixed.

Revision 3586 - Directory Listing
Modified Fri Sep 9 04:02:29 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
run_domainreaders now passes some parameters to the constructors so
kwargs is tested to be working. Addresses #578.


Revision 3585 - Directory Listing
Modified Wed Sep 7 06:16:08 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Fix for #582: Determine if gmsh was compiled with MPI support and use
MPI_Comm_spawn to invoke it if necessary.


Revision 3584 - Directory Listing
Modified Tue Sep 6 11:08:34 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Removing Locator.setValue for now


Revision 3583 - Directory Listing
Modified Tue Sep 6 04:27:59 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Updated shake75 options file.


Revision 3582 - Directory Listing
Modified Tue Sep 6 02:02:17 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
some clarification of the documentation on the Stokes solver.

Revision 3581 - Directory Listing
Modified Tue Sep 6 00:52:58 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
Used python 2.7 syntax. Sorry!

Revision 3580 - Directory Listing
Modified Tue Sep 6 00:31:35 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
error handeling for python compilation improved.

Revision 3579 - Directory Listing
Modified Mon Sep 5 23:25:01 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Stopping unit test from failing until I can get it working


Revision 3578 - Directory Listing
Modified Mon Sep 5 23:18:45 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
Missing dependence added (?) and typo in test files fixed.

Revision 3577 - Directory Listing
Modified Mon Sep 5 08:22:52 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
getFLux fixed and tests added.


Revision 3576 - Directory Listing
Modified Mon Sep 5 06:33:20 2011 UTC (6 years, 3 months ago) by caltinay
Original Path: trunk
Fixed two more instances of macro-dependent unused vars.


Revision 3575 - Directory Listing
Modified Fri Sep 2 08:31:08 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Fixing bug I introduced with the last commit


Revision 3574 - Directory Listing
Modified Fri Sep 2 07:19:31 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Added setValue to locator.
Some unit tests added but they aren't being triggered for some reason


Revision 3573 - Directory Listing
Modified Fri Sep 2 05:51:02 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Added more comprehensible doco about 3D interpolation.
Also fixed a bug but this may break code which previously used 3D interpolation.

This fixes mantis #581


Revision 3572 - Directory Listing
Modified Thu Sep 1 07:54:42 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Comment out a non-existant function from the Finley interface and (hopefully)
fix mantis bug #623


Revision 3571 - Directory Listing
Modified Thu Sep 1 03:53:23 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
LinearSolver option RILU has been removed from the documentation it is not supported yet.

Revision 3570 - Directory Listing
Modified Thu Sep 1 03:11:26 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Fixed some bib entries, changed visit script in guide to use " instead of '.
Reworded a sentence.


Revision 3569 - Directory Listing
Modified Thu Sep 1 02:42:36 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
Darcy flow solver and docu reviewed. Coupled solvers have been removed.


Revision 3568 - Directory Listing
Modified Tue Aug 30 08:23:24 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
darcy flux documentation updated.

Revision 3567 - Directory Listing
Modified Tue Aug 30 07:55:02 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
FIXME and TODO fixed.

Revision 3566 - Directory Listing
Modified Tue Aug 30 07:37:55 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
small fix to units

Revision 3565 - Directory Listing
Modified Mon Aug 29 10:28:57 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
surely it will accept this one


Revision 3564 - Directory Listing
Modified Mon Aug 29 09:09:30 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
In case windows is case sensitive


Revision 3563 - Directory Listing
Modified Mon Aug 29 04:26:46 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Another try to fix the windows issue


Revision 3562 - Directory Listing
Modified Mon Aug 29 03:31:13 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Removed DLL export from non-exported methods


Revision 3561 - Directory Listing
Modified Mon Aug 29 02:51:05 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Attempt to fix windows problem


Revision 3560 - Directory Listing
Modified Mon Aug 29 01:10:42 2011 UTC (6 years, 3 months ago) by gross
Original Path: trunk
lf missing in buildvars print

Revision 3559 - Directory Listing
Modified Fri Aug 26 07:47:27 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Silence some warnings unused var warnings under gcc.



Revision 3558 - Directory Listing
Modified Fri Aug 26 06:09:02 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Merged changes from dirac.
Now the only way to add diracPoints is to use the constructor


Revision 3552 - Directory Listing
Modified Mon Aug 22 00:05:17 2011 UTC (6 years, 3 months ago) by jfenwick
Original Path: trunk
Fixed icc problem


Revision 3551 - Directory Listing
Modified Fri Aug 19 03:53:41 2011 UTC (6 years, 4 months ago) by jfenwick
Original Path: trunk
Changing unit test calls to use non deprecated forms (python2.7)
fixes bug #568


Revision 3550 - Directory Listing
Modified Fri Aug 19 01:51:35 2011 UTC (6 years, 4 months ago) by jfenwick
Original Path: trunk
Switching from rand() to boost::random for non-VSL randoms


Revision 3549 - Directory Listing
Modified Tue Aug 9 06:40:06 2011 UTC (6 years, 4 months ago) by jfenwick
Original Path: trunk
Fix for issue #617
A couple of extra tests to make sure it doesn't happen again


Revision 3548 - Directory Listing
Modified Tue Aug 9 04:00:27 2011 UTC (6 years, 4 months ago) by jfenwick
Original Path: trunk
Fixing badger options


Revision 3547 - Directory Listing
Modified Tue Aug 2 04:24:09 2011 UTC (6 years, 4 months ago) by lgao
Original Path: trunk
Set "lapack" to "mkl" before the mantis bug 0000616 is solved. 



Revision 3546 - Directory Listing
Modified Thu Jul 28 01:32:20 2011 UTC (6 years, 4 months ago) by jfenwick
Original Path: trunk
Replaced 'and' with && since windows doesn't seem to understand it


Revision 3545 - Directory Listing
Modified Wed Jul 27 06:29:09 2011 UTC (6 years, 4 months ago) by lgao
Original Path: trunk
Turn off VSL for random data before the MKL library link line problem has been solved. 



Revision 3544 - Directory Listing
Modified Wed Jul 27 06:19:10 2011 UTC (6 years, 4 months ago) by jfenwick
Original Path: trunk
Temporary fix to get windows to compile


Revision 3543 - Directory Listing
Modified Fri Jul 22 06:58:03 2011 UTC (6 years, 4 months ago) by gross
Original Path: trunk
and the generator script

Revision 3542 - Directory Listing
Modified Fri Jul 22 06:57:41 2011 UTC (6 years, 4 months ago) by gross
Original Path: trunk
first attempts toward a multi grid solver

Revision 3541 - Directory Listing
Modified Fri Jul 22 03:21:06 2011 UTC (6 years, 4 months ago) by trankine
Original Path: trunk
migration to system maintained dependancies (not per build). will allow multi builders

Revision 3538 - Directory Listing
Modified Mon Jul 4 00:13:02 2011 UTC (6 years, 5 months ago) by jfenwick
Original Path: trunk
Added paper with current dev team to the references section.


Revision 3529 - Directory Listing
Modified Thu May 26 00:36:10 2011 UTC (6 years, 6 months ago) by caltinay
Original Path: trunk
Re-enable VisIt and Silo on savanna and use gcc-4.6 on shake75.


Revision 3528 - Directory Listing
Modified Tue May 24 07:02:08 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk


Revision 3527 - Directory Listing
Modified Tue May 24 06:59:20 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
modifications to the coal seam gas 

Revision 3526 - Directory Listing
Modified Tue May 24 05:01:46 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
coal code uses nodal wells now

Revision 3525 - Directory Listing
Modified Tue May 24 04:04:58 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
and more typos fixed.

Revision 3524 - Directory Listing
Modified Tue May 24 02:23:00 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
typo fixed.

Revision 3523 - Directory Listing
Modified Tue May 24 02:03:37 2011 UTC (6 years, 6 months ago) by caltinay
Original Path: trunk
Fixed declaration order (register const) for gcc-4.6


Revision 3522 - Directory Listing
Modified Tue May 24 00:57:58 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
(almost) full support for Point elements

Revision 3521 - Directory Listing
Modified Mon May 23 07:23:02 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
typo fixed

Revision 3520 - Directory Listing
Modified Mon May 23 06:24:30 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
some fixes for to point interpolation

Revision 3519 - Directory Listing
Modified Mon May 23 05:55:47 2011 UTC (6 years, 6 months ago) by gross
Original Path: trunk
compiler fixes

Revision 3516 - Directory Listing
Modified Fri May 20 00:57:41 2011 UTC (6 years, 7 months ago) by gross
Original Path: trunk
missing file

Revision 3515 - Directory Listing
Modified Thu May 19 08:20:57 2011 UTC (6 years, 7 months ago) by gross
Original Path: trunk
some first work for DiracFunctions

Revision 3514 - Directory Listing
Modified Thu May 19 04:48:34 2011 UTC (6 years, 7 months ago) by caltinay
Original Path: trunk
Fixed __truediv__ and added __rtruediv__ for new python division operator.


Revision 3513 - Directory Listing
Modified Thu May 19 04:45:19 2011 UTC (6 years, 7 months ago) by lgao
Original Path: trunk
When "werror" is set to True, scons build will complains about compilation failure of some boost "multi-array" test case. This causes recently unit-tests failures. So I set "werror" back to False before someone who has the knowledge fixes the problem.



Revision 3511 - Directory Listing
Modified Tue May 17 23:56:13 2011 UTC (6 years, 7 months ago) by lgao
Original Path: trunk
Fixed the scons build problem in case MPI is not in use (this 
is the reason why unit tests failed to execute properly for the
past several days).



Revision 3510 - Directory Listing
Modified Fri May 13 06:09:49 2011 UTC (6 years, 7 months ago) by gross
Original Path: trunk
some fixes for the compilation without BOOMERAMG

Revision 3508 - Directory Listing
Modified Fri May 13 04:15:29 2011 UTC (6 years, 7 months ago) by lgao
Original Path: trunk
Add Boomer AMG as a new preconditioner 
Can be used by .setPreconditioner(SolverOptions.BOOMERAMG)
and the following parallel coarsening method can be 
used together with Boomer AMG preconditioner: 
  .setCoarsening(SolverOptions.CIJP_FIXED_RANDOM_COARSENING)
  .setCoarsening(SolverOptions.CIJP_COARSENING)
  .setCoarsening(SolverOptions.FALGOUT_COARSENING)
  .setCoarsening(SolverOptions.PMIS_COARSENING)
  .setCoarsening(SolverOptions.HMIS_COARSENING)

Note that Boomer AMG is only available when MPI is enabled.  



Revision 3506 - Directory Listing
Modified Wed May 11 01:59:45 2011 UTC (6 years, 7 months ago) by jfenwick
Original Path: trunk
Use VSL if MKLRANDOM is defined.
Use different seeds for different ranks/threads.
Use different seeds for successive calls with no seed given.


Revision 3505 - Directory Listing
Modified Fri Apr 29 07:09:45 2011 UTC (6 years, 7 months ago) by jfenwick
Original Path: trunk
arithmetic operations now return NotImplemented if they don't know what to do.
Fixes mantis issue #54


Revision 3504 - Directory Listing
Modified Thu Apr 28 12:55:05 2011 UTC (6 years, 7 months ago) by jfenwick
Original Path: trunk
Move arithmetic ops into explicitly named methods

Revision 3503 - Directory Listing
Modified Thu Apr 28 06:55:30 2011 UTC (6 years, 7 months ago) by gross
Original Path: trunk
missing file

Revision 3502 - Directory Listing
Modified Thu Apr 28 05:06:24 2011 UTC (6 years, 7 months ago) by gross
Original Path: trunk
Darcy flow solver is now supporting 4 solvers

Revision 3501 - Directory Listing
Modified Wed Apr 13 04:07:53 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk


Revision 3500 - Directory Listing
Modified Mon Apr 11 03:09:06 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
GMRES solver for new DarcyFlux solver added

Revision 3499 - Directory Listing
Modified Fri Apr 8 00:14:35 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk


Revision 3498 - Directory Listing
Modified Thu Apr 7 01:12:59 2011 UTC (6 years, 8 months ago) by lgao
Original Path: trunk
Two modifications to OpenMP versioned AMG: 
(1) in RungeStueben Search: 
    * use a smaller panel to reduce the searching time for an unkown with
      the largest lambda value;
    * fix the mistakes made in this function (Two places where set S is 
      expected, not set S^T).
(2) while construct the coarse level matrix A_C:
      A_C = P^T (A P) where A is the fine level matrix and P is the 
      interpolation operator. Since we've already had the tranpose of P
      when we process "A_temp = A P", the performance of matrix product 
      can be improved when we use P^T for the calculation of A_temp.



Revision 3497 - Directory Listing
Modified Wed Apr 6 06:11:56 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk


Revision 3494 - Directory Listing
Modified Tue Apr 5 04:12:08 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
more coal seam gas

Revision 3490 - Directory Listing
Modified Wed Mar 30 02:24:33 2011 UTC (6 years, 8 months ago) by caltinay
Original Path: trunk
More gcc-4.6 fixes (mostly initialized-but-unused-var warnings)


Revision 3489 - Directory Listing
Modified Wed Mar 30 00:46:04 2011 UTC (6 years, 8 months ago) by caltinay
Original Path: trunk
Fixed a few warnings emitted by gcc-4.6.


Revision 3487 - Directory Listing
Modified Mon Mar 28 03:44:22 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
some compile fixes

Revision 3486 - Directory Listing
Modified Sun Mar 27 22:27:45 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
bug in eigenvector calculation fixed (see mantis=594)

Revision 3485 - Directory Listing
Modified Thu Mar 24 22:44:40 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
some compile fixes

Revision 3484 - Directory Listing
Modified Thu Mar 24 05:42:07 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
some work on coal gas

Revision 3483 - Directory Listing
Modified Wed Mar 23 04:18:35 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
Ops: AMG MPI chould not be called yet.

Revision 3482 - Directory Listing
Modified Wed Mar 23 04:06:52 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
some work on AMG MPI

Revision 3481 - Directory Listing
Modified Wed Mar 23 04:05:58 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk


Revision 3480 - Directory Listing
Modified Wed Mar 23 04:03:39 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk


Revision 3479 - Directory Listing
Modified Wed Mar 23 04:03:22 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk


Revision 3478 - Directory Listing
Modified Wed Mar 23 04:02:39 2011 UTC (6 years, 8 months ago) by gross
Original Path: trunk
coal gas stuff


Revision 3475 - Directory Listing
Modified Thu Mar 17 00:28:08 2011 UTC (6 years, 9 months ago) by caltinay
Original Path: trunk
Removed an obsolete file.


Revision 3470 - Directory Listing
Modified Mon Mar 14 03:50:49 2011 UTC (6 years, 9 months ago) by caltinay
Original Path: trunk
Fix for mantis issue 591 (added __truediv__ methods to Data class).



Revision 3469 - Directory Listing
Modified Tue Feb 22 06:39:16 2011 UTC (6 years, 9 months ago) by jfenwick
Original Path: trunk
Fix docstring in dudley

Revision 3468 - Directory Listing
Modified Tue Feb 22 06:38:57 2011 UTC (6 years, 9 months ago) by jfenwick
Original Path: trunk
Made constructors more efficient.
Only has a very minor affect on performance

Revision 3467 - Directory Listing
Modified Tue Feb 8 09:31:46 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Fixed unit test after last change.


Revision 3466 - Directory Listing
Modified Tue Feb 8 05:16:21 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Added TEMP and friends to the list of env vars exported by scons.
Modified pycad's gmsh command line since the mesh filename may also contain
spaces.


Revision 3465 - Directory Listing
Modified Tue Feb 8 00:11:15 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Use the subprocess module within pycad's Triangle.


Revision 3464 - Directory Listing
Modified Mon Feb 7 05:17:11 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Use the subprocess module with argument list to run gmsh from pycad to avoid
having to deal with spaces in path names.


Revision 3463 - Directory Listing
Modified Mon Feb 7 02:09:57 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Check for gmsh in main SConstruct file and skip tests that depend on it when
the executable is not found.


Revision 3462 - Directory Listing
Modified Mon Feb 7 02:01:50 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Removed debug output.


Revision 3461 - Directory Listing
Modified Sun Feb 6 23:33:37 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Re-enabled silo on savanna as well.


Revision 3460 - Directory Listing
Modified Sun Feb 6 23:24:22 2011 UTC (6 years, 10 months ago) by jfenwick
Original Path: trunk
Re-enabling MPI on savanna


Revision 3459 - Directory Listing
Modified Wed Feb 2 01:54:45 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Patch from Terry to fix compilation on Windows with MKL enabled.


Revision 3458 - Directory Listing
Modified Mon Jan 31 07:06:42 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
more on AMG under MPI

Revision 3457 - Directory Listing
Modified Thu Jan 27 01:38:17 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Added missing cookbook figures from Anthony.


Revision 3456 - Directory Listing
Modified Tue Jan 25 08:20:02 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
segfault fixed

Revision 3455 - Directory Listing
Modified Tue Jan 25 04:23:17 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
some compilation fixes

Revision 3454 - Directory Listing
Modified Tue Jan 25 04:00:29 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Fixed some minor doxygen issues.


Revision 3453 - Directory Listing
Modified Tue Jan 25 03:59:30 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Disabled C99 extensions on guineapig again.


Revision 3452 - Directory Listing
Modified Tue Jan 25 01:53:57 2011 UTC (6 years, 10 months ago) by caltinay
Original Path: trunk
Fixed building cookbook, including toc (scons scans for keywords in the tex
files but not in .cls as it seems).
Also fixed a few epydoc warnings and typos.



Revision 3451 - Directory Listing
Modified Sun Jan 23 23:11:01 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
compilation fixes

Revision 3450 - Directory Listing
Modified Fri Jan 21 06:39:56 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
more compilation fixing

Revision 3449 - Directory Listing
Modified Fri Jan 21 05:48:15 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
compile problem in AMG fixed.

Revision 3448 - Directory Listing
Modified Fri Jan 21 04:38:54 2011 UTC (6 years, 10 months ago) by ahallam
Original Path: trunk
Quick final changes to cookbook to accomodate example10c problem. 'So long and thanks for all the fish.'

Revision 3447 - Directory Listing
Modified Fri Jan 21 04:33:42 2011 UTC (6 years, 10 months ago) by ahallam
Original Path: trunk
example10c removed from testing as it is not in the cookbook.

Revision 3446 - Directory Listing
Modified Thu Jan 20 06:47:07 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
and more work toward AMG MPI

Revision 3445 - Directory Listing
Modified Wed Jan 19 06:02:15 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
more work towards MPI AMG

Revision 3444 - Directory Listing
Modified Tue Jan 18 23:17:27 2011 UTC (6 years, 10 months ago) by gross
Original Path: trunk
run_domainreaders.py can only be run for MPI ranks = 1 as gmsh does not support MPI yet

Revision 3443 - Directory Listing
Modified Tue Jan 18 05:38:48 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
test for AMG fixed. New test set guarantees SPD stiffness matrix. Previously this was not guaranteed and could lead to singular coarse level matrices (which cause MKL based runs to fail)

Revision 3442 - Directory Listing
Modified Tue Jan 18 01:47:36 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
 emeregncy

Revision 3441 - Directory Listing
Modified Fri Jan 14 01:09:09 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
clarifiaction of function names as a first step towards a MPI version of AMG

Revision 3440 - Directory Listing
Modified Fri Jan 14 00:04:53 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
a second AMG interpolation implemented

Revision 3439 - Directory Listing
Modified Fri Jan 14 00:04:01 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
some modifications to fix the cook examples runs for testing

Revision 3438 - Directory Listing
Modified Thu Jan 13 23:24:50 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
mesh size reduced

Revision 3437 - Directory Listing
Modified Mon Jan 10 05:05:15 2011 UTC (6 years, 11 months ago) by plaub
Original Path: trunk
Fixed test for new default arguments


Revision 3436 - Directory Listing
Modified Mon Jan 10 02:06:07 2011 UTC (6 years, 11 months ago) by plaub
Original Path: trunk
Added/modified AMG tests:

  - "self.failUnless(...)" became "self.assertTrue(...)"
    because fail* is soon to be deprecated,
  - fixed logical error in self.assertTrue argument,
  - added another test, 'testSquare'.

Added some print statements to AMG.c in verbose mode to
identify which of the stopping conditions were fulfilled.

Changed default AMG parameters for 'setNumPreSweeps' and 
'setNumPostSweeps' to 1 (huge speed improvment).

P.S Beware of bugs in the above code; I have only proved 
it correct, not tried it... Jokes!



Revision 3435 - Directory Listing
Modified Fri Jan 7 03:40:39 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
initial value changed

Revision 3434 - Directory Listing
Modified Fri Jan 7 03:35:58 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
initial value changed

Revision 3433 - Directory Listing
Modified Fri Jan 7 02:39:05 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
initial value changed

Revision 3432 - Directory Listing
Modified Fri Jan 7 01:32:07 2011 UTC (6 years, 11 months ago) by jfenwick
Original Path: trunk
Made import statements a bit more specific to clean up the epydoc

Revision 3431 - Directory Listing
Modified Fri Jan 7 01:19:21 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
redundant setMinCoarseMatrixSparsity removed.

Revision 3430 - Directory Listing
Modified Thu Jan 6 09:09:19 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
import order is critical

Revision 3429 - Directory Listing
Modified Thu Jan 6 07:40:01 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
SAMESIGN macro added

Revision 3428 - Directory Listing
Modified Thu Jan 6 01:12:36 2011 UTC (6 years, 11 months ago) by jfenwick
Original Path: trunk
Fixed errors (and space/tabs) in geometry.py
Added unit tests


Revision 3427 - Directory Listing
Modified Thu Jan 6 00:11:45 2011 UTC (6 years, 11 months ago) by ahallam
Original Path: trunk
Missing script.

Revision 3426 - Directory Listing
Modified Wed Jan 5 02:51:35 2011 UTC (6 years, 11 months ago) by ahallam
Original Path: trunk
Added new example tests.

Revision 3425 - Directory Listing
Modified Wed Jan 5 02:50:38 2011 UTC (6 years, 11 months ago) by ahallam
Original Path: trunk
Added new example tests.

Revision 3424 - Directory Listing
Modified Wed Jan 5 00:24:46 2011 UTC (6 years, 11 months ago) by gross
Original Path: trunk
memory leak in UMFPACK interface fixed

Revision 3423 - Directory Listing
Modified Thu Dec 16 04:24:13 2010 UTC (7 years ago) by jfenwick
Original Path: trunk
Fix a typo in geometry.py


Revision 3422 - Directory Listing
Modified Mon Dec 13 23:27:47 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Updated shake75 options file to use visit 2.2


Revision 3421 - Directory Listing
Modified Mon Dec 13 23:15:01 2010 UTC (7 years ago) by artak
Original Path: trunk
semi-colon is missing

Revision 3417 - Directory Listing
Modified Sun Dec 12 23:40:27 2010 UTC (7 years ago) by artak
Original Path: trunk
Treat warnings as errors is disabled.

Revision 3412 - Directory Listing
Modified Fri Dec 10 02:03:49 2010 UTC (7 years ago) by gross
Original Path: trunk
some fixes for MKL lapack

Revision 3411 - Directory Listing
Modified Thu Dec 9 22:42:02 2010 UTC (7 years ago) by gross
Original Path: trunk
some cleaning

Revision 3410 - Directory Listing
Modified Thu Dec 9 07:02:52 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Minor changes to cookbook, gravity example.

Revision 3409 - Directory Listing
Modified Thu Dec 9 07:01:23 2010 UTC (7 years ago) by ahallam
Original Path: trunk
minor changes to examples before holiday.

Revision 3407 - Directory Listing
Modified Wed Dec 8 05:16:08 2010 UTC (7 years ago) by jfenwick
Original Path: trunk
Obsolete


Revision 3406 - Directory Listing
Modified Wed Dec 8 01:09:37 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Updates to cookbook documentation for release.

Revision 3405 - Directory Listing
Modified Wed Dec 8 01:09:06 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Changes to example09 for memory footprint. One change too help wording in layer_cake function. example09b removed from testing. Not for impending release.

Revision 3404 - Directory Listing
Modified Tue Dec 7 10:24:32 2010 UTC (7 years ago) by gross
Original Path: trunk
missing file

Revision 3403 - Directory Listing
Modified Tue Dec 7 08:13:51 2010 UTC (7 years ago) by gross
Original Path: trunk
some small fixes

Revision 3402 - Directory Listing
Modified Tue Dec 7 07:36:12 2010 UTC (7 years ago) by gross
Original Path: trunk
AMG support now block size > 3 (requires clapack or MKL).

additional diagnostics for AMG 



Revision 3400 - Directory Listing
Modified Mon Dec 6 02:23:07 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Moved vtkCellType.h to weipa where it belongs now.


Revision 3399 - Directory Listing
Modified Mon Dec 6 02:02:16 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Updated VTK files to reflect changes to the writer.


Revision 3398 - Directory Listing
Modified Mon Dec 6 00:02:33 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Fixed the quad mask in a very specific case and changed saveVTK to write a
specific value for unused nodes instead of the first one which breaks unit
tests depending on the number of ranks used.
Still need to rebaseline some VTK files so the tests pass.


Revision 3397 - Directory Listing
Modified Sun Dec 5 22:46:25 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Fixed an issue in saveVTK/Silo.


Revision 3396 - Directory Listing
Modified Fri Dec 3 08:24:16 2010 UTC (7 years ago) by gross
Original Path: trunk
wrong pointer handed

Revision 3395 - Directory Listing
Modified Fri Dec 3 06:30:35 2010 UTC (7 years ago) by gross
Original Path: trunk
small correction

Revision 3394 - Directory Listing
Modified Fri Dec 3 06:07:08 2010 UTC (7 years ago) by jfenwick
Original Path: trunk
Nasty hack to dodge a linking issue for serial builds on savanna


Revision 3393 - Directory Listing
Modified Fri Dec 3 04:14:56 2010 UTC (7 years ago) by caltinay
Original Path: trunk
shake24 (darwin) needs -L/usr/lib to pull correct gcc library.
The python library path was also not entirely correct - fixed.


Revision 3392 - Directory Listing
Modified Thu Dec 2 03:26:29 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Updates to cookbook. Includes new section on variable meshing. To be reviewed.

Revision 3391 - Directory Listing
Modified Thu Dec 2 02:25:53 2010 UTC (7 years ago) by gross
Original Path: trunk
seg fault fixed.

Revision 3390 - Directory Listing
Modified Thu Dec 2 00:34:37 2010 UTC (7 years ago) by jfenwick
Original Path: trunk
RandomData added


Revision 3389 - Directory Listing
Modified Wed Dec 1 23:03:35 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Some changes to the cookbook examples. Starting Inversion experimentation.

Revision 3388 - Directory Listing
Modified Mon Nov 29 06:07:07 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Added quotes around some variables to fix running scripts located in a
directory whose name contains spaces.


Revision 3387 - Directory Listing
Modified Thu Nov 25 07:09:23 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Fixed some annoying typos.


Revision 3386 - Directory Listing
Modified Thu Nov 25 05:05:50 2010 UTC (7 years ago) by caltinay
Original Path: trunk
scons choked on the newlines within the parameter list. Fixed.


Revision 3385 - Directory Listing
Modified Thu Nov 25 04:41:33 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Updates to cookbook, something is wrong with the sconstruct though

Revision 3384 - Directory Listing
Modified Thu Nov 25 03:28:01 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Cookbook lumping updates.

Revision 3383 - Directory Listing
Modified Thu Nov 25 02:17:51 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Fixed some typos and added missing symlinks. 


Revision 3382 - Directory Listing
Modified Thu Nov 25 00:43:18 2010 UTC (7 years ago) by jfenwick
Original Path: trunk
I've added better credits for dev team.
There is a new page just before the contents page with current dev team 
and a more detailed list in the user guide appendix.

Please check this and let me know if you think there are errors or 
omissions.

Also fixed a typo.
Removed reference to python style files we no longer use from the 
license file.



Revision 3381 - Directory Listing
Modified Wed Nov 24 23:37:55 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Proofing of lumping.tex

Revision 3380 - Directory Listing
Modified Wed Nov 24 05:03:25 2010 UTC (7 years ago) by gross
Original Path: trunk
update to change list

Revision 3379 - Directory Listing
Modified Wed Nov 24 04:48:49 2010 UTC (7 years ago) by gross
Original Path: trunk
some clarification on lumping

Revision 3378 - Directory Listing
Modified Tue Nov 23 05:09:25 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Pass dictionary of data objects to EscriptDataset as kwargs in DataManager.


Revision 3377 - Directory Listing
Modified Tue Nov 23 02:01:20 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Removed empty esys, include and lib directories since the install prefix is
variable now. Don't shoot me for this if this hurts.


Revision 3376 - Directory Listing
Modified Tue Nov 23 01:56:20 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Invoke run-escript instead of escript in runTest.


Revision 3375 - Directory Listing
Modified Tue Nov 23 00:37:23 2010 UTC (7 years ago) by jfenwick
Original Path: trunk
Fix to unit tests


Revision 3374 - Directory Listing
Modified Tue Nov 23 00:30:20 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Fixes to example scripts.

Revision 3373 - Directory Listing
Modified Tue Nov 23 00:29:07 2010 UTC (7 years ago) by ahallam
Original Path: trunk
New figures.

Revision 3372 - Directory Listing
Modified Mon Nov 22 23:10:03 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Added missing import to fix unit test


Revision 3371 - Directory Listing
Modified Mon Nov 22 06:13:47 2010 UTC (7 years ago) by caltinay
Original Path: trunk
Sort data objects by name before passing them to the EscriptDataset object.
This addresses #537.


Revision 3370 - Directory Listing
Modified Sun Nov 21 23:22:25 2010 UTC (7 years ago) by ahallam
Original Path: trunk
Rearranged figures for release.

Revision 3369 - Directory Listing
Modified Fri Nov 19 06:26:11 2010 UTC (7 years ago) by gross
Original Path: trunk
matrix balance introduced in paso

Revision 3368 - Directory Listing
Modified Fri Nov 19 05:59:46 2010 UTC (7 years ago) by jfenwick
Original Path: trunk
3d interpolateTable support.
New more generic interface for table interpolation.
tests and doco updated

Revision 3367 - Directory Listing
Modified Fri Nov 19 02:07:25 2010 UTC (7 years ago) by caltinay
Original Path: trunk
added quick intro to visualization with VisIt and fixed a file reference.


Revision 3366 - Directory Listing
Modified Thu Nov 18 23:41:42 2010 UTC (7 years ago) by caltinay
Original Path: trunk
esys.weipa Python interface documentation.


Revision 3365 - Directory Listing
Modified Thu Nov 18 10:49:40 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Fixed compilation without VisIt.


Revision 3364 - Directory Listing
Modified Thu Nov 18 05:51:44 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Expose visitInitialize and visitPublishData through the python interface.


Revision 3363 - Directory Listing
Modified Thu Nov 18 05:49:45 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Catch some corner cases in weipa's VisIt controller to make it more foolproof
and allow reinitialization.


Revision 3362 - Directory Listing
Modified Thu Nov 18 04:59:44 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Made the VisIt interface less verbose in non-debug mode and removed unused
includes.


Revision 3361 - Directory Listing
Modified Thu Nov 18 01:56:36 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Minor enhancement.


Revision 3360 - Directory Listing
Modified Thu Nov 18 00:20:21 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fix some epydoc errors
Fixed issue 564
removed minimize.py since it hasn't worked in who knows how long

Revision 3359 - Directory Listing
Modified Wed Nov 17 23:32:36 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fixing problem with ./utest.sh including full build path


Revision 3358 - Directory Listing
Modified Wed Nov 17 08:02:32 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
a more flexiblae version of safeDiv

Revision 3357 - Directory Listing
Modified Wed Nov 17 06:21:37 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Fixed a crash when loading data from netCDF files.


Revision 3356 - Directory Listing
Modified Wed Nov 17 05:27:47 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Finley type Finley_Tri3Face_Contact is no longer untested within weipa.


Revision 3355 - Directory Listing
Modified Tue Nov 16 06:35:06 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Fixed building with boost < 1.40 by
- removing the saveVTK method from dudley's MeshAdapter completely
  (no point introducing it now when we are trying to get rid of it soon)
- adding a helper function to weipa's python layer which can be called from C++
  with older boost versions.



Revision 3354 - Directory Listing
Modified Tue Nov 16 04:48:09 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fix problem with superclass init


Revision 3353 - Directory Listing
Modified Tue Nov 16 04:32:40 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
some clarification on AMG in the documentation

Revision 3352 - Directory Listing
Modified Tue Nov 16 03:58:09 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
exposure of AMG options

Revision 3351 - Directory Listing
Modified Tue Nov 16 02:39:40 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
modified approach for AMG coarsning using a panel

Revision 3350 - Directory Listing
Modified Mon Nov 15 05:14:43 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Fixed MSVC90 file as per Gordon's report.


Revision 3349 - Directory Listing
Modified Mon Nov 15 05:09:56 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
escript now supports out-of-tree builds.
All build and test files are now created under a user-definable build_dir
directory.
This also fixes issue 291.
Removed most svn:ignore props since they are no longer required.


Revision 3348 - Directory Listing
Modified Fri Nov 12 05:55:50 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Added weipa import statements to the relevant parts in user guide and cookbook.
Documented the deprecation of esys.escript.saveVTK in the changes chapter.


Revision 3347 - Directory Listing
Modified Fri Nov 12 04:58:27 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
-Do not compare mesh variables (like owner, color etc) in the saveVTK tests
since they depend on the number of ranks.
-Fixed a problem where ranks without data samples can't know whether a
reduced mesh is to be used or not.


Revision 3346 - Directory Listing
Modified Fri Nov 12 01:19:02 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Replaced usage of esys.escript.util.saveVTK by weipa.saveVTK in all python
scripts.


Revision 3345 - Directory Listing
Modified Thu Nov 11 23:51:45 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Moved dudley saveVTK tests to weipa and removed unneeded files.


Revision 3344 - Directory Listing
Modified Thu Nov 11 23:26:52 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Phew!
-escript, finley, and dudley now uses weipa's saveVTK implementation
-moved tests from finley to weipa accordingly; dudley still to do
-rebaselined all test files
-fixed a few issues in weipa.saveVTK, e.g. saving metadata without schema
-added a deprecation warning to esys.escript.util.saveVTK
-todo: change doco, tests and other places to use weipa.saveVTK



Revision 3343 - Directory Listing
Modified Wed Nov 10 02:01:29 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Rename users guide to user.pdf from guide.pdf to match the conventions 
we follow with the other files.

Corrected the description of Einstein convention from "convenient"
to "compact". 


Revision 3342 - Directory Listing
Modified Tue Nov 9 03:41:58 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Fixed interpolation for Line3Macro elements in weipa.


Revision 3341 - Directory Listing
Modified Mon Nov 8 21:34:01 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Renamed MS options file.


Revision 3340 - Directory Listing
Modified Mon Nov 8 01:25:58 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Relax python version check.
Only checks X.Y not X.Y.Z
Fixes mantis #556


Revision 3339 - Directory Listing
Modified Fri Nov 5 05:30:31 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fixed more package clashing problems.
Package install.pdf not install.tex
Changed title on most documents to esys-Escript except for the cookbook coz I like ti that way.

Revision 3338 - Directory Listing
Modified Fri Nov 5 03:50:51 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Remove old name for man page to prevent clash with erlang.
Changed default library to link for boost to boost_python-mt



Revision 3337 - Directory Listing
Modified Fri Nov 5 03:20:19 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Work around weird scons behaviour


Revision 3336 - Directory Listing
Modified Fri Nov 5 00:28:44 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fixed bib entry


Revision 3335 - Directory Listing
Modified Wed Nov 3 05:02:57 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fix the launcher so that it can give an environment even if buildvars is not present.
Environment now includes scons for standalone builds.
Fixes and cleanup for the install documentation.
scons TEMPLATES updated to define the optionfile version by default.

...mumble
   finley no longer imports escript into the default namespace
...

Revision 3334 - Directory Listing
Modified Wed Nov 3 00:46:56 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Added 3.2 to changes page

Revision 3333 - Directory Listing
Modified Mon Nov 1 06:08:05 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Updated lapack paths on guineapig.


Revision 3332 - Directory Listing
Modified Mon Nov 1 05:26:55 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Copy run-escript over for a prefix install.
Fixes mantis issue: 551

Revision 3331 - Directory Listing
Modified Mon Nov 1 05:21:18 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Appendix done. Fixed some overfull hboxes.


Revision 3330 - Directory Listing
Modified Mon Nov 1 04:29:09 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Finished user's guide chapters up to Appendix.


Revision 3329 - Directory Listing
Modified Fri Oct 29 05:55:55 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Faultsystems2d. not finished yet.


Revision 3328 - Directory Listing
Modified Fri Oct 29 02:21:42 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Fixed script filename


Revision 3327 - Directory Listing
Modified Fri Oct 29 02:08:37 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
missing omp function added.

Revision 3326 - Directory Listing
Modified Fri Oct 29 00:45:32 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
6.2 Darcy Flux. Note that I commented the gravity flow subsection since it's
not written.


Revision 3325 - Directory Listing
Modified Fri Oct 29 00:30:51 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Section 6.1.


Revision 3324 - Directory Listing
Modified Thu Oct 28 23:43:09 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Finished pycad chapter 5, regenerated eps files


Revision 3323 - Directory Listing
Modified Thu Oct 28 09:53:46 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
some openmp fizes.

Revision 3322 - Directory Listing
Modified Thu Oct 28 05:26:37 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Adapt install guide to new style.
Simplify package building scripts to autodetect necessary info and build control file automatically.


Revision 3321 - Directory Listing
Modified Thu Oct 28 05:02:41 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
a problem with surface orientation fixed.

Revision 3320 - Directory Listing
Modified Thu Oct 28 03:29:51 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
This fixes the scons warning about not finding the Intel top dir on Savanna.


Revision 3319 - Directory Listing
Modified Thu Oct 28 03:14:27 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
export PATH to scons when creating environment so tools in non-default
locations such as latex on savanna are found.


Revision 3318 - Directory Listing
Modified Thu Oct 28 01:05:36 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
This should fix building paso without OpenMP.


Revision 3317 - Directory Listing
Modified Thu Oct 28 00:50:41 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Removed bogus mpi.h includes, replaced others by our esysUtils wrapper
and rearranged so that the wrapper always comes before netcdf which fixes
linking problems when disabling mpi on systems with netCDF 4.x.


Revision 3316 - Directory Listing
Modified Wed Oct 27 01:43:21 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Finished Chapter 4, added missing bibliography entries for Trilinos and SuperLU


Revision 3315 - Directory Listing
Modified Wed Oct 27 01:20:27 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
bug in sparse matrixmatrix fixed.

Revision 3314 - Directory Listing
Modified Tue Oct 26 22:22:20 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
output removed/leaned up

Revision 3313 - Directory Listing
Modified Tue Oct 26 22:00:09 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
some print statements removed

Revision 3312 - Directory Listing
Modified Tue Oct 26 07:54:58 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
last step for a clean up version of the AMG

Revision 3311 - Directory Listing
Modified Tue Oct 26 05:43:25 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Added raggedbottom to last page before appendix.
Condensed the latex picture figures a bit


Revision 3310 - Directory Listing
Modified Tue Oct 26 03:58:17 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fixed some pdf bookmarks and added the index package


Revision 3309 - Directory Listing
Modified Tue Oct 26 03:56:26 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Updated escript section with added DataManager reference.


Revision 3308 - Directory Listing
Modified Tue Oct 26 03:24:54 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Moved listing and class up a level.
Removed hackscore from cookbook.
Made cookbook use the new stuff - removed old stuff

Revision 3307 - Directory Listing
Modified Tue Oct 26 01:19:19 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Put index back in and added link to index and biblio to the TOC.


Revision 3306 - Directory Listing
Modified Mon Oct 25 05:09:13 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Commented declaremodule and modulesynopsis.


Revision 3305 - Directory Listing
Modified Mon Oct 25 05:04:22 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fancy shuffling


Revision 3304 - Directory Listing
Modified Mon Oct 25 04:43:48 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Disabled building html user's guide - it doesn't read the class file properly
and the PDF now supports links.


Revision 3303 - Directory Listing
Modified Mon Oct 25 04:33:31 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
more clean up work on the AMG

Revision 3302 - Directory Listing
Modified Mon Oct 25 01:50:07 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Fixed appendix so hyperref generates links properly

Revision 3301 - Directory Listing
Modified Mon Oct 25 01:27:54 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Modified layout of descriptions.
Fixed some overfull hboxes

Revision 3300 - Directory Listing
Modified Mon Oct 25 00:22:14 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Some text fixes


Revision 3299 - Directory Listing
Modified Sun Oct 24 23:44:18 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
some fixes

Revision 3298 - Directory Listing
Modified Fri Oct 22 06:49:04 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk


Revision 3297 - Directory Listing
Modified Fri Oct 22 05:47:37 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
small fix


Revision 3296 - Directory Listing
Modified Fri Oct 22 02:53:24 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
hackscore removal.


Revision 3295 - Directory Listing
Modified Fri Oct 22 01:56:02 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk


Revision 3294 - Directory Listing
Modified Fri Oct 22 01:15:56 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Tweaks


Revision 3293 - Directory Listing
Modified Thu Oct 21 23:18:32 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
user's guide builds again with new class file. The cleanup can commence...


Revision 3292 - Directory Listing
Modified Thu Oct 21 05:02:49 2010 UTC (7 years, 1 month ago) by jfenwick
Original Path: trunk
Adding the class file


Revision 3291 - Directory Listing
Modified Thu Oct 21 00:37:42 2010 UTC (7 years, 1 month ago) by caltinay
Original Path: trunk
Work on user's guide up to section 3.2 (exclusive), including some text on
new DataManager class.
Also reworked a couple of images.
This should be the last commit of the guide before changes to the latex class.


Revision 3290 - Directory Listing
Modified Wed Oct 20 08:31:56 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
small fixes

Revision 3289 - Directory Listing
Modified Wed Oct 20 07:07:11 2010 UTC (7 years, 1 month ago) by gross
Original Path: trunk
missing factor fixed.

Revision 3288 - Directory Listing
Modified Tue Oct 19 01:08:31 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Corrections to user guide sections 1.5 and 1.6.
Converted backgrounds of the very complex stokes flow eps files by raster
images leaving the vectors untouched so the change is barely visible but
makes loading the PDF page some orders of magnitude faster.


Revision 3287 - Directory Listing
Modified Tue Oct 19 00:42:22 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
complaint from valgrind about an uninitialized value fixed (no impact on result)

Revision 3286 - Directory Listing
Modified Tue Oct 19 00:36:27 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
small memory leak fixed.

Revision 3285 - Directory Listing
Modified Tue Oct 19 00:28:00 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
bug in initialization step fixed.

Revision 3284 - Directory Listing
Modified Mon Oct 18 23:48:04 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
old AMLI code collected in a single file. It does not compile and should be merged with RecILU

Revision 3283 - Directory Listing
Modified Mon Oct 18 22:39:28 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
AMG reengineered, BUG is Smoother fixed.



Revision 3282 - Directory Listing
Modified Fri Oct 15 06:59:32 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Don't build guide_pdf when only guide_html was requested.


Revision 3281 - Directory Listing
Modified Fri Oct 15 06:52:34 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
latex2html doesn't like './' in graphicspath, so removed it.


Revision 3280 - Directory Listing
Modified Fri Oct 15 05:11:11 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Corrections to 1.4 of the user's guide.


Revision 3279 - Directory Listing
Modified Fri Oct 15 04:02:06 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Some corrections to 1.3 of user's guide and defined graphicspath globally.


Revision 3278 - Directory Listing
Modified Fri Oct 15 02:00:45 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Updated section 1.2 of user's guide.


Revision 3277 - Directory Listing
Modified Fri Oct 15 01:06:24 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
This should keep scons happy on systems without pdflatex issuing a warning
to the user. Also updated all other doc sconscript files to use a global
release_dir prefix so we can easily move the files somewhere else if req'd.


Revision 3276 - Directory Listing
Modified Thu Oct 14 21:38:05 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
new damage solver

Revision 3275 - Directory Listing
Modified Thu Oct 14 06:15:27 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
As it turns out the tangential operator implementation is not a good idea.
This a check in to save the last version of this approach before starting using a different method.



Revision 3274 - Directory Listing
Modified Thu Oct 14 06:14:30 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Some initial corrections to the user's guide.


Revision 3273 - Directory Listing
Modified Thu Oct 14 05:44:08 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Fixed guide_html dependencies so the pages are really rebuilt when source
files change.


Revision 3272 - Directory Listing
Modified Thu Oct 14 04:02:06 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Similar to last commit but for cookbook. Can't test since cookbook doesn't
build at the moment.


Revision 3271 - Directory Listing
Modified Thu Oct 14 02:16:00 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
-use existing scons pdflatex target for user's guide
-create temporary files in build directory rather than source directory
-make latex less verbose if verbosity option is off
This fixes #291 for user's guide.


Revision 3270 - Directory Listing
Modified Thu Oct 14 00:30:11 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
added -dEPSCrop option to ps2pdf so graphics are cropped as expected.


Revision 3269 - Directory Listing
Modified Wed Oct 13 03:21:50 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
Fixed some intel compiler warnings.
Put linearPDEs back the way it was and present a common interface for dudley and finley (as per Lutz)


Revision 3268 - Directory Listing
Modified Wed Oct 13 02:16:23 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Do not ignore unknown options since the warnings are not easily visible,
bail out instead.


Revision 3267 - Directory Listing
Modified Wed Oct 13 02:12:06 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Renamed restarts.py to datamanager.py, added a method to explicitly set the
domain without adding data. Calling export() without domain/data will now
output a warning. Some additional cleanup.


Revision 3266 - Directory Listing
Modified Wed Oct 13 00:32:46 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Disable MPI on shake24 due to conflicting installations in default locations.


Revision 3265 - Directory Listing
Modified Tue Oct 12 04:42:03 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Updated relevant sections in install guide to reflect scons option changes.
Standalone section needs to be updated before the release.


Revision 3264 - Directory Listing
Modified Tue Oct 12 04:40:06 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
Minor changes to avoid optimiser bug in intel-10


Revision 3263 - Directory Listing
Modified Tue Oct 12 01:16:21 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Updated convection script to use escript DataManager.


Revision 3262 - Directory Listing
Modified Mon Oct 11 07:19:40 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
header file include added

Revision 3261 - Directory Listing
Modified Mon Oct 11 04:25:42 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
Disable some unit tests for dudley until I can fix MPI failures


Revision 3260 - Directory Listing
Modified Mon Oct 11 03:41:35 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
Removing dead files


Revision 3259 - Directory Listing
Modified Mon Oct 11 01:48:14 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
Merging dudley and scons updates from branches


Revision 3250 - Directory Listing
Modified Thu Oct 7 01:49:18 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Fixed a declaration/definition mismatch.


Revision 3245 - Directory Listing
Modified Tue Oct 5 23:17:56 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
Removing out of date scripts


Revision 3233 - Directory Listing
Modified Mon Oct 4 00:54:26 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
Fixed build error


Revision 3232 - Directory Listing
Modified Fri Oct 1 02:08:38 2010 UTC (7 years, 2 months ago) by ahallam
Original Path: trunk
Updates to cookbook, new chapter DC Resis and IP. Using new packages hyperref, natbib

Revision 3222 - Directory Listing
Modified Wed Sep 29 03:55:44 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
This should make windoze happy.


Revision 3209 - Directory Listing
Modified Mon Sep 27 01:54:46 2010 UTC (7 years, 2 months ago) by caltinay
Original Path: trunk
Added missing libraries to escriptconvert.


Revision 3208 - Directory Listing
Modified Sun Sep 26 23:31:17 2010 UTC (7 years, 2 months ago) by jfenwick
Original Path: trunk
List tests as not working with MPI


Revision 3201 - Directory Listing
Modified Thu Sep 23 06:54:18 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
bug in meanValue fixed.

Revision 3200 - Directory Listing
Modified Thu Sep 23 06:53:36 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
more damage

Revision 3195 - Directory Listing
Modified Wed Sep 22 00:28:04 2010 UTC (7 years, 2 months ago) by ahallam
Original Path: trunk
Shortened runtime of cookbook examples to aid testing.

Revision 3194 - Directory Listing
Modified Tue Sep 21 09:14:56 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
missing files

Revision 3193 - Directory Listing
Modified Tue Sep 21 06:56:44 2010 UTC (7 years, 2 months ago) by gross
Original Path: trunk
more clean up in AMG

Revision 3192 - Directory Listing
Modified Fri Sep 17 04:02:57 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
- weipa's saveVTK will now save multiple files if the data objects to write are
  not on the same mesh.
- the save* methods now also add the appropriate file extension if not already
  supplied


Revision 3191 - Directory Listing
Modified Fri Sep 17 00:44:20 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Use consistent naming for domain, mesh and 'chunks'


Revision 3190 - Directory Listing
Modified Thu Sep 16 23:29:09 2010 UTC (7 years, 3 months ago) by jfenwick
Original Path: trunk
Disable some cookbook examples until we can get issues sorted out


Revision 3188 - Directory Listing
Modified Thu Sep 16 04:36:38 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Fixed deletion of old restart directories with a checkpoint freq>1.


Revision 3186 - Directory Listing
Modified Thu Sep 16 01:23:53 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Added checkpoint frequency setting to DataManager so that visualisation files
can be created independent of restart files. Also removed the overhead of
creating an EscriptDataset instance for the restart-only case.



Revision 3185 - Directory Listing
Modified Thu Sep 16 00:30:09 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Weipa now supports initialization from DataConstant instances.


Revision 3183 - Directory Listing
Modified Tue Sep 14 23:09:59 2010 UTC (7 years, 3 months ago) by jfenwick
Original Path: trunk
Adding timing information to unit tests.


Revision 3182 - Directory Listing
Modified Tue Sep 14 06:05:55 2010 UTC (7 years, 3 months ago) by jfenwick
Original Path: trunk
Temporarily removing example8c from unit testing.
It seems to lock the test - or it runs for rediculous timeframes.


Revision 3181 - Directory Listing
Modified Tue Sep 14 05:01:00 2010 UTC (7 years, 3 months ago) by jfenwick
Original Path: trunk
Fix to buggy recovery of colouring information.
Unfortunately unable to fix buggy spelling of colour.


Revision 3180 - Directory Listing
Modified Tue Sep 14 03:39:55 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
some fixes for the case that no direc solver is available.

Revision 3179 - Directory Listing
Modified Tue Sep 14 01:55:24 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
typo fixed

Revision 3178 - Directory Listing
Modified Tue Sep 14 00:31:59 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Corrected check for python version in launcher, added a function get_buildvar
for convenience.


Revision 3177 - Directory Listing
Modified Mon Sep 13 10:30:24 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
running vresion

Revision 3176 - Directory Listing
Modified Sat Sep 11 01:09:54 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Maybe this will finally make the Mac happy.


Revision 3175 - Directory Listing
Modified Fri Sep 10 09:03:38 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
intial checkin 

Revision 3174 - Directory Listing
Modified Fri Sep 10 03:55:18 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Enabled debian's lapack on shake75.


Revision 3168 - Directory Listing
Modified Wed Sep 8 23:01:25 2010 UTC (7 years, 3 months ago) by ahallam
Original Path: trunk
Missing *.png

Revision 3167 - Directory Listing
Modified Wed Sep 8 03:24:29 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Only run pyvisi tests if VTK was enabled at configuration time.


Revision 3166 - Directory Listing
Modified Tue Sep 7 23:47:06 2010 UTC (7 years, 3 months ago) by ahallam
Original Path: trunk
Fix doc build error. I will add the figure when I come in tomorrow and turn Darra on.


Revision 3165 - Directory Listing
Modified Tue Sep 7 09:15:16 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Next attempt at fixing mac test failure.


Revision 3164 - Directory Listing
Modified Tue Sep 7 09:10:09 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Do not use VTK on guineapig - pyvisi is deprecated anyway.


Revision 3162 - Directory Listing
Modified Tue Sep 7 05:29:32 2010 UTC (7 years, 3 months ago) by jfenwick
Original Path: trunk
Changes to match packages in the debian repo.
Also got rid of lib/pyversion


Revision 3160 - Directory Listing
Modified Mon Sep 6 09:17:28 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
bug fixed in RILU and test modified.

Revision 3159 - Directory Listing
Modified Mon Sep 6 06:59:31 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
AMG is using now a simpler interface to the Smoothers.

Revision 3158 - Directory Listing
Modified Mon Sep 6 06:09:11 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
GS and Jacobi are now used through the same interface.

Revision 3154 - Directory Listing
Modified Sun Sep 5 22:49:51 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Possible fix for mac linker error.


Revision 3153 - Directory Listing
Modified Sun Sep 5 01:31:49 2010 UTC (7 years, 3 months ago) by ahallam
Original Path: trunk
Updates to cookbook. Fixes to SWP and new Gravitational Potential

Revision 3151 - Directory Listing
Modified Fri Sep 3 05:46:12 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
More weipa tests including saveVTK.


Revision 3150 - Directory Listing
Modified Fri Sep 3 05:40:27 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Removed executable prop from non-executables.


Revision 3148 - Directory Listing
Modified Fri Sep 3 02:09:47 2010 UTC (7 years, 3 months ago) by jfenwick
Original Path: trunk
Another attempt to patch the X issue


Revision 3147 - Directory Listing
Modified Fri Sep 3 02:03:05 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Don't clear domain on error. Moved adding Metadata-tags to the C++ level.


Revision 3146 - Directory Listing
Modified Fri Sep 3 01:29:21 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Properly initialise data centering variable.


Revision 3143 - Directory Listing
Modified Fri Sep 3 00:31:55 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
-Moved finley specifics into weipa subclasses
-EscriptDataset is now the only weipa class exported in Windows
-Some weipa code cleanup



Revision 3142 - Directory Listing
Modified Thu Sep 2 23:58:47 2010 UTC (7 years, 3 months ago) by jfenwick
Original Path: trunk
Trying to fix X problem


Revision 3140 - Directory Listing
Modified Thu Sep 2 07:26:43 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
a more robust version of MINRES (really?)

Revision 3139 - Directory Listing
Modified Thu Sep 2 06:37:43 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Fixed a typo.


Revision 3135 - Directory Listing
Modified Thu Sep 2 03:28:39 2010 UTC (7 years, 3 months ago) by ahallam
Original Path: trunk
Updates to cookbook scripts. Gravitation Examples.

Revision 3133 - Directory Listing
Modified Thu Sep 2 02:04:29 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Added methods to set mesh labels and units to DataManager.


Revision 3132 - Directory Listing
Modified Thu Sep 2 01:48:31 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Removed unused variable.


Revision 3131 - Directory Listing
Modified Thu Sep 2 01:40:47 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
DataManager now uses Python magic to figure out how to load the domain without
hardcoding anything finley-specific.


Revision 3129 - Directory Listing
Modified Wed Sep 1 07:58:23 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Fixed unit test.


Revision 3128 - Directory Listing
Modified Wed Sep 1 03:54:09 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
-Added mesh axis label/unit and variable unit support to weipa's Silo writer
-Created EscriptDataset python wrapper
-Some code cleanup and a ghost zone fix for the VisIt interface


Revision 3125 - Directory Listing
Modified Tue Aug 31 05:37:30 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
more code cleaning

Revision 3121 - Directory Listing
Modified Mon Aug 30 23:12:58 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
missing file

Revision 3120 - Directory Listing
Modified Mon Aug 30 10:48:00 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
first iteration on Paso code clean up

Revision 3116 - Directory Listing
Modified Mon Aug 30 00:54:52 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Prepared weipa to use Silo's HDF5 driver & compression which performs better
than the default PDB. Code is disabled though because NetCDF 4 is currently
interfering (Unidata has been contacted). Added a note about this.


Revision 3113 - Directory Listing
Modified Fri Aug 27 04:04:56 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Fixed commit from rev.2867 which broke the ability to specify script parameters.


Revision 3112 - Directory Listing
Modified Thu Aug 26 07:10:36 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
missing include added.

Revision 3111 - Directory Listing
Modified Thu Aug 26 06:49:42 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
some diagnostics for time step backtracing added

Revision 3110 - Directory Listing
Modified Thu Aug 26 05:42:18 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Fixed a typo.


Revision 3109 - Directory Listing
Modified Thu Aug 26 04:33:18 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Added accessor for the simulation cycle and log which directory was used to
restart.


Revision 3108 - Directory Listing
Modified Thu Aug 26 03:43:05 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
More weipa tests.


Revision 3107 - Directory Listing
Modified Thu Aug 26 03:41:28 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Removed ugly #defines in favour of a class.


Revision 3106 - Directory Listing
Modified Wed Aug 25 08:15:38 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Fixed export when 'work_dir' is set to sth other than the current dir.


Revision 3105 - Directory Listing
Modified Wed Aug 25 04:37:52 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
bug fixed in the Gauss Seidel

Revision 3104 - Directory Listing
Modified Wed Aug 25 00:53:25 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Set up initial test suite files for weipa and some basic preliminary tests.


Revision 3103 - Directory Listing
Modified Tue Aug 24 07:01:33 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
test fix

Revision 3102 - Directory Listing
Modified Tue Aug 24 06:14:21 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
Inject the DataManager class to the escript namespace.


Revision 3101 - Directory Listing
Modified Tue Aug 24 06:08:12 2010 UTC (7 years, 3 months ago) by caltinay
Original Path: trunk
weipa's saveVTK now stores metadata schema & string as expected.


Revision 3100 - Directory Listing
Modified Mon Aug 23 09:31:09 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
bug in ILU0 fixed.

Revision 3099 - Directory Listing
Modified Sun Aug 22 04:35:15 2010 UTC (7 years, 3 months ago) by ahallam
Original Path: trunk
Gravitational Potential Example- Needs some tuning.

Revision 3098 - Directory Listing
Modified Fri Aug 20 08:08:27 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
fix to the GaussSeidel

Revision 3097 - Directory Listing
Modified Fri Aug 20 04:59:12 2010 UTC (7 years, 3 months ago) by gross
Original Path: trunk
some modifications to the GaussSeidel

Revision 3096 - Directory Listing
Modified Thu Aug 19 01:40:52 2010 UTC (7 years, 4 months ago) by caltinay
Original Path: trunk
-New VisIt simulation control interface in weipa (uses VisIt's simv2)
-Rewrote restarts.py to be a more generic data manager for restarts and exports
-Removed weipa python file since the functionality is now handled by restarts.py


Revision 3095 - Directory Listing
Modified Tue Aug 17 03:42:31 2010 UTC (7 years, 4 months ago) by caltinay
Original Path: trunk
Fixed building libescriptreader for the VisIt plugin.


Revision 3094 - Directory Listing
Modified Fri Aug 13 08:38:06 2010 UTC (7 years, 4 months ago) by gross
Original Path: trunk
The MPI and sequational GAUSS_SEIDEL have been merged.
The couring and main diagonal pointer is now manged by the patternm which means that they are calculated once only even if the preconditioner is deleted.




Revision 3093 - Directory Listing
Modified Fri Aug 13 08:07:45 2010 UTC (7 years, 4 months ago) by gross
Original Path: trunk
problem with no MPI compilation fixed

Revision 3092 - Directory Listing
Modified Fri Aug 13 07:55:03 2010 UTC (7 years, 4 months ago) by caltinay
Original Path: trunk
Added getDataFlat() which will be used by the VisIt simulation interface


Revision 3091 - Directory Listing
Modified Fri Aug 13 07:47:57 2010 UTC (7 years, 4 months ago) by caltinay
Original Path: trunk
-fixed cleanup on error when invoking escriptconvert in parallel
-fixed saving VTK files on one rank if data was loaded in chunks
-cleaned up EscriptDataset and split a couple of methods


Revision 3089 - Directory Listing
Modified Mon Aug 9 07:20:58 2010 UTC (7 years, 4 months ago) by ahallam
Original Path: trunk
Updates to example scripts - should now be working except for example09b.py which needs more memory.

Revision 3084 - Directory Listing
Modified Wed Aug 4 03:26:50 2010 UTC (7 years, 4 months ago) by gross
Original Path: trunk
small bug fixed.

Revision 3083 - Directory Listing
Modified Tue Aug 3 06:34:35 2010 UTC (7 years, 4 months ago) by caltinay
Original Path: trunk
Updated some svn:ignore props.


Revision 3081 - Directory Listing
Modified Tue Aug 3 05:36:42 2010 UTC (7 years, 4 months ago) by gross
Original Path: trunk
a light restart manager added.

Revision 3078 - Directory Listing
Modified Tue Aug 3 03:12:16 2010 UTC (7 years, 4 months ago) by jfenwick
Original Path: trunk
Switched the build_dir keyword param to variant_dir.
Should fix issue 525.



Revision 3077 - Directory Listing
Modified Mon Aug 2 23:01:14 2010 UTC (7 years, 4 months ago) by jfenwick
Original Path: trunk
Fix my error


Revision 3076 - Directory Listing
Modified Mon Aug 2 05:21:40 2010 UTC (7 years, 4 months ago) by jfenwick
Original Path: trunk
Removing hardcoded savanna from the SConstruct file.


Revision 3075 - Directory Listing
Modified Wed Jul 28 02:51:20 2010 UTC (7 years, 4 months ago) by ahallam
Original Path: trunk
Updates to cookbook example. Lumping turned off for order 2 models until bug resolves.

Revision 3074 - Directory Listing
Modified Tue Jul 27 01:47:45 2010 UTC (7 years, 4 months ago) by gross
Original Path: trunk
tolerance for PCG relaxed.

Revision 3073 - Directory Listing
Modified Mon Jul 26 06:10:50 2010 UTC (7 years, 4 months ago) by jfenwick
Original Path: trunk
Rename files to fix build problem


Revision 3072 - Directory Listing
Modified Fri Jul 23 07:10:03 2010 UTC (7 years, 4 months ago) by gross
Original Path: trunk
wrong file

Revision 3071 - Directory Listing
Modified Wed Jul 21 05:37:30 2010 UTC (7 years, 4 months ago) by gross
Original Path: trunk
new darcy flux

Revision 3070 - Directory Listing
Modified Wed Jul 21 04:09:58 2010 UTC (7 years, 4 months ago) by jfenwick
Original Path: trunk
Fixord


Revision 3069 - Directory Listing
Modified Wed Jul 21 03:24:48 2010 UTC (7 years, 4 months ago) by ahallam
Original Path: trunk
Updates to layer cake and cookbook as well as examples.

Revision 3068 - Directory Listing
Modified Mon Jul 19 00:43:31 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Missing Figures

Revision 3067 - Directory Listing
Modified Mon Jul 19 00:40:37 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Cookbook Updates - Chapter 9 - New figures.

Revision 3066 - Directory Listing
Modified Sun Jul 18 23:32:07 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Missing Picture causing errors.

Revision 3065 - Directory Listing
Modified Thu Jul 15 02:59:27 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Updates to newer examples.

Revision 3064 - Directory Listing
Modified Thu Jul 15 02:58:23 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Updates to cookbook with fixed images and new chaper for 3d seismic model. New chapter is now added.

Revision 3063 - Directory Listing
Modified Thu Jul 15 02:57:46 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Updates to cookbook with fixed images and new chaper for 3d seismic model.

Revision 3062 - Directory Listing
Modified Wed Jul 14 00:18:30 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Joels suggested changes for naming conventions. The function is now located in esys.pycad.extras as layer_cake.

Revision 3061 - Directory Listing
Modified Tue Jul 13 23:34:10 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
function LayerCake fixed is now under esys.pycad.layer_cake

Revision 3060 - Directory Listing
Modified Tue Jul 13 00:55:09 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Adding layer cake builder to pycad

Revision 3059 - Directory Listing
Modified Tue Jul 6 03:31:48 2010 UTC (7 years, 5 months ago) by jfenwick
Original Path: trunk
Fix error message in launcher. Allow non-data objects to be passed to condEval

Revision 3058 - Directory Listing
Modified Tue Jul 6 02:13:14 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk


Revision 3057 - Directory Listing
Modified Tue Jul 6 02:10:59 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk


Revision 3056 - Directory Listing
Modified Mon Jul 5 00:07:16 2010 UTC (7 years, 5 months ago) by jfenwick
Original Path: trunk
Have the escript launcher check the PBS_NODEFILE variable for hosts.


Revision 3055 - Directory Listing
Modified Sun Jul 4 21:52:36 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
3d wave equation and ABC

Revision 3054 - Directory Listing
Modified Wed Jun 30 02:22:25 2010 UTC (7 years, 5 months ago) by ahallam
Original Path: trunk
Missing Figures...

Revision 3053 - Directory Listing
Modified Tue Jun 29 01:31:31 2010 UTC (7 years, 5 months ago) by jfenwick
Original Path: trunk
Fixes to deal with new savanna configuration.
Blocking out missing images.


Revision 3052 - Directory Listing
Modified Tue Jun 29 00:57:45 2010 UTC (7 years, 5 months ago) by lgao
Original Path: trunk
Revert the commit of this options file made by my last commit for Gauss-Seidel. 



Revision 3051 - Directory Listing
Modified Tue Jun 29 00:45:49 2010 UTC (7 years, 5 months ago) by lgao
Original Path: trunk
Hybrid MPI/OpenMP versioned Gauss_Seidel preconditioner is added. 
To use it, use "SolverOptions.GAUSS_SEIDEL_MPI" in python script. 



Revision 3050 - Directory Listing
Modified Sun Jun 27 22:54:12 2010 UTC (7 years, 5 months ago) by jfenwick
Original Path: trunk
Visual studio 2008 (v9.0) with Microsoft MPI libraries.
Courtesy of Gordon German.


Revision 3047 - Directory Listing
Modified Thu Jun 24 00:33:05 2010 UTC (7 years, 5 months ago) by jfenwick
Original Path: trunk
Adding user name to tmpfiles.
Changing name of cluster options file to savanna from service0


Revision 3046 - Directory Listing
Modified Tue Jun 22 08:01:55 2010 UTC (7 years, 5 months ago) by gross
Original Path: trunk
some examples for a simple subduction model

Revision 3045 - Directory Listing
Modified Fri Jun 18 06:38:18 2010 UTC (7 years, 6 months ago) by lgao
Original Path: trunk
Enable MKL and Lapack (the unit test problem has been fixed after Artak's commit). 



Revision 3044 - Directory Listing
Modified Fri Jun 18 04:48:47 2010 UTC (7 years, 6 months ago) by artak
Original Path: trunk
Put back

Revision 3043 - Directory Listing
Modified Fri Jun 18 04:45:14 2010 UTC (7 years, 6 months ago) by artak
Original Path: trunk
Problem with latest MKL should be fixed now. The problem was solving unrolled block matrix with MKL.

Revision 3042 - Directory Listing
Modified Fri Jun 18 04:01:43 2010 UTC (7 years, 6 months ago) by lgao
Original Path: trunk
Disable Lapack to disable MKL.



Revision 3041 - Directory Listing
Modified Fri Jun 18 04:01:40 2010 UTC (7 years, 6 months ago) by artak
Original Path: trunk
Should be faster with openmp. Some ROW-COL conversion.

Revision 3040 - Directory Listing
Modified Fri Jun 18 03:05:17 2010 UTC (7 years, 6 months ago) by lgao
Original Path: trunk
Using lastest MKL library and set "usemkl=no" before the
problem with MKL in unit tests is solved ("maximum number 
of iteration step reached" for test_***_AMG_System). 



Revision 3039 - Directory Listing
Modified Tue Jun 15 07:21:56 2010 UTC (7 years, 6 months ago) by caltinay
Original Path: trunk
Fix the NetCDF 4.1 issue (hopefully) - MPICH and IntelMPI have the required
definition.


Revision 3038 - Directory Listing
Modified Tue Jun 15 07:08:46 2010 UTC (7 years, 6 months ago) by lgao
Original Path: trunk
Update the path to Intel-mpi 4.0.0.027



Revision 3037 - Directory Listing
Modified Mon Jun 14 00:59:30 2010 UTC (7 years, 6 months ago) by caltinay
Original Path: trunk
Renamed escriptexport to weipa. Fixes #475.


Revision 3036 - Directory Listing
Modified Mon Jun 14 00:13:18 2010 UTC (7 years, 6 months ago) by caltinay
Original Path: trunk
Fixed compilation with MPI and NetCDF 4.1. Removed obsolete options file.


Revision 3035 - Directory Listing
Modified Thu Jun 10 01:48:41 2010 UTC (7 years, 6 months ago) by jfenwick
Original Path: trunk
Lazy node support for conditional evaluation.
It should be a complete operation now.


Revision 3034 - Directory Listing
Modified Wed Jun 9 03:24:23 2010 UTC (7 years, 6 months ago) by jfenwick
Original Path: trunk
Adding unit tests for condEval


Revision 3033 - Directory Listing
Modified Wed Jun 2 10:17:00 2010 UTC (7 years, 6 months ago) by gross
Original Path: trunk
fix for overflow

Revision 3032 - Directory Listing
Modified Mon May 31 02:58:15 2010 UTC (7 years, 6 months ago) by jfenwick
Original Path: trunk
Add work around for windows not liking chained X::Y::Z.
TestDomain now supports tags and getX.
This is to allow testing for some features without invoking finley


Revision 3031 - Directory Listing
Modified Thu May 27 04:04:33 2010 UTC (7 years, 6 months ago) by jfenwick
Original Path: trunk
Adding condEval function to Data.
Unit tests and a different name to follow.

Revision 3030 - Directory Listing
Modified Fri May 21 05:25:20 2010 UTC (7 years, 6 months ago) by lgao
Original Path: trunk
Update savanna_options file to use the correct silo module.



Revision 3029 - Directory Listing
Modified Fri May 21 02:01:37 2010 UTC (7 years, 6 months ago) by ahallam
Original Path: trunk
small updates and work on seismic code

Revision 3028 - Directory Listing
Modified Thu May 13 03:41:27 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
a new test problem (doesn't use unit testing)

Revision 3027 - Directory Listing
Modified Wed May 12 05:26:09 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
some little fixes in an old script

Revision 3026 - Directory Listing
Modified Mon May 10 06:23:49 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
some fix for omp

Revision 3025 - Directory Listing
Modified Thu May 6 01:20:46 2010 UTC (7 years, 7 months ago) by ahallam
Original Path: trunk
Updates to wave equation examples. Pressure wave examples should be completed now. Working on seismic wave examples. Cookbook chapter for pressure wave examples also added.

Revision 3024 - Directory Listing
Modified Wed May 5 01:12:32 2010 UTC (7 years, 7 months ago) by jfenwick
Original Path: trunk
Some savanna fixes but not complete


Revision 3023 - Directory Listing
Modified Wed May 5 01:00:16 2010 UTC (7 years, 7 months ago) by lgao
Original Path: trunk
Option file update for machine "sunzi".


Revision 3022 - Directory Listing
Modified Wed May 5 00:14:45 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
typo fixed.


Revision 3021 - Directory Listing
Modified Tue May 4 10:14:12 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
MPI problem fixed.

Revision 3020 - Directory Listing
Modified Tue May 4 09:10:03 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
reactive solver added

Revision 3019 - Directory Listing
Modified Fri Apr 30 06:10:37 2010 UTC (7 years, 7 months ago) by jfenwick
Original Path: trunk
adding Lin options

Revision 3018 - Directory Listing
Modified Thu Apr 29 21:35:24 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
some stupid lines removed

Revision 3017 - Directory Listing
Modified Thu Apr 29 03:40:12 2010 UTC (7 years, 7 months ago) by artak
Original Path: trunk
Some AMLI for systems fixes

Revision 3016 - Directory Listing
Modified Wed Apr 28 05:28:44 2010 UTC (7 years, 7 months ago) by artak
Original Path: trunk
firstprivate added for OpenMP

Revision 3015 - Directory Listing
Modified Wed Apr 28 05:06:26 2010 UTC (7 years, 7 months ago) by artak
Original Path: trunk
OpenMP commented out for now

Revision 3014 - Directory Listing
Modified Wed Apr 28 04:05:21 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
a more stable handling of divergence in the CN or BE

Revision 3013 - Directory Listing
Modified Wed Apr 28 03:47:51 2010 UTC (7 years, 7 months ago) by artak
Original Path: trunk
Block separation part commented out for AMG preconditioner

Revision 3012 - Directory Listing
Modified Wed Apr 28 03:39:22 2010 UTC (7 years, 7 months ago) by lgao
Original Path: trunk
Fix the MPI compilation bug.



Revision 3011 - Directory Listing
Modified Wed Apr 28 02:21:23 2010 UTC (7 years, 7 months ago) by artak
Original Path: trunk
New method added for unrolling System matrix. Direct solver now uses unrolled copy of the AMG matrix.

Revision 3010 - Directory Listing
Modified Tue Apr 27 05:10:46 2010 UTC (7 years, 7 months ago) by artak
Original Path: trunk
Preparation for AMG on Systems without cut using frobenius norm

Revision 3009 - Directory Listing
Modified Thu Apr 22 11:17:42 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
another MPI problem fixed

Revision 3008 - Directory Listing
Modified Thu Apr 22 10:19:20 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
MPI problem fixed

Revision 3007 - Directory Listing
Modified Thu Apr 22 09:08:36 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
typo for MPI cse fixed

Revision 3006 - Directory Listing
Modified Thu Apr 22 08:31:28 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
local_norm_w removed

Revision 3005 - Directory Listing
Modified Thu Apr 22 05:59:31 2010 UTC (7 years, 7 months ago) by gross
Original Path: trunk
early call of setPreconditioner in FCT solver removed.

Revision 3004 - Directory Listing
Modified Wed Apr 14 05:27:30 2010 UTC (7 years, 8 months ago) by ahallam
Original Path: trunk
Sampling theorem, stability requirements, Laplacian discussion, Pressure wave PDE

Revision 3003 - Directory Listing
Modified Wed Apr 7 02:29:57 2010 UTC (7 years, 8 months ago) by ahallam
Original Path: trunk
Pressure wave working, accelleration example, new entries to cookbook for example 7.

Revision 3002 - Directory Listing
Modified Wed Apr 7 02:25:45 2010 UTC (7 years, 8 months ago) by gross
Original Path: trunk
gmsh now supports the Mesh.SubdivisionAlgorithm and Mesh.Algorithm3D option.
The Mesh.Algorithm, Mesh.Smoothing, Mesh.Optimization options are now set in the
.geo file rather than in the command line.






Revision 3001 - Directory Listing
Modified Wed Mar 31 04:29:10 2010 UTC (7 years, 8 months ago) by ahallam
Original Path: trunk
Pressue wave problem, looking at sampling theorem, and Crank-Nicolson

Revision 3000 - Directory Listing
Modified Tue Mar 30 03:10:13 2010 UTC (7 years, 8 months ago) by lgao
Original Path: trunk
Gauss_Seidel preconditioner is now SPD. 



Revision 2999 - Directory Listing
Modified Fri Mar 26 00:00:39 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
NE set to 10 elemennt, because 6 is too small for mpi=8 job.

Revision 2998 - Directory Listing
Modified Wed Mar 24 04:00:20 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
More openMP corrections

Revision 2997 - Directory Listing
Modified Wed Mar 24 01:46:33 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
Some openMP corrections

Revision 2996 - Directory Listing
Modified Tue Mar 23 06:24:09 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
Tests are added for GAUSS_SEIDEL

Revision 2995 - Directory Listing
Modified Tue Mar 23 06:14:26 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
AMG levels maximum set 5

Revision 2994 - Directory Listing
Modified Tue Mar 23 06:13:14 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
AMG levels maximum set 5

Revision 2993 - Directory Listing
Modified Tue Mar 23 04:29:30 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
Some optimization on GAUSS_SEIDEL sweeps.

Revision 2992 - Directory Listing
Modified Tue Mar 23 04:16:28 2010 UTC (7 years, 8 months ago) by artak
Original Path: trunk
Sweeps bug is fixed and some more comments added about how sweeps computed

Revision 2991 - Directory Listing
Modified Mon Mar 22 05:42:48 2010 UTC (7 years, 8 months ago) by gross
Original Path: trunk
isub as private added

Revision 2990 - Directory Listing
Modified Fri Mar 19 05:57:22 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
some prints removed.

Revision 2989 - Directory Listing
Modified Thu Mar 18 01:45:55 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
- bug in error handling in the case of lumped mass matrix fixed.
- switched back to rowsum lumping as there are problems with HRZ lumping for order 2 



Revision 2988 - Directory Listing
Modified Tue Mar 16 06:14:30 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
C-level lumping switched on

Revision 2987 - Directory Listing
Modified Tue Mar 16 01:32:43 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
FCT solver rewritten

Revision 2982 - Directory Listing
Modified Wed Mar 10 04:27:47 2010 UTC (7 years, 9 months ago) by caltinay
Original Path: trunk
Some minor corrections to the cookbook (mainly word repetitions and typos).


Revision 2980 - Directory Listing
Modified Tue Mar 9 03:50:58 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
minor change to fix latest bug

Revision 2979 - Directory Listing
Modified Tue Mar 9 02:54:32 2010 UTC (7 years, 9 months ago) by ahallam
Original Path: trunk
cookbook review final final 3.1 - artak and tony corrections

Revision 2978 - Directory Listing
Modified Tue Mar 9 02:11:07 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
minor

Revision 2977 - Directory Listing
Modified Tue Mar 9 00:33:28 2010 UTC (7 years, 9 months ago) by ahallam
Original Path: trunk
cookbook review final 3.1

Revision 2976 - Directory Listing
Modified Mon Mar 8 01:18:33 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
Lame equation is corrected. Options for using smoother in AMG is added. A book on AMG is cited for standard coarsening. 

Revision 2975 - Directory Listing
Modified Thu Mar 4 05:44:12 2010 UTC (7 years, 9 months ago) by ahallam
Original Path: trunk
Cookbook modifications Review -> Not quite finished yet.
New figure.

Revision 2974 - Directory Listing
Modified Thu Mar 4 03:09:35 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
forgot to skip example06.py as well

Revision 2973 - Directory Listing
Modified Thu Mar 4 03:07:22 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
example05c.py is not tested if matplotlib library version is too old, where quiver() does not support angle parameter.

Revision 2972 - Directory Listing
Modified Thu Mar 4 01:33:38 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
DONE. Einstain Summation Convention (ESC, what an irony, reminds me ESC button) is removed from cookbook as it is not used anywhere in the cookbook.

Revision 2971 - Directory Listing
Modified Wed Mar 3 23:19:00 2010 UTC (7 years, 9 months ago) by jfenwick
Original Path: trunk
I hate voodoo.
Putting pdfinfo directive in two places in the cookbook header so that
both versions of evince get the right title.


Revision 2970 - Directory Listing
Modified Wed Mar 3 05:23:50 2010 UTC (7 years, 9 months ago) by jfenwick
Original Path: trunk
Fix out of date comment


Revision 2969 - Directory Listing
Modified Wed Mar 3 04:27:00 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
reached Chapter 4

Revision 2968 - Directory Listing
Modified Wed Mar 3 04:02:30 2010 UTC (7 years, 9 months ago) by caltinay
Original Path: trunk
Updated service0 & shake75 options to use cxx_extra


Revision 2967 - Directory Listing
Modified Wed Mar 3 03:50:46 2010 UTC (7 years, 9 months ago) by caltinay
Original Path: trunk
scons now understands cc_extra and cxx_extra. The former applies only to the
C compiler, the latter to the C++ compiler which fixes #510.


Revision 2966 - Directory Listing
Modified Wed Mar 3 03:19:39 2010 UTC (7 years, 9 months ago) by jfenwick
Original Path: trunk
Fixing non-ansi compliant code


Revision 2965 - Directory Listing
Modified Wed Mar 3 01:53:41 2010 UTC (7 years, 9 months ago) by jfenwick
Original Path: trunk
Added MPI aware MIS


Revision 2964 - Directory Listing
Modified Wed Mar 3 01:21:09 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
up to Chapter 3

Revision 2963 - Directory Listing
Modified Wed Mar 3 01:10:11 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
up to section 2.1.9

Revision 2962 - Directory Listing
Modified Wed Mar 3 01:03:56 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
bar as unit added

Revision 2961 - Directory Listing
Modified Wed Mar 3 00:56:59 2010 UTC (7 years, 9 months ago) by jfenwick
Original Path: trunk
Hacking cookbook


Revision 2960 - Directory Listing
Modified Tue Mar 2 07:54:11 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
new DarcyFlux solver

Revision 2959 - Directory Listing
Modified Tue Mar 2 06:27:17 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
more corrections on exmaple 1, up to section 2.1.5

Revision 2958 - Directory Listing
Modified Tue Mar 2 06:00:39 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
more corrections on exmaple 1, up to section 2.1.5

Revision 2957 - Directory Listing
Modified Tue Mar 2 01:28:19 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
more corrections

Revision 2956 - Directory Listing
Modified Mon Mar 1 01:31:59 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
First corrections: NEEDS MORE AND MORE...

Revision 2955 - Directory Listing
Modified Mon Mar 1 00:54:37 2010 UTC (7 years, 9 months ago) by jfenwick
Original Path: trunk
Fix hackscore error


Revision 2954 - Directory Listing
Modified Fri Feb 26 06:09:47 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
bug introduced by a smart programmer to the Locator has been fixed?


Revision 2953 - Directory Listing
Modified Thu Feb 25 10:00:23 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
final touch to the naming in the cookbook

Revision 2952 - Directory Listing
Modified Thu Feb 25 09:52:10 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
even more renaming in the cookbook

Revision 2951 - Directory Listing
Modified Thu Feb 25 07:43:40 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
more renaming in the cookbook

Revision 2950 - Directory Listing
Modified Thu Feb 25 07:33:16 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
more renames in the cookbook.

Revision 2949 - Directory Listing
Modified Thu Feb 25 05:23:11 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
renaming examples part 1

Revision 2948 - Directory Listing
Modified Thu Feb 25 04:54:30 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
a new almost completed version of the cookbook

Revision 2944 - Directory Listing
Modified Tue Feb 23 23:51:20 2010 UTC (7 years, 9 months ago) by jfenwick
Original Path: trunk
Fix latex markup in pdf title.
It turns out \pdfinfo must come after \maketitle if you don't want the
latex version of the title.

This behaviour does not happen in evince 2.22.2 (standard in lenny) but does
happen in more recent versions.



Revision 2943 - Directory Listing
Modified Tue Feb 23 01:49:27 2010 UTC (7 years, 9 months ago) by artak
Original Path: trunk
VTK as a required package is removed from cookbook

Revision 2942 - Directory Listing
Modified Mon Feb 22 05:43:44 2010 UTC (7 years, 9 months ago) by caltinay
Original Path: trunk
Fixed a small typo in the cookbook abstract.


Revision 2941 - Directory Listing
Modified Mon Feb 22 05:17:43 2010 UTC (7 years, 9 months ago) by caltinay
Original Path: trunk
saveESD now doesn't store the absolute path to the files in the ESD file so
the whole dataset can be moved easily.


Revision 2940 - Directory Listing
Modified Fri Feb 19 00:38:45 2010 UTC (7 years, 9 months ago) by caltinay
Original Path: trunk
Minor potential optimization: prefer empty() over size()==0.


Revision 2939 - Directory Listing
Modified Thu Feb 18 04:16:59 2010 UTC (7 years, 9 months ago) by gross
Original Path: trunk
some print statements removed.

Revision 2938 - Directory Listing
Modified Thu Feb 18 00:24:35 2010 UTC (7 years, 9 months ago) by caltinay
Original Path: trunk
saveESD: Add a warning about the experimental status of ESD.
Save the ESD file within the data directory.


Revision 2937 - Directory Listing
Modified Tue Feb 16 00:01:52 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Corrected an MPI datatype


Revision 2936 - Directory Listing
Modified Mon Feb 15 03:29:53 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
some clarification added.

Revision 2935 - Directory Listing
Modified Mon Feb 15 03:15:59 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
pycad support 3D transfinite meshing now.

Revision 2934 - Directory Listing
Modified Fri Feb 12 05:09:06 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
gmsh reader supports second order recs and hex now

Revision 2933 - Directory Listing
Modified Tue Feb 9 03:27:37 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
test for positivity of initial solution in transport solver has been switched on again

Revision 2932 - Directory Listing
Modified Mon Feb 8 06:48:19 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
printfs removed.

Revision 2931 - Directory Listing
Modified Mon Feb 8 06:45:41 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
more changes on the cookbook

Revision 2930 - Directory Listing
Modified Mon Feb 8 06:25:43 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
escriptconvert can now convert both to Silo and VTK and is thus built by
default


Revision 2929 - Directory Listing
Modified Mon Feb 8 05:13:27 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Implemented mantis issue 464 in dataexporter: better resolution for Tri6 and
Tet10 elements via point-in-triangle and point-in-tetrahedron tests.


Revision 2926 - Directory Listing
Modified Thu Feb 4 23:13:53 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Attempting to fix a problem with windows linking in the ironically named INKNOWWHATIMDOING section


Revision 2925 - Directory Listing
Modified Thu Feb 4 23:12:34 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Update savanna to build c99 style



Revision 2924 - Directory Listing
Modified Thu Feb 4 05:30:53 2010 UTC (7 years, 10 months ago) by trankine
Original Path: trunk
* windows specific "we cant work out autolink" workaround
http://old.nabble.com/boost-1.41-and-autolink-%28maybe-the-wrong-list%29-td27040284.html

Revision 2923 - Directory Listing
Modified Thu Feb 4 04:05:36 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Bringing non-release specific things from stage3.1 r2922 back to trunk


Revision 2919 - Directory Listing
Modified Thu Feb 4 00:53:58 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Took over Macro element handling from finley.saveVTK.


Revision 2918 - Directory Listing
Modified Thu Feb 4 00:53:37 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Quick fix for Windows scons problem due to the same files being compiled twice
in the same directory. Visit plugin is not for Windows anyway so disabled it
there.


Revision 2917 - Directory Listing
Modified Wed Feb 3 06:19:50 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Fix for the fix ;-) The dataexporter is used in a context where HAVE_MPI is set
but mpi not initialised -> have to check for mpiSize.


Revision 2915 - Directory Listing
Modified Wed Feb 3 05:55:16 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
uninitialised variable error for non-mpi case fixed.

Revision 2914 - Directory Listing
Modified Wed Feb 3 05:38:12 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
missing import added.

Revision 2913 - Directory Listing
Modified Wed Feb 3 04:30:46 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
type fixed

Revision 2912 - Directory Listing
Modified Wed Feb 3 03:31:24 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
some missing functions

Revision 2911 - Directory Listing
Modified Wed Feb 3 03:30:40 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Changed name of launcher and rotated figure correctly.


Revision 2910 - Directory Listing
Modified Wed Feb 3 03:22:31 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Added a libescriptreader.a target which does not depend on escript or finley
at runtime. This will be used for the VisIt plugin so is not built by default.


Revision 2907 - Directory Listing
Modified Wed Feb 3 01:39:15 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
needdirs replaced by mkDir from esys.escript

Revision 2906 - Directory Listing
Modified Tue Feb 2 05:26:03 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
some minor :-) fix.

Revision 2905 - Directory Listing
Modified Tue Feb 2 04:26:42 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
some missing files.

Revision 2904 - Directory Listing
Modified Tue Feb 2 04:21:52 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
more revision on cookbook: example 1 and 2 have been swapped.

Revision 2903 - Directory Listing
Modified Tue Feb 2 00:20:52 2010 UTC (7 years, 10 months ago) by lgao
Original Path: trunk
Switch to MKL 10.2.2.025 on service0.



Revision 2902 - Directory Listing
Modified Mon Feb 1 23:53:16 2010 UTC (7 years, 10 months ago) by lgao
Original Path: trunk
Switch to Parmetis 3.1.1 on service0.



Revision 2900 - Directory Listing
Modified Mon Feb 1 06:05:38 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Switch to Silo 4.7.2 on service0 (bug fix release).


Revision 2899 - Directory Listing
Modified Mon Feb 1 01:55:53 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Added missing declspec to FileSavers.


Revision 2898 - Directory Listing
Modified Mon Feb 1 01:23:46 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Reverted the move of system_dep.h since it didn't solve the problem nicely.
Created a wrapper class for the needed functionality instead.


Revision 2897 - Directory Listing
Modified Mon Feb 1 01:22:50 2010 UTC (7 years, 10 months ago) by lgao
Original Path: trunk
Fix the Parmetis problem related with Mantis issue 0000480. 
In case there is any node with no vertex, Parmetis will not
be used and a message will be printed. 




Revision 2896 - Directory Listing
Modified Sun Jan 31 22:17:22 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Added missing extern C for finley include.


Revision 2895 - Directory Listing
Modified Fri Jan 29 04:58:16 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Moved finley's system_dep.h file up to the C level to be able to export two
functions that are used by the dataexporter. Changed include paths and C++
style comments accordingly.


Revision 2893 - Directory Listing
Modified Fri Jan 29 03:41:33 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Link to esysUtils to be able to use escript exceptions.


Revision 2891 - Directory Listing
Modified Fri Jan 29 00:26:07 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Fix for ambiguous call to sqrt...


Revision 2890 - Directory Listing
Modified Fri Jan 29 00:22:39 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Oh, apparently a 'defect in the standard' and VC++ didn't like it. Hopefully,
this should fix it.


Revision 2888 - Directory Listing
Modified Fri Jan 29 00:07:00 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Looks like netcdf.hh doesn't exist on Windows so changed to netcdfcpp.h.


Revision 2887 - Directory Listing
Modified Thu Jan 28 05:49:09 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Fixed a compile issue with MPI.


Revision 2886 - Directory Listing
Modified Thu Jan 28 05:39:23 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
New version of saveVTK within dataexporter. Not pythonised yet since it needs
more testing and release 3.1 will not ship dataexporter.


Revision 2884 - Directory Listing
Modified Thu Jan 28 05:00:59 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Updated various nan checks to consider the windows _isnan

The default compiler flags have changed as well.
+ intel will now take -std=c99 instead of -ansi
+ gcc has -ansi removed which means it defaults to gnu99

We could have set gcc to -std=c99 as well but that gives a 
warning on g++ which gets converted into an error by our
pedantic warning.

Rationale:
We need something more than ansi to get proper nan handling.
- We currently don't have any code which does not comply with ansi
  but the nan checks don't work.

Impact:
If we want our code to still be able to compile on older compilers
(at reduced functionality) we need to be careful not to introduce other
c99-isms.
If we don't care, then it's time for some celebratory // comments.



Revision 2883 - Directory Listing
Modified Thu Jan 28 02:28:27 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Switch to gcc 4.4 on guineapig


Revision 2882 - Directory Listing
Modified Thu Jan 28 02:27:49 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Scons now allows to specify which C & C++ compiler to use via cc and cxx
variables. Fixes mantis # 485.


Revision 2881 - Directory Listing
Modified Thu Jan 28 02:03:15 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Don't panic.
Updating copyright stamps


Revision 2880 - Directory Listing
Modified Thu Jan 28 01:21:30 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Better resolution for Hex27 & Rec9 data in dataexporter (mantis #486).
Saved Silo data resolution is now equal to finley.SaveVTK generated data in
all cases.


Revision 2879 - Directory Listing
Modified Thu Jan 28 01:00:26 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Move definition of build_platform on t.poulet suggestion.
Redefine the IS_NAN macro to replace versions commented as
'This does not work'
If you are not compiling with a c99 compliant compiler you will not 
recognise nulls but this seems to be the best we can do right now 
without checking for explicit bit patterns.


Revision 2878 - Directory Listing
Modified Thu Jan 28 00:59:30 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
more work on cookbook review

Revision 2877 - Directory Listing
Modified Thu Jan 28 00:28:45 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Fixes to Silo writer: Multivars for tensors are now correct even with empty
ranks.


Revision 2875 - Directory Listing
Modified Wed Jan 27 04:09:24 2010 UTC (7 years, 10 months ago) by jfenwick
Original Path: trunk
Updated version string to something which won't keep changing


Revision 2873 - Directory Listing
Modified Wed Jan 27 01:09:33 2010 UTC (7 years, 10 months ago) by caltinay
Original Path: trunk
Fix for mantis #480 when parmetis is off.


Revision 2872 - Directory Listing
Modified Wed Jan 27 00:59:58 2010 UTC (7 years, 10 months ago) by artak
Original Path: trunk
/home/ changed to /Users/ for mac

Revision 2870 - Directory Listing
Modified Mon Jan 25 08:34:15 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
more review on the cookbook.

Revision 2869 - Directory Listing
Modified Mon Jan 25 05:11:28 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
back to the old version. The last checkin was a mistake.

Revision 2868 - Directory Listing
Modified Mon Jan 25 04:44:45 2010 UTC (7 years, 10 months ago) by artak
Original Path: trunk
Some fixes for 3.1 release. Notes about Snow Leopard is added and installing from ports removed.

Revision 2867 - Directory Listing
Modified Fri Jan 22 06:28:02 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
now option -i is used if no script is given

Revision 2866 - Directory Listing
Modified Fri Jan 22 05:38:56 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
small fix for the case n=1 under mpi

Revision 2865 - Directory Listing
Modified Fri Jan 22 03:19:32 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
launcher for MPI supports now -i option (see mantis 361)

Revision 2864 - Directory Listing
Modified Fri Jan 22 03:09:55 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
projector added to users guide

Revision 2863 - Directory Listing
Modified Thu Jan 21 07:18:37 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
fix for mantis 454

Revision 2862 - Directory Listing
Modified Thu Jan 21 04:45:39 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
more review in the cookbook

Revision 2861 - Directory Listing
Modified Wed Jan 20 02:47:42 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
some modification to the cookbook

Revision 2860 - Directory Listing
Modified Tue Jan 19 05:25:39 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
prints removed.

Revision 2859 - Directory Listing
Modified Tue Jan 19 05:21:50 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
a work around for gcc 4.4 added.

Revision 2858 - Directory Listing
Modified Tue Jan 19 01:07:52 2010 UTC (7 years, 10 months ago) by gross
Original Path: trunk
small fixes with the reduced solution for the transport problem

Revision 2857 - Directory Listing
Modified Mon Jan 18 07:44:42 2010 UTC (7 years, 11 months ago) by gross
Original Path: trunk
test for ApproximationOrder added and Transport type problem now choose reduced when necessary only.

Revision 2856 - Directory Listing
Modified Mon Jan 18 04:14:37 2010 UTC (7 years, 11 months ago) by gross
Original Path: trunk
FunctionSpaces provide now some information about their approximation order.

Revision 2855 - Directory Listing
Modified Mon Jan 18 03:39:29 2010 UTC (7 years, 11 months ago) by jfenwick
Original Path: trunk
Fixed


Revision 2854 - Directory Listing
Modified Mon Jan 18 01:54:04 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Fixed a compile error and removed unneeded member.


Revision 2853 - Directory Listing
Modified Mon Jan 18 01:46:05 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Do not attempt to read node file data if #nodes=0.


Revision 2852 - Directory Listing
Modified Mon Jan 18 00:22:23 2010 UTC (7 years, 11 months ago) by jfenwick
Original Path: trunk
Fix MPI issue in toString.
Fixes unit tet failure in myfistrscript.py


Revision 2851 - Directory Listing
Modified Fri Jan 15 07:37:47 2010 UTC (7 years, 11 months ago) by gross
Original Path: trunk
typos fixed.


Revision 2850 - Directory Listing
Modified Fri Jan 15 07:14:25 2010 UTC (7 years, 11 months ago) by gross
Original Path: trunk
the powerlaw is working again. tests are switched on again.

Revision 2849 - Directory Listing
Modified Fri Jan 15 03:45:52 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Oops...


Revision 2848 - Directory Listing
Modified Fri Jan 15 03:44:44 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Removed unneeded member and initialised some others in the constructor.


Revision 2847 - Directory Listing
Modified Fri Jan 15 03:35:05 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Improved error handling when using MPI and fixed Silo output when not all
ranks contribute to a data variable.


Revision 2846 - Directory Listing
Modified Fri Jan 15 03:16:08 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
removeGhostNodes is broken and unnecessary anyway so removed.


Revision 2845 - Directory Listing
Modified Fri Jan 15 03:10:42 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
escriptconvert passes MPI communicator to EscriptDataset now so files are
read/written in parallel.


Revision 2844 - Directory Listing
Modified Fri Jan 15 00:23:39 2010 UTC (7 years, 11 months ago) by jfenwick
Original Path: trunk
Fixed some options to deal with silo errors.


Revision 2843 - Directory Listing
Modified Thu Jan 14 05:51:28 2010 UTC (7 years, 11 months ago) by gross
Original Path: trunk
new compressible solver

Revision 2842 - Directory Listing
Modified Thu Jan 14 05:42:02 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Changed domain::dump() to write out NodeDistribution & DofDistribution even if
the current process has 0 nodes.


Revision 2841 - Directory Listing
Modified Thu Jan 14 01:02:56 2010 UTC (7 years, 11 months ago) by jfenwick
Original Path: trunk
Unit tests for 2838 and adding setTags variant which takes a string instead of a tag num.



Revision 2840 - Directory Listing
Modified Thu Jan 14 01:00:15 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Enabled Silo on guineapig


Revision 2839 - Directory Listing
Modified Wed Jan 13 23:34:49 2010 UTC (7 years, 11 months ago) by artak
Original Path: trunk
minor compiliation problem under MKL is fixed.

Revision 2838 - Directory Listing
Modified Wed Jan 13 06:01:03 2010 UTC (7 years, 11 months ago) by jfenwick
Original Path: trunk
Vector, Tensor, Tensor3, Tensor4 can now take a (nested) sequence for 
their initial value.



Revision 2837 - Directory Listing
Modified Wed Jan 13 01:28:23 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Added missing import statement.


Revision 2836 - Directory Listing
Modified Mon Jan 11 01:41:29 2010 UTC (7 years, 11 months ago) by artak
Original Path: trunk
minor adjustments

Revision 2835 - Directory Listing
Modified Mon Jan 11 01:23:52 2010 UTC (7 years, 11 months ago) by artak
Original Path: trunk
Default smoother set to Gauss-Seidel. This one more robust than jacobi, but jacobi is faster.

Revision 2834 - Directory Listing
Modified Thu Jan 7 06:06:56 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
Reduced elements are now handled separate from the main elements within the
data exporter. This simplifies usage considerably.


Revision 2833 - Directory Listing
Modified Thu Jan 7 05:44:46 2010 UTC (7 years, 11 months ago) by artak
Original Path: trunk
minor openmp fix

Revision 2832 - Directory Listing
Modified Thu Jan 7 05:16:50 2010 UTC (7 years, 11 months ago) by artak
Original Path: trunk
minor

Revision 2831 - Directory Listing
Modified Thu Jan 7 05:08:19 2010 UTC (7 years, 11 months ago) by artak
Original Path: trunk
Splitting can be read from file. This is useful for testing.

Revision 2830 - Directory Listing
Modified Thu Jan 7 04:49:55 2010 UTC (7 years, 11 months ago) by caltinay
Original Path: trunk
saveSilo now passes MPI communicator to data exporter.


Revision 2829 - Directory Listing
Modified Wed Jan 6 02:51:31 2010 UTC (7 years, 11 months ago) by ahallam
Original Path: trunk
minor updates to cookbook

Revision 2828 - Directory Listing
Modified Tue Dec 22 01:24:40 2009 UTC (7 years, 11 months ago) by artak
Original Path: trunk
Smoother for AMG now can be selected from python. Now only Jacobi and Gauss-Seidel are available as smoothers.

Revision 2827 - Directory Listing
Modified Fri Dec 18 03:41:09 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
There is now a mechanism to pass a C function into escript and invoke it on each datapoint with:

applyBinaryCFunction

Warning in order to use this function your escript must be compiled with 
scons ...  iknowwhatimdoing=yes

---------------------
Because this code relies on casts that the C standard does not allow some code has been moved into Dodgy{.h .cpp}

Scons files have been modified to treat these files specially [Warnings are not errors for these files.]

Revision 2826 - Directory Listing
Modified Fri Dec 18 01:33:35 2009 UTC (8 years ago) by artak
Original Path: trunk
MINRES anf TFQMR add initioal guess. Tolerance for both solvers changed. However tolerance computaion needs to be more involved than it is now to avoid unnecessary very small tolerances.

Revision 2825 - Directory Listing
Modified Thu Dec 17 00:10:06 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
More fixes to resolveGroup


Revision 2824 - Directory Listing
Modified Wed Dec 16 01:22:56 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
ResolveGroup fixed so it actually resolves groups.
Children, when you iterate backwards remember its i>=0 not i>0


Revision 2822 - Directory Listing
Modified Mon Dec 14 03:10:16 2009 UTC (8 years ago) by caltinay
Original Path: trunk
dataexporter: Ensure that NetCDF files created using N ranks are only loaded
when mpi size equals N or 1.


Revision 2821 - Directory Listing
Modified Fri Dec 11 07:00:35 2009 UTC (8 years ago) by caltinay
Original Path: trunk
EscriptDataset takes an optional communicator now.


Revision 2820 - Directory Listing
Modified Thu Dec 10 05:03:11 2009 UTC (8 years ago) by artak
Original Path: trunk
Paso Testing tools now can select coarseing.The builld_PasoTests target is also added to scons. 

Revision 2819 - Directory Listing
Modified Thu Dec 10 04:12:35 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Added include to make badger happy. Hope everyone's happy now.


Revision 2818 - Directory Listing
Modified Thu Dec 10 04:10:16 2009 UTC (8 years ago) by caltinay
Original Path: trunk
dataexporter links against escript now to make the Mac happy.


Revision 2817 - Directory Listing
Modified Thu Dec 10 02:12:33 2009 UTC (8 years ago) by artak
Original Path: trunk
test is added for selecting standard coarsening.

Revision 2816 - Directory Listing
Modified Thu Dec 10 02:09:43 2009 UTC (8 years ago) by artak
Original Path: trunk
Standard coarsening is added to options list.

Revision 2815 - Directory Listing
Modified Tue Dec 8 08:15:19 2009 UTC (8 years ago) by gross
Original Path: trunk
this fixes a problem of element distribution attribute for lines

Revision 2814 - Directory Listing
Modified Tue Dec 8 01:50:29 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Removed minor code duplication.


Revision 2813 - Directory Listing
Modified Tue Dec 8 00:30:13 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Added missing include.


Revision 2812 - Directory Listing
Modified Tue Dec 8 00:12:07 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Implemented saveSilo within a new dataexporter module. If Silo is not available
at compile time the function throws. Ultimately, saveVTK will be moved here as
well.


Revision 2811 - Directory Listing
Modified Mon Dec 7 05:57:16 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Fixed compilation when silo is not used.


Revision 2810 - Directory Listing
Modified Mon Dec 7 04:13:49 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Reincarnation of the escriptreader as a more flexible escriptexport library:
 - can be initialised with instances of escript::Data and Finley_Mesh
 - is now MPI aware at the EscriptDataset level including Silo writer
 - now uses boost shared pointers
The lib is currently only used by the escriptconvert tool but this is going to
change...


Revision 2809 - Directory Listing
Modified Mon Dec 7 03:39:37 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
TestDomain now divides the total number of samples between ranks rather 
than putting all samples on all ranks.


Revision 2808 - Directory Listing
Modified Mon Dec 7 00:26:45 2009 UTC (8 years ago) by artak
Original Path: trunk
default coarseneing is Ruge-Stueben.

Revision 2807 - Directory Listing
Modified Mon Dec 7 00:02:55 2009 UTC (8 years ago) by artak
Original Path: trunk
Post and pre smoothing parameters are added for AMLI. Little bit reengineering according to Axelson's original AMLI paper.

Revision 2806 - Directory Listing
Modified Fri Dec 4 06:46:13 2009 UTC (8 years ago) by caltinay
Original Path: trunk
bin/escript:
 - bail out early if buildvars is not around
 - quote variables to avoid syntax errors
 - some work towards POSIX compliance (s/==/=/ in string comparisons)
 - escript -V was still spitting out 'pre2.0' -> changed to pre4.0
 - fixed minor typos


Revision 2805 - Directory Listing
Modified Fri Dec 4 05:21:31 2009 UTC (8 years ago) by artak
Original Path: trunk
minor

Revision 2804 - Directory Listing
Modified Fri Dec 4 02:06:51 2009 UTC (8 years ago) by artak
Original Path: trunk
Some memory and code optimizations in updateWeights method.

Revision 2803 - Directory Listing
Modified Thu Dec 3 05:35:20 2009 UTC (8 years ago) by artak
Original Path: trunk
Parameters are added for post and pre smoothing. Now user can choose number of pre and post smoothing steps in AMG (e.g. setNumPreSweeps(5)). 

Revision 2802 - Directory Listing
Modified Thu Dec 3 01:51:55 2009 UTC (8 years ago) by artak
Original Path: trunk
Aggressive coarsening is implemented. Removes more elements but adds more iteration steps.

Revision 2801 - Directory Listing
Modified Thu Dec 3 01:45:48 2009 UTC (8 years ago) by ahallam
Original Path: trunk
Final updates to first 3 chapters of cookbook before moving on to linear elastic wave equation examples.

Revision 2800 - Directory Listing
Modified Thu Dec 3 01:45:12 2009 UTC (8 years ago) by ahallam
Original Path: trunk
Getting rid of unneeded directories

Revision 2799 - Directory Listing
Modified Thu Dec 3 01:35:08 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
resolveGroup function added to python.
Unit tests for resolveGroup, resolve and delay.

Revision 2798 - Directory Listing
Modified Thu Dec 3 01:02:47 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Use system NetCDF on guineapig.


Revision 2797 - Directory Listing
Modified Wed Dec 2 23:30:21 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Changed NetCDF include path - this should enable netcdf on guineapig.


Revision 2796 - Directory Listing
Modified Wed Dec 2 05:02:43 2009 UTC (8 years ago) by caltinay
Original Path: trunk
null-commit to trigger buildbot


Revision 2795 - Directory Listing
Modified Wed Dec 2 02:39:23 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Removed node limit on lazy expressions.
The parameter LAZY_STR_FMT {0,1,2}  controls how lazy expressions are printed.
0 gives default output
1 gives a tree form.
2 just prints depth

Revision 2794 - Directory Listing
Modified Wed Dec 2 00:43:17 2009 UTC (8 years ago) by gross
Original Path: trunk
returning to the older version.

Revision 2793 - Directory Listing
Modified Tue Dec 1 06:10:10 2009 UTC (8 years ago) by gross
Original Path: trunk
some new util functions

Revision 2792 - Directory Listing
Modified Tue Dec 1 05:02:18 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Oops.
matrixInverse now checks MPI to see if any other ranks raised exceptions.

Revision 2791 - Directory Listing
Modified Tue Dec 1 03:36:36 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Added expression depth to toString for LazyData.


Revision 2790 - Directory Listing
Modified Sun Nov 29 23:57:45 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Fix scons file for unit tests.


Revision 2789 - Directory Listing
Modified Fri Nov 27 05:40:25 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Removed unused variable from OpenMP block.
Fixes compilation error with gcc 4.3.


Revision 2788 - Directory Listing
Modified Fri Nov 27 05:23:14 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Go back to version 10


Revision 2787 - Directory Listing
Modified Fri Nov 27 05:03:09 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Worked around icc11 problem in table interpolate.
Best guess is that a stackframe was getting mauled somehow.



Revision 2786 - Directory Listing
Modified Fri Nov 27 01:07:28 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Fixed a little typo.


Revision 2785 - Directory Listing
Modified Thu Nov 26 05:17:40 2009 UTC (8 years ago) by lgao
Original Path: trunk
Minor fix for unused variables



Revision 2784 - Directory Listing
Modified Thu Nov 26 05:09:14 2009 UTC (8 years ago) by artak
Original Path: trunk
More performance tunning. Sparsity check is added. If Coarse level matrix is denser than 1% then stop.

Revision 2783 - Directory Listing
Modified Thu Nov 26 05:07:33 2009 UTC (8 years ago) by lgao
Original Path: trunk
process C_TensorBinaryOperation at the level of a whole sample rather than 
each datapoint when an Expanded data is operating with a Constant data. This
could improve the efficiency of the non-lazy version escipt. 



Revision 2782 - Directory Listing
Modified Thu Nov 26 04:42:29 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Added missing var declaration.


Revision 2781 - Directory Listing
Modified Thu Nov 26 04:12:11 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Some additional info from Thomas

Revision 2780 - Directory Listing
Modified Thu Nov 26 03:54:24 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Put the windows instructions back in.
Put more detail in the MPI hints.

Revision 2779 - Directory Listing
Modified Thu Nov 26 03:51:15 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Fixed more instances of garbage=cstring+integer errors (d'oh!)


Revision 2778 - Directory Listing
Modified Thu Nov 26 01:50:30 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Fixed unintended pointer arithmetic with c-strings in MeshAdapter::dump() and
shortened error messages while being at it.


Revision 2777 - Directory Listing
Modified Thu Nov 26 01:06:00 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Added the LAZY_STACK_PROF #define for Lazy.
If enabled lazy will print the (roughly) maximum stack used by any openmp 
thread over the course of this session.


Revision 2776 - Directory Listing
Modified Wed Nov 25 23:41:16 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Switching tests which read gmsh to not run under MPI


Revision 2775 - Directory Listing
Modified Wed Nov 25 05:01:43 2009 UTC (8 years ago) by ahallam
Original Path: trunk
minor updates to cookbook; new python syntax highlighting

Revision 2774 - Directory Listing
Modified Wed Nov 25 04:24:03 2009 UTC (8 years ago) by artak
Original Path: trunk
#ifndef changed to #ifdef in makeNaN

Revision 2773 - Directory Listing
Modified Wed Nov 25 04:02:01 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Hadn't realised isnan was a macro.
Checking for it rather than FP_NAN


Revision 2772 - Directory Listing
Modified Wed Nov 25 02:02:50 2009 UTC (8 years ago) by ahallam
Original Path: trunk
Fixed auto build error for heatrefraction_mesher002.py

Added clear figure line for run_heatrefraction.py process.

Revision 2771 - Directory Listing
Modified Wed Nov 25 01:38:49 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Fix


Revision 2770 - Directory Listing
Modified Wed Nov 25 01:24:51 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Removed buffer implementation of Lazy.
Removed supporting Alloc/Free Sample buffer calls.

Revision 2769 - Directory Listing
Modified Tue Nov 24 00:36:22 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Unit tests for NaN handling

Revision 2768 - Directory Listing
Modified Mon Nov 23 23:56:14 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
Dodge problem in NoPDE class


Revision 2767 - Directory Listing
Modified Mon Nov 23 06:00:37 2009 UTC (8 years ago) by artak
Original Path: trunk
More openmp calls are added,escpecialy in arg_max method.

Revision 2766 - Directory Listing
Modified Mon Nov 23 05:10:53 2009 UTC (8 years ago) by jfenwick
Original Path: trunk
inf, sup and Lsup now correctly handle +-infinity.
They also will return NaN if any part of their input is NaN.

This will break unit tests since it exposes the hidden bug (#447 in mantis)

This code relies on the ability to test for NaNs.
To do this it makes use of macros and functions from C99.
If you do not have a C99 compiler, then you will probably get the old behaviour.
That is, you won't know when you have NaNs.


Also did minor tweak to saveDataCSV doco.

Revision 2765 - Directory Listing
Modified Fri Nov 20 01:49:19 2009 UTC (8 years ago) by artak
Original Path: trunk
First steps toward efficiency. Coarsening process is improved. Some profiling tools are added.

Revision 2764 - Directory Listing
Modified Thu Nov 19 23:48:05 2009 UTC (8 years ago) by artak
Original Path: trunk
Some openMP calls are removed.

Revision 2763 - Directory Listing
Modified Thu Nov 19 06:28:03 2009 UTC (8 years ago) by lgao
Original Path: trunk
Minor fix to my previous commit.




Revision 2762 - Directory Listing
Modified Thu Nov 19 06:24:44 2009 UTC (8 years ago) by lgao
Original Path: trunk
fix the compilation problem I introduced for Non-MPI build due
to my last commit for Data::toString().



Revision 2761 - Directory Listing
Modified Thu Nov 19 06:11:07 2009 UTC (8 years ago) by artak
Original Path: trunk
AMLI preconditioner (previously called  AMG)

Revision 2760 - Directory Listing
Modified Thu Nov 19 05:22:45 2009 UTC (8 years ago) by artak
Original Path: trunk
The first version of the new AMG preconditioner. It need a lot of polishing for efficiency. Old AMG now called AMLI preconditioner.

Revision 2759 - Directory Listing
Modified Thu Nov 19 05:19:47 2009 UTC (8 years ago) by artak
Original Path: trunk
methods needed for the new AMG preconditioner

Revision 2758 - Directory Listing
Modified Thu Nov 19 04:21:55 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Added missing imports. all_tests still fails though due to other problems.


Revision 2757 - Directory Listing
Modified Thu Nov 19 01:04:57 2009 UTC (8 years ago) by lgao
Original Path: trunk
Solve the print statement problem for MPI program (matis issue 465). 



Revision 2756 - Directory Listing
Modified Thu Nov 19 00:40:02 2009 UTC (8 years ago) by gross
Original Path: trunk
missing file added.

Revision 2755 - Directory Listing
Modified Wed Nov 18 23:19:32 2009 UTC (8 years ago) by caltinay
Original Path: trunk
Reverted changes to Mesh_read from last commit. They break compilation with
MPI and seem unintentional.


Revision 2754 - Directory Listing
Modified Wed Nov 18 07:44:26 2009 UTC (8 years, 1 month ago) by gross
Original Path: trunk
tests for macro elements in saveVTK added.

Revision 2753 - Directory Listing
Modified Wed Nov 18 06:06:50 2009 UTC (8 years, 1 month ago) by lgao
Original Path: trunk
fix bugs in minGlobalDataPoint() and maxGlobalDataPoint()



Revision 2752 - Directory Listing
Modified Wed Nov 18 06:01:18 2009 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk
Fixed compilation error in mesh reader when using MPI.


Revision 2751 - Directory Listing
Modified Wed Nov 18 00:30:47 2009 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk
Removed stray forward declaration.


Revision 2750 - Directory Listing
Modified Tue Nov 17 23:39:20 2009 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk
Fixed some compilation errors with OpenMP introduced in last commit.


Revision 2749 - Directory Listing
Modified Tue Nov 17 07:34:16 2009 UTC (8 years, 1 month ago) by gross
Original Path: trunk
missing files.

Revision 2748 - Directory Listing
Modified Tue Nov 17 07:32:59 2009 UTC (8 years, 1 month ago) by gross
Original Path: trunk
Macro elements are implemented now. VTK writer for macro elements still needs testing.

Revision 2747 - Directory Listing
Modified Tue Nov 17 05:19:59 2009 UTC (8 years, 1 month ago) by lgao
Original Path: trunk
Minor rivision to minGlobalDataPoint()



Revision 2746 - Directory Listing
Modified Tue Nov 17 05:13:51 2009 UTC (8 years, 1 month ago) by lgao
Original Path: trunk
Fix the error in minGlobalDataPoint() and maxGlobalDataPoint() due to 
the fact that the number of samples on one MPI rank could be 0. Therefore,
not every MPI rank has valid min/max data point. 



Revision 2745 - Directory Listing
Modified Tue Nov 17 04:23:02 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
Added getInfLocator and getSupLocator to pdetools.
This means if you want to use them, you will need to import them.
These methods return a locator to a point with the smallest/largest value.

Added resolve() and delay() to utils.
Now you can do things like:

d=delay(v)
..
..
z=resolve(d+1)



Revision 2744 - Directory Listing
Modified Mon Nov 16 23:45:55 2009 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk
SaveVTK: exponent could have 3 digits so reserve enough space.


Revision 2743 - Directory Listing
Modified Mon Nov 16 05:28:47 2009 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk
Corrected memory allocation size for tensors in saveVTK. Fixes issue 460.


Revision 2742 - Directory Listing
Modified Thu Nov 12 06:03:37 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
Merging changes from the lapack branch.

The inverse() operation has been moved into c++. [No lazy support for this operation yet.]
Optional Lapack support has been added for matrices larger than 3x3. 
service0 is set to use mkl_lapack.




Revision 2738 - Directory Listing
Modified Fri Nov 6 05:33:13 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
Taipan and DataVector use size_type (currently long) internally to talk 
about sizes.
[A lot more work needs to be done on this].
Exceptions now give nicer messages and output the problematic numbers.

Some minor doco errors fixed.

escript.util.mkDir
Now checks to see if the pathname already exists as a non-directory.
On suggestion from slanger it now calls makedirs.




Revision 2737 - Directory Listing
Modified Tue Nov 3 00:44:00 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
icc will now record compiler options in libraries.
escriptParams now has a pretty printer option for lazy expressions.

Revision 2736 - Directory Listing
Modified Mon Nov 2 04:15:27 2009 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk
Fixed a couple of typos.


Revision 2735 - Directory Listing
Modified Mon Nov 2 02:03:24 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
Fixed bug where calling minval() reintroduced laziness after it had been removed.


Revision 2734 - Directory Listing
Modified Fri Oct 30 05:39:48 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
Fixed bug in lazy maxval and minval


Revision 2733 - Directory Listing
Modified Mon Oct 26 02:05:11 2009 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk
escriptreader: added debug flag to configure.ac


Revision 2732 - Directory Listing
Modified Mon Oct 26 01:11:31 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
Fixed segfault in debug+omp tests.
Cause:
  variable used in parallel section not declared shared.



Revision 2731 - Directory Listing
Modified Thu Oct 22 04:17:21 2009 UTC (8 years, 1 month ago) by trankine
Original Path: trunk
* Added xe.ivec.org options file as reminder for David Schibeci [dschibeci@ccg.murdoch.edu.au]

Revision 2730 - Directory Listing
Modified Thu Oct 22 01:50:27 2009 UTC (8 years, 1 month ago) by artak
Original Path: trunk
order member variable added to the tests.

Revision 2729 - Directory Listing
Modified Thu Oct 22 01:45:28 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
UMFPack and MPI added to guineapig options.
Defaults for omp and mpi removed from SConstruct.


Revision 2728 - Directory Listing
Modified Thu Oct 22 00:13:10 2009 UTC (8 years, 1 month ago) by artak
Original Path: trunk
minor

Revision 2727 - Directory Listing
Modified Wed Oct 21 23:56:23 2009 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk
Added guineapig options


Revision 2726 - Directory Listing
Modified Wed Oct 21 23:50:05 2009 UTC (8 years, 1 month ago) by artak
Original Path: trunk
New diagonal dominancy based algorithm is added. The coarseneng strategy is changed.

Revision 2725 - Directory Listing
Modified Wed Oct 21 23:44:06 2009 UTC (8 years, 1 month ago) by artak
Original Path: trunk
AMG unit tests are disabled for 2-nd order elements.

Revision 2724 - Directory Listing
Modified Sun Oct 18 23:50:18 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
And again


Revision 2723 - Directory Listing
Modified Sun Oct 18 23:44:37 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Use correct types for MPI op parameters


Revision 2722 - Directory Listing
Modified Fri Oct 16 06:45:01 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
First steps towards macro elements. at the monent a  macro element is identical to its counterpart of 2nd order.





Revision 2721 - Directory Listing
Modified Fri Oct 16 05:40:12 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
minval and maxval are now lazy operations (they weren't before).
Whether or not Lsup, sup and inf resolve their arguments before computing answers is controlled by the escriptParam 'RESOLVE_COLLECTIVE'.
Note: integrate() still forces a resolve.

Added some unit tests for operations which weren't tested before.
Added deepcopy implementations for lazy operations which got missed somehow.

Revision 2720 - Directory Listing
Modified Wed Oct 14 23:43:21 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
missing modules added

Revision 2719 - Directory Listing
Modified Wed Oct 14 06:38:03 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
a new Stokes solver added

Revision 2718 - Directory Listing
Modified Wed Oct 14 04:03:27 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
syntax errors fixed.

Revision 2717 - Directory Listing
Modified Wed Oct 14 03:41:20 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
implements https://mantis.esscc.uq.edu.au/view.php?id=426

Revision 2716 - Directory Listing
Modified Tue Oct 13 04:58:08 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Small mod - process C_Tensor??Operation on ExpandedData as a whole 
sample rather than a datapoint at a time.
This is just to bring Non-Lazy into line with Lazy.


Revision 2715 - Directory Listing
Modified Sun Oct 11 23:29:56 2009 UTC (8 years, 2 months ago) by lgao
Original Path: trunk
change back to use Intel MPI (avoid the MPT+MKL problem).



Revision 2714 - Directory Listing
Modified Wed Oct 7 23:29:19 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
typo in check fixed.

Revision 2713 - Directory Listing
Modified Wed Oct 7 00:35:06 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Fixes for windows.
Copied from Thomas Poulet


Revision 2712 - Directory Listing
Modified Wed Oct 7 00:22:43 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
MKL made default direct solver for AMG

Revision 2711 - Directory Listing
Modified Tue Oct 6 04:43:41 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
Little restructuring for solving memory bug in MKL_free process and making sure LDU factorzation done only once.

Revision 2710 - Directory Listing
Modified Mon Oct 5 23:15:04 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Change to error output requested by Thomas Poulet


Revision 2709 - Directory Listing
Modified Mon Oct 5 06:11:58 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
Paso_MKL1 put back again

Revision 2708 - Directory Listing
Modified Mon Oct 5 05:59:08 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
The n_F==n condition with potentially uninitialized value is fixed.

Revision 2707 - Directory Listing
Modified Fri Oct 2 05:02:59 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
some unnecessary lines are removed

Revision 2706 - Directory Listing
Modified Fri Oct 2 02:15:04 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Perhaps this will stop the cookbook from hating me.



Revision 2705 - Directory Listing
Modified Thu Oct 1 23:21:10 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
Some openMP codes in AMG systems are removed for testing.

Revision 2704 - Directory Listing
Modified Thu Oct 1 05:38:33 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
some clarity in the notations REMOVED changes IN_SET

Revision 2703 - Directory Listing
Modified Thu Oct 1 01:22:36 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Added calls to MPI_Abort to the pythonMPI wrappers.
Now if an uncaught exception is raised on any of the nodes, the whole world should be brought down. I've tested this on a barrier and it works.
One consequence of this is that you should not call sys.exit(2) but we don't recommend using sys.exit anyway.




Revision 2702 - Directory Listing
Modified Wed Sep 30 23:54:17 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
UMFPACK is enabled for savanna

Revision 2701 - Directory Listing
Modified Wed Sep 30 23:21:08 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
MKL test lines are removed 

Revision 2700 - Directory Listing
Modified Wed Sep 30 08:28:55 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
pycad test fixed.

Revision 2699 - Directory Listing
Modified Wed Sep 30 05:43:20 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
Direct solver switched to UMFPACK, till problem with MKL solved. When all unknows are eliminated then we switch to Jacobi preconditiner.

Revision 2698 - Directory Listing
Modified Wed Sep 30 01:46:31 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Removing extension from some image filenames


Revision 2697 - Directory Listing
Modified Wed Sep 30 01:29:22 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Trying to get cookbook scripts passing.
Split cblib in two to avoid importing pylab in scripts which
don't otheriwse need it.



Revision 2696 - Directory Listing
Modified Wed Sep 30 00:36:05 2009 UTC (8 years, 2 months ago) by lgao
Original Path: trunk
change service0_options.py to use MPT 1.24



Revision 2695 - Directory Listing
Modified Tue Sep 29 06:29:12 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
pycad passes on more infromation from gmsh now.

Revision 2694 - Directory Listing
Modified Tue Sep 29 06:00:44 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
some hint on how to access gmsh error messages added.

Revision 2693 - Directory Listing
Modified Tue Sep 29 05:47:45 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
sorry python Indentation Error, fixed 

Revision 2692 - Directory Listing
Modified Tue Sep 29 05:35:31 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
minor typo

Revision 2691 - Directory Listing
Modified Tue Sep 29 05:30:27 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
Projector class had getSolverOptions(), but was returning null, so changed to return correct solver options.

Revision 2690 - Directory Listing
Modified Tue Sep 29 05:23:41 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
some description on gmsh reader added.

Revision 2689 - Directory Listing
Modified Tue Sep 29 05:22:51 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
getSolverOptionsDiv was returning Pressure options instead of Div equation options

Revision 2688 - Directory Listing
Modified Tue Sep 29 05:19:43 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
changes to default threshold values

Revision 2687 - Directory Listing
Modified Tue Sep 29 04:23:10 2009 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk
libescriptreader: fixed a path problem when using autotools to build


Revision 2686 - Directory Listing
Modified Tue Sep 29 03:39:36 2009 UTC (8 years, 2 months ago) by artak
Original Path: trunk
 changes the default thresold, bug fixes in RS coupling and extra checks added in Solver 

Revision 2685 - Directory Listing
Modified Tue Sep 29 02:22:30 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
these files are not needed

Revision 2684 - Directory Listing
Modified Tue Sep 29 02:21:11 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
added missing file

Revision 2683 - Directory Listing
Modified Tue Sep 29 02:20:22 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
documentation for pycad added.

Revision 2681 - Directory Listing
Modified Thu Sep 24 03:04:04 2009 UTC (8 years, 2 months ago) by ahallam
Original Path: trunk
proof reading and review of cookbook, minor changes only + updated depth profiles to cb from last week

Revision 2680 - Directory Listing
Modified Thu Sep 24 00:40:07 2009 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk
Updated service0 options file to use Silo 4.7 on Savanna


Revision 2679 - Directory Listing
Modified Thu Sep 24 00:36:57 2009 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk
Updated shake75 options file


Revision 2678 - Directory Listing
Modified Wed Sep 23 23:54:16 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Some fixes for compile errors for gcc_testing_version


Revision 2677 - Directory Listing
Modified Tue Sep 22 00:48:00 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Removed stuff in user guide about needing to make table larger to allow
boundary points.
The table interpolation is now OMP parallel.



Revision 2676 - Directory Listing
Modified Mon Sep 21 08:06:37 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
FaultSystem: MaxValue and MinValue return now a Locator. This makes it possible to extract values of from other data objects at the location of the min/max value

Revision 2675 - Directory Listing
Modified Mon Sep 21 02:32:17 2009 UTC (8 years, 2 months ago) by gross
Original Path: trunk
getMinValue added to the fault system.

Revision 2674 - Directory Listing
Modified Mon Sep 21 00:37:18 2009 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk
Base matplotlib tests on version number.
This will stop the Mac trying to run some tests it can't execute.


Revision 2673 - Directory Listing
Modified Fri Sep 18 05:33:10 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Some fixes to interpolation


Revision 2672 - Directory Listing
Modified Fri Sep 18 01:46:47 2009 UTC (8 years, 3 months ago) by ahallam
Original Path: trunk
Heat refraction updates : alex's downhole profiles

Revision 2671 - Directory Listing
Modified Thu Sep 17 06:37:22 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
missing offset added in interpolation table

Revision 2670 - Directory Listing
Modified Thu Sep 17 06:17:57 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
Bug that made MPI tests to fail is fixed.

Revision 2669 - Directory Listing
Modified Thu Sep 17 06:01:30 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Added a bunch of valgrind supressions. Hopefully this will make it more useful.

Asking for an offset on a DataConstant containing no samples no longer fails under debug builds.
I've disabled the sample and dataPoint bounds checks since they don't make sense on DataConstant.

Revision 2668 - Directory Listing
Modified Thu Sep 17 04:04:09 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
some clarification in the table interpolation

Revision 2667 - Directory Listing
Modified Thu Sep 17 01:49:11 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Renamed the main cookbook tex file to match our convention.
Replaced doc/cookbook/figures/heatrefraction002contqu.pdf with
a version which is actually pdf. However it needs to be regnerated since
it it sideways.

The examples have had their copyright notices fixed (dates were too early).
sb2.py has been removed since it uses pyvisi.

scons will now build the cookbook as parts of a docs build.
Also in reposnse to :
scons cookbook_pdf



Revision 2666 - Directory Listing
Modified Thu Sep 17 00:10:00 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
OpenMP bug fixed and more openMP code added for cutting blocks.

Revision 2665 - Directory Listing
Modified Wed Sep 16 02:56:02 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
clarification in the fault depth vector

Revision 2664 - Directory Listing
Modified Wed Sep 16 01:06:50 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
Extra check is added for AMG levels. If coursening proccess does not eliminate at least 30% from the fine Matrix then it does not make sense to continue to the next level.

Revision 2663 - Directory Listing
Modified Tue Sep 15 06:04:44 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
finally there is a 3D version for the fault system class

Revision 2662 - Directory Listing
Modified Tue Sep 15 03:05:23 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
Migrating to block_sizes greather than 3 made easy.

Revision 2661 - Directory Listing
Modified Fri Sep 11 00:59:59 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
Finially unit tests for AMG preconditioner for single equations as well as for systems. Minor bug in AMG is also fixed

Revision 2660 - Directory Listing
Modified Thu Sep 10 04:26:39 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
minor

Revision 2659 - Directory Listing
Modified Thu Sep 10 03:54:50 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
first attempt of AMG on blocks

Revision 2658 - Directory Listing
Modified Thu Sep 10 02:58:44 2009 UTC (8 years, 3 months ago) by ahallam
Original Path: trunk
Updates to all files scripts to support MPI testing proceedure. Updates to cookbook, new section on functino spaces/domains (needs work). Finalising first 3 chapters for editing.

Revision 2657 - Directory Listing
Modified Thu Sep 10 00:58:19 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Fixed some spelling errors.
Added text about parallel vis.


Revision 2656 - Directory Listing
Modified Wed Sep 9 23:47:10 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Fixing doco compile bug


Revision 2655 - Directory Listing
Modified Tue Sep 8 23:31:32 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
a comma is missing.

Revision 2654 - Directory Listing
Modified Tue Sep 8 07:11:12 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
2D fault systems are now working. 3D still needs work.

Revision 2653 - Directory Listing
Modified Tue Sep 8 04:26:30 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Fix bug in maxGlobalDataPoint and minGlobalDataPoint.
They now give the correct answers and the datapoint ids returned are globally
correct.

Removed some #defines from before COW
Removed hasNoSamples() - I don't trust myself to use that properly let alone anybody else.



Revision 2652 - Directory Listing
Modified Mon Sep 7 05:04:45 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
Paso_Pattern_coup changed to Paso_Pattern_YS for making clear that it refers to YAIR-SHAPIRA coarsenenig.

Revision 2651 - Directory Listing
Modified Mon Sep 7 03:39:45 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Fixed latex compile error.
Fixed some overful hboxes


Revision 2650 - Directory Listing
Modified Mon Sep 7 03:38:50 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Reducing the concentration of stupid.


Revision 2649 - Directory Listing
Modified Mon Sep 7 03:33:55 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
Some small fixes in FaultSystem

Revision 2648 - Directory Listing
Modified Mon Sep 7 00:06:15 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
ecording some changes related to Anthony's cookbook.
These tests still do not run.

test_heatref.py is the current problem.
Current problems include:
undefined symbols
a dependence on X somehow.

I've already addressed the matplotlib X thing somewhere else.
Find and apply.



Revision 2647 - Directory Listing
Modified Fri Sep 4 05:25:25 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
fault system add. There is still an example for the usage missing.

Revision 2646 - Directory Listing
Modified Fri Sep 4 00:13:00 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Unit tests and user doco for interpolation and saveCSV

Revision 2645 - Directory Listing
Modified Thu Sep 3 02:20:33 2009 UTC (8 years, 3 months ago) by ahallam
Original Path: trunk
More revisions to cookbook, fixed cblib.py for Scons, new figures.

Revision 2644 - Directory Listing
Modified Wed Sep 2 04:14:03 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Add unit tests for saveDataCSV which should be ready for use now.
Keyword args are now output in sorted order.

Removed some unneeded functions.

Revision 2643 - Directory Listing
Modified Wed Sep 2 00:10:00 2009 UTC (8 years, 3 months ago) by artak
Original Path: trunk
Saving sparse matrix used before for debuging is removed

Revision 2642 - Directory Listing
Modified Tue Sep 1 04:15:50 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
pre cleanup

Revision 2641 - Directory Listing
Modified Mon Aug 31 07:41:49 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Fixed some of my stupids related to MPI compile errors.


Revision 2640 - Directory Listing
Modified Mon Aug 31 06:22:10 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Adding getMPIComm


Revision 2637 - Directory Listing
Modified Fri Aug 28 04:12:24 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
saveDataCSV looks good but does not do MPI yet.
Also not unit tested.


Revision 2636 - Directory Listing
Modified Thu Aug 27 05:26:42 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Disabling cookbook example checks until we can fix them.


Revision 2635 - Directory Listing
Modified Thu Aug 27 04:54:41 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
A bunch of changes related to saveDataCSV.
[Not completed or unit tested yet]

Added saveDataCSV to util.py
AbstractDomain (and MeshAdapter) have a commonFunctionSpace method to 
take a group of FunctionSpaces and return something they can all be interpolated to.

Added pointToStream() in DataTypes to help print points.

added actsConstant() to data - required because DataConstant doesn't store samples the same way other Data do.

Revision 2634 - Directory Listing
Modified Thu Aug 27 04:03:32 2009 UTC (8 years, 3 months ago) by ahallam
Original Path: trunk
Updates to cookbook. Updates to scripts. Updates to figures. Working examples added to SCons. Data folder structure included minus data. More folder rejigging.

Revision 2633 - Directory Listing
Modified Wed Aug 26 22:21:52 2009 UTC (8 years, 3 months ago) by ahallam
Original Path: trunk
Sorry second regigging

Revision 2632 - Directory Listing
Modified Wed Aug 26 22:18:19 2009 UTC (8 years, 3 months ago) by ahallam
Original Path: trunk
Regigger of cookbook directory structure. Examlples->examples/cookbook TEXT->doc/cookbook Figures-> doc/cookbook/figures

Revision 2629 - Directory Listing
Modified Tue Aug 25 06:39:26 2009 UTC (8 years, 3 months ago) by trankine
Original Path: trunk
Changes to work on Windows with boost 1.39.0. Using command separator &. Note: there are still 2 CheckFunc that fail (but can be bypassed as the rest of the build works). 

Revision 2628 - Directory Listing
Modified Tue Aug 25 03:50:00 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Fixed linkage on getTestDomainFunctionSpace.

added Data.interpolateTable to perform 2D interpolation.
It needs better unit tests though.

Revision 2627 - Directory Listing
Modified Mon Aug 24 01:57:34 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
some bugs in pycad fixed.


Revision 2626 - Directory Listing
Modified Mon Aug 24 00:48:31 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Making arg0 and arg params in C_GeneralTensorProduct non-optional.
[The using the default args caused an exception.]


Revision 2625 - Directory Listing
Modified Fri Aug 21 06:30:25 2009 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk
Merging changes from new doco branch.
All docstrings are now in reStructured text.
A few email addresses have been fixes as well.

Revision 2620 - Directory Listing
Modified Thu Aug 20 06:24:00 2009 UTC (8 years, 3 months ago) by gross
Original Path: trunk
some small additions to pycad to make life a bit easier.

Revision 2608 - Directory Listing
Modified Tue Aug 18 01:25:18 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Updating Lutz' email


Revision 2607 - Directory Listing
Modified Tue Aug 18 01:02:56 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Added getMPIWorldSum function to the esys.escript module.
This function takes an integer from each member of the MPIWorld.
This will hopefully address mantis issue 359

Added unit tests for most of the c++ free functions in the module.




Revision 2606 - Directory Listing
Modified Thu Aug 13 04:32:23 2009 UTC (8 years, 4 months ago) by ahallam
Original Path: trunk
Updates to first chapter in cookbook -> approaching completion.
New figures added for model descriptions.
Scripts updated to use pylab/matplotlib and movie making scripts added for *.avi creation.
Still to finalise in chapter 1
- twodheatdiff model of intrusion
	-contouring

- heat refraction scripts and begin cookbook sections
	- pycad discussion
	- steady state pde discussion
	- quiver plot discussion

Revision 2605 - Directory Listing
Modified Wed Aug 12 22:30:47 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
some changes to the cook book

Revision 2604 - Directory Listing
Modified Wed Aug 12 01:21:46 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
The prefix option for building escript now works correctly.
This fixes mantis issue #362.


Revision 2603 - Directory Listing
Modified Wed Aug 12 00:44:35 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Compute nodes will now read the correct options file and use the correct compiler.
I have added env_export to the service0 options file.
Use this if there are variables from the calling environment which need to be passed through scons. (In this case the INTEL_LICENSE_FILE variable).

There are still some issues with icpc linking.


Revision 2602 - Directory Listing
Modified Tue Aug 11 00:38:42 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Merging changes made for release3.0 back to trunk.

Revision 2600 - Directory Listing
Modified Fri Aug 7 04:47:49 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Using the 'agg' backend in matplotlib to avoid reference to the X Display.


Revision 2599 - Directory Listing
Modified Fri Aug 7 00:16:02 2009 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk
saveESD: added option to save mesh at each timestep if required.


Revision 2598 - Directory Listing
Modified Thu Aug 6 03:47:56 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
small fix in ReversedCurve clas

Revision 2597 - Directory Listing
Modified Thu Aug 6 03:30:09 2009 UTC (8 years, 4 months ago) by ahallam
Original Path: trunk
Updates to: cookbook documentation; heat refraction problems; mencoder investigation for *.png animation

Revision 2596 - Directory Listing
Modified Thu Aug 6 03:09:03 2009 UTC (8 years, 4 months ago) by lgao
Original Path: trunk
Add new diagnostic information: "net time" (the execution time of solver, excluding the setup time for solver and the execution time of preconditioner)



Revision 2595 - Directory Listing
Modified Thu Aug 6 00:49:09 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
there was wrong test which triggered an excpetion in some cases where things were actually right

Revision 2594 - Directory Listing
Modified Thu Aug 6 00:47:48 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
change to the default value for toListOfTuples

Revision 2592 - Directory Listing
Modified Thu Aug 6 00:43:19 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
additional tests for the Locator

Revision 2589 - Directory Listing
Modified Wed Aug 5 23:06:35 2009 UTC (8 years, 4 months ago) by ahallam
Original Path: trunk


Revision 2588 - Directory Listing
Modified Wed Aug 5 22:42:36 2009 UTC (8 years, 4 months ago) by ahallam
Original Path: trunk
Heat diffraction initial committal 2 weeks work.

Revision 2583 - Directory Listing
Modified Wed Aug 5 01:49:56 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Minor fixes

Revision 2581 - Directory Listing
Modified Wed Aug 5 01:11:33 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Fixed unit test for missing matplotlib case.


Revision 2580 - Directory Listing
Modified Tue Aug 4 08:24:12 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
another example for the usage of matplot lib added to users guide.

Revision 2578 - Directory Listing
Modified Tue Aug 4 04:05:36 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Fixed problem with unit tests

Revision 2575 - Directory Listing
Modified Mon Aug 3 23:38:33 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Fixed some grammar note about Lenny not working.


Revision 2574 - Directory Listing
Modified Mon Aug 3 09:09:20 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
matplotlib description added to usersguide

Revision 2573 - Directory Listing
Modified Mon Aug 3 04:30:09 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
some more fixes on solver options.

Revision 2568 - Directory Listing
Modified Fri Jul 31 05:37:41 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Updated install guide to include the correct version of python.
Updated Mac build instructions not to use numarray or frameworks.
Removed (commented out) references to MacPorts in the Mac instructions.
- These need to be updated and Artak isn't here.

Removed (commented out) references to windows in the install guide.
CSIRO won't have a windows release ready yet. 



Revision 2567 - Directory Listing
Modified Fri Jul 31 01:17:37 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Added example options file for Mac


Revision 2566 - Directory Listing
Modified Wed Jul 29 01:39:16 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
AMG on systems not supported yet exeption is added

Revision 2565 - Directory Listing
Modified Tue Jul 28 05:50:15 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
stopping criteria is slightly changed.

Revision 2564 - Directory Listing
Modified Tue Jul 28 04:46:38 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
reduced PDE solutions added to topography

Revision 2563 - Directory Listing
Modified Tue Jul 28 03:50:45 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
reengineered version of the mountain class so it becomes easier to use for the convection code

Revision 2562 - Directory Listing
Modified Tue Jul 28 01:25:12 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
inplace bugs are fixed

Revision 2561 - Directory Listing
Modified Mon Jul 27 07:38:45 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
small bug in the calculation of the errors fixed.

Revision 2560 - Directory Listing
Modified Mon Jul 27 07:38:00 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
a test for unique PropertySet name added.

Revision 2559 - Directory Listing
Modified Mon Jul 27 05:19:21 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
typo: MaxIter changed IterMax

Revision 2558 - Directory Listing
Modified Mon Jul 27 05:03:32 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
a table added showing the available solver options for finley paso.

Revision 2557 - Directory Listing
Modified Mon Jul 27 04:46:37 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
minor comments changed

Revision 2556 - Directory Listing
Modified Mon Jul 27 02:05:20 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
memory leack fixed

Revision 2555 - Directory Listing
Modified Mon Jul 27 01:50:16 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
Pattern_free for Aggregiation coarsening is added.

Revision 2554 - Directory Listing
Modified Fri Jul 24 05:38:54 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
bug with MKL call fixed.

Revision 2553 - Directory Listing
Modified Fri Jul 24 01:30:14 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Added another citation.


Revision 2552 - Directory Listing
Modified Fri Jul 24 00:42:10 2009 UTC (8 years, 4 months ago) by artak
Original Path: trunk
openmp change 

Revision 2551 - Directory Listing
Modified Thu Jul 23 09:19:15 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
a problem with the sparse matrix unrolling fixed.

Revision 2550 - Directory Listing
Modified Tue Jul 21 03:36:13 2009 UTC (8 years, 4 months ago) by gross
Original Path: trunk
AMG throws an error now if block size not 1

Revision 2549 - Directory Listing
Modified Mon Jul 20 06:43:47 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Remainder of copyright date fixes

Revision 2548 - Directory Listing
Modified Mon Jul 20 06:20:06 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Updating copyright notices

Revision 2547 - Directory Listing
Modified Mon Jul 20 05:50:46 2009 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk
More work on the install guide.


Revision 2546 - Directory Listing
Modified Mon Jul 20 05:35:08 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Updated builddeb script to include the architecture in the package filename.
(the architecture is also written into the control file).
Modified dependencies to not include VTK.
Added python-matplotlib as a "Recomends" dependency.

This means we can build 64bit debs now.

Revision 2545 - Directory Listing
Modified Mon Jul 20 04:54:57 2009 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk
Install guide: fixed a minor typo


Revision 2544 - Directory Listing
Modified Mon Jul 20 04:50:38 2009 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk
Enable building doxygen docs for the escriptreader library.


Revision 2543 - Directory Listing
Modified Mon Jul 20 04:38:21 2009 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk
Install guide: fixed latex compilation due to incompatible hyperref package.


Revision 2542 - Directory Listing
Modified Mon Jul 20 04:18:27 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Importing esys.pyvisi now generates a warning.

Revision 2541 - Directory Listing
Modified Mon Jul 20 00:25:55 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Added matplotlib to the stand-alone path.
Removed VTK


Revision 2540 - Directory Listing
Modified Mon Jul 20 00:09:55 2009 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk
Deprecating pyvisi in the user guide.

Revision 2539 - Directory Listing
Modified Sat Jul 18 02:47:34 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
the line added in RS for symetricity brings factorization failure in heatedblock example 

Revision 2538 - Directory Listing
Modified Fri Jul 17 06:24:15 2009 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk
Install guide: Reworked introduction and enabled hyperref package


Revision 2537 - Directory Listing
Modified Fri Jul 17 05:50:35 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Operation_make_pyvisi_go_away: Stage 1 of PI

Removing pyvisi example files.


Revision 2536 - Directory Listing
Modified Thu Jul 16 23:53:07 2009 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk
installguide: Fixed typos, minor semantics, repetitions and whitespace issues.


Revision 2535 - Directory Listing
Modified Thu Jul 16 23:39:58 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
LinearPDE is now updating stiffness matrix and right hand side even only geometry is modified. fix for 333

Revision 2534 - Directory Listing
Modified Thu Jul 16 06:49:19 2009 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk
Changed examples, tests and tutorials to save VTK files as .vtu instead .xml.
Visit doesn't know what to do with xml's and vtu is the proper extension
anyway.


Revision 2533 - Directory Listing
Modified Wed Jul 15 05:57:01 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
finley delivers now a status identifier of the mesh.

Revision 2532 - Directory Listing
Modified Fri Jul 10 01:13:44 2009 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk
libescriptreader: fixed a typo in configure script and added missing lib
to Makefile.


Revision 2531 - Directory Listing
Modified Thu Jul 9 23:56:57 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Setting always build on the api_epydoc target as a quick work around

Revision 2530 - Directory Listing
Modified Thu Jul 9 06:08:44 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Some changes relating to install from source.


Revision 2529 - Directory Listing
Modified Thu Jul 9 06:06:35 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Some changes to the install guide.
More work to do.

Revision 2528 - Directory Listing
Modified Wed Jul 8 23:27:49 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Added stand-alone example options file for install instructions.



Revision 2527 - Directory Listing
Modified Wed Jul 8 07:04:35 2009 UTC (8 years, 5 months ago) by lgao
Original Path: trunk
endof line added.

Revision 2526 - Directory Listing
Modified Wed Jul 8 05:52:06 2009 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk
util: Updated saveESD to allow saving of time series. Combined with an update
of the visit plugin this fixes issue 325.


Revision 2525 - Directory Listing
Modified Wed Jul 8 03:41:15 2009 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk
libescriptreader: Added 'timestep increment' option to allow time series files
to be named like file.0, file.10, file.20 etc.


Revision 2524 - Directory Listing
Modified Wed Jul 8 00:39:26 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
Minimum size of the coarsest level matrix option added to solver options

Revision 2523 - Directory Listing
Modified Wed Jul 8 00:07:36 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Fixed bug in MPI form of mkDir


Revision 2522 - Directory Listing
Modified Tue Jul 7 06:17:47 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Split test_util_spatial_functions.py into three python files (it had three classes in it).
This reduces memory required to compile down to about 600Mb each as opposed to >1Gb.

This should not affect the tests performed.

Revision 2521 - Directory Listing
Modified Tue Jul 7 00:08:58 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Modified Lazy so that resolving a single sample uses the node cache method.
Fixed some doxygen problems.

Revision 2520 - Directory Listing
Modified Mon Jul 6 03:13:11 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
AMG now takes as an input Paso_options for selecting coarsenening algorithm and treshold variable.

Revision 2519 - Directory Listing
Modified Mon Jul 6 00:43:08 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Correcting some doxygen errors

Revision 2518 - Directory Listing
Modified Fri Jul 3 07:43:11 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
bug in setNewX fixed: now it is made sure that the FunctionSpace of the new coordinates is correct.

Revision 2517 - Directory Listing
Modified Fri Jul 3 05:27:45 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Fixed bug in Locator


Revision 2516 - Directory Listing
Modified Fri Jul 3 02:51:05 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
files are not needed anymore.


Revision 2515 - Directory Listing
Modified Fri Jul 3 00:59:05 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
missing files for documentation

Revision 2514 - Directory Listing
Modified Fri Jul 3 00:57:45 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Fixed compile warning on Mac



Revision 2513 - Directory Listing
Modified Thu Jul 2 08:42:11 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
some fixes in wave.py example

Revision 2512 - Directory Listing
Modified Thu Jul 2 05:34:14 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Made the warnings against linking gomp a bit more detailed.
Commented out gomp from the linux sample.

Revision 2511 - Directory Listing
Modified Thu Jul 2 05:16:19 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
more openmp

Revision 2510 - Directory Listing
Modified Thu Jul 2 05:15:59 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
fix for INTELMPI

Revision 2509 - Directory Listing
Modified Thu Jul 2 04:51:51 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
Now one can choose coarsening method from python for AMG. Some commented lines are removed.

Revision 2508 - Directory Listing
Modified Thu Jul 2 04:33:25 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Ensured that example files are copied with build_py_tests rather than py_tests.
This means that:
build_full
will set up all the files ready for utest.sh

Revision 2507 - Directory Listing
Modified Thu Jul 2 03:14:35 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
some profiling tools added

Revision 2506 - Directory Listing
Modified Thu Jul 2 01:23:30 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Fix to allow binary unit tests to run.
Note: I have only fixed the non-windows systems and I don't know if they
have the same problem.

Diagnosis of the utest problems continues.



Revision 2505 - Directory Listing
Modified Thu Jul 2 00:46:53 2009 UTC (8 years, 5 months ago) by lgao
Original Path: trunk
adding config file for Lin's machine



Revision 2504 - Directory Listing
Modified Wed Jul 1 07:27:17 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
First stage of fix to utest.sh


Revision 2503 - Directory Listing
Modified Wed Jul 1 05:05:08 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Fixing doc build so examples tar and zip are built properly.
Fixed image filenames in user guide.

Please do not put extensions on image files.



Revision 2502 - Directory Listing
Modified Tue Jun 30 05:49:22 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
tests for examples added. utest is not working yet.

Revision 2501 - Directory Listing
Modified Tue Jun 30 04:43:01 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Caching now works.
Number of levels and nodes permitted in a lazy expression has increased to 70 and 15000.

Revision 2500 - Directory Listing
Modified Tue Jun 30 00:42:38 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Experimental per node cache for lazy evaluation is now available via the 
LAZY_NODE_STORAGE #define 
It's a bit slower and larger for small problems but a bit faster and 
smaller for large (drucker prager) problems.


Revision 2499 - Directory Listing
Modified Mon Jun 29 04:31:00 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
new stand

Revision 2498 - Directory Listing
Modified Mon Jun 29 04:25:23 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
new function MaskFromTag

Revision 2497 - Directory Listing
Modified Mon Jun 29 00:04:45 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Calling resolve now replaces resolved expression with an identity node.


Revision 2496 - Directory Listing
Modified Fri Jun 26 06:09:47 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Added lazy version of swapaxes operation.

Revision 2495 - Directory Listing
Modified Fri Jun 26 03:39:21 2009 UTC (8 years, 5 months ago) by ahallam
Original Path: trunk
Many revisions to Head Diff Documentation, One grammar correction to user guide.

Revision 2494 - Directory Listing
Modified Thu Jun 25 05:00:57 2009 UTC (8 years, 5 months ago) by ahallam
Original Path: trunk
Many updates to onedheatdiff in example and documentation. Still in need of some TLC however.

Revision 2493 - Directory Listing
Modified Thu Jun 25 02:58:52 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Taipan now prints an error message if new[] throws.
Note, the exception is rethrown after the message is printed.


Revision 2492 - Directory Listing
Modified Wed Jun 24 01:28:57 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
MPI_DOUBLE changed to MPI_INT as lowProc is int

Revision 2491 - Directory Listing
Modified Wed Jun 24 00:03:08 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
some modifications to the OPENMPI launcher.

Revision 2490 - Directory Listing
Modified Tue Jun 23 06:02:26 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
adjusting to new Paso_Options.

Revision 2489 - Directory Listing
Modified Tue Jun 23 06:00:25 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
void *solver; is added to Paso_SpaseMatrix struct. Paso_MKL will need this.

Revision 2488 - Directory Listing
Modified Tue Jun 23 05:56:33 2009 UTC (8 years, 5 months ago) by artak
Original Path: trunk
Paso_MKL1 supports Paso_SparseMatrix type with offset1

Revision 2487 - Directory Listing
Modified Tue Jun 23 04:26:07 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Fixed const-ness on some return values.
Null-Domain now reports tag one as being in use.

Revision 2486 - Directory Listing
Modified Tue Jun 23 03:38:54 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
a bit more info are printed for the DarcyFlux now.

Revision 2485 - Directory Listing
Modified Mon Jun 22 07:27:31 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
Added unit test file.


Revision 2484 - Directory Listing
Modified Mon Jun 22 04:22:19 2009 UTC (8 years, 5 months ago) by gross
Original Path: trunk
numarray removed from docu; Locator revised.

Revision 2483 - Directory Listing
Modified Mon Jun 22 03:33:43 2009 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk
And Joel closes the barn door.


Revision 2482 - Directory Listing
Modified Fri Jun 19 05:56:20 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Added run_data_access.py to unit tests - tests things like toListOfTuples.
Corrected some doco comments.
Added TestDomain class to escript.
This should allow more testing without resorting to finley.

Revision 2481 - Directory Listing
Modified Fri Jun 19 04:29:06 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Corrected a comment and fixed more bugs in the bulk copyFromArrayToOffset method.

Revision 2480 - Directory Listing
Modified Fri Jun 19 03:35:14 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
test fixed.

Revision 2479 - Directory Listing
Modified Thu Jun 18 06:50:37 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
paso returns now some diagnostics. SCSL has been removed.


Revision 2478 - Directory Listing
Modified Thu Jun 18 06:20:57 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Fixed bug when creating scalar expanded data.
Fixed some comments and moved a variable into anonymous namespace

Revision 2477 - Directory Listing
Modified Wed Jun 17 06:22:15 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
modification to the cookbook

Revision 2476 - Directory Listing
Modified Wed Jun 17 04:42:13 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Added maxGlobalDataPoint.
Not currently unit tested.

Revision 2475 - Directory Listing
Modified Wed Jun 17 01:48:46 2009 UTC (8 years, 6 months ago) by artak
Original Path: trunk
AMG now takes into account new SolverOptions class, namely one can select coarsening algorithms from python. Not all options are included into AMG, this will be implemented later on.

Revision 2474 - Directory Listing
Modified Tue Jun 16 06:32:15 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
linearPDEs has is now using the SolverOptions class to talk to PASO

Revision 2473 - Directory Listing
Modified Mon Jun 15 02:21:07 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Change logging functions so I don't get confused about what they do.
Added parameter to name the log file if called directly.

Revision 2472 - Directory Listing
Modified Thu Jun 11 23:33:47 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Added new params to control auto resolving for lazy data

Revision 2471 - Directory Listing
Modified Thu Jun 11 23:33:06 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Fixed extract of ndarray from xml to properly return booleans.
Modified some strings which had numarray:: in them

Revision 2470 - Directory Listing
Modified Thu Jun 11 08:32:32 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
SolverOption class added. It is not linked with anything.

Revision 2469 - Directory Listing
Modified Thu Jun 11 04:52:14 2009 UTC (8 years, 6 months ago) by ahallam
Original Path: trunk
Week 11: Close to finishing wave equation, looking at adding friction to wave equation.

Revision 2468 - Directory Listing
Modified Thu Jun 11 02:55:51 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
some more work toward numpy

Revision 2467 - Directory Listing
Modified Tue Jun 9 23:12:04 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Fixed a missing file.


Revision 2466 - Directory Listing
Modified Tue Jun 9 05:02:56 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Fixed build from source instructions for linux to include offscreen rendering by default!

Revision 2465 - Directory Listing
Modified Tue Jun 9 05:01:36 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Changed the default behaviour of Data::toListOfTuples() so that scalars are returned in tuples.
This is to match the behaviour of getTupleForDataPoint.

Revision 2464 - Directory Listing
Modified Tue Jun 9 04:14:07 2009 UTC (8 years, 6 months ago) by artak
Original Path: trunk
updated to use openmpi

Revision 2463 - Directory Listing
Modified Tue Jun 9 03:51:23 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Added an svn-ignore, added changes and references section to user guide.

Revision 2462 - Directory Listing
Modified Fri Jun 5 06:04:01 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Modified wrapper script to correctly point at numpy in standalone builds.
Updated build from source doco for linux to take numpy into account.
Also removed backticks in favour of $()  - it should be the same but latex won't eat them

Revision 2461 - Directory Listing
Modified Fri Jun 5 05:06:31 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Trying to presize a list to reduce runtime of toListOfTuples


Revision 2460 - Directory Listing
Modified Fri Jun 5 05:04:45 2009 UTC (8 years, 6 months ago) by ahallam
Original Path: trunk
Week 10:
Continued work on wave equation and tutorial write up.

Revision 2459 - Directory Listing
Modified Thu Jun 4 06:17:54 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Removed some commented out code.
Added toListOfTuples to the DataObject.

Revision 2458 - Directory Listing
Modified Wed Jun 3 06:18:21 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Various numarray erasures


Revision 2456 - Directory Listing
Modified Wed Jun 3 03:54:25 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Switching savanna scons to use python-2.6.2 and boost-1.39


Revision 2455 - Directory Listing
Modified Wed Jun 3 03:29:07 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Merging changes from numpy branch.


Revision 2450 - Directory Listing
Modified Tue Jun 2 01:22:11 2009 UTC (8 years, 6 months ago) by artak
Original Path: trunk
First version of 'greedy' algorithm for Ruge Stuben and Aggregiation.

Revision 2448 - Directory Listing
Modified Fri May 29 04:47:48 2009 UTC (8 years, 6 months ago) by ahallam
Original Path: trunk
Week 9: implemented cosine taper for wave function, need to work on direct method without lumping, wave propagation velocity is still not correct

Revision 2447 - Directory Listing
Modified Fri May 29 04:32:53 2009 UTC (8 years, 6 months ago) by artak
Original Path: trunk
minor

Revision 2446 - Directory Listing
Modified Fri May 29 04:24:01 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
same adjustment of nameing

Revision 2445 - Directory Listing
Modified Fri May 29 03:23:25 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
some improvement on convection which ios now working again

Revision 2444 - Directory Listing
Modified Fri May 29 01:51:28 2009 UTC (8 years, 6 months ago) by ahallam
Original Path: trunk


Revision 2443 - Directory Listing
Modified Fri May 29 01:44:22 2009 UTC (8 years, 6 months ago) by ahallam
Original Path: trunk
Fixing some things

Revision 2442 - Directory Listing
Modified Fri May 29 00:39:44 2009 UTC (8 years, 6 months ago) by artak
Original Path: trunk
Some bugs are fixed.

Revision 2440 - Directory Listing
Modified Wed May 27 08:45:55 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
convection works now again.

Revision 2439 - Directory Listing
Modified Tue May 26 04:34:21 2009 UTC (8 years, 6 months ago) by artak
Original Path: trunk
AMG now works with blocksize 3. Logical block sizes replaced with real block size before starting AMG. But this happens only when we use AMG as a preconditioner.

Revision 2438 - Directory Listing
Modified Tue May 26 02:26:52 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
new version of power law (blame Hans)

Revision 2436 - Directory Listing
Modified Mon May 25 05:05:00 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
A fix for escript not compiling on boost 1.39.


Revision 2434 - Directory Listing
Modified Thu May 21 07:59:53 2009 UTC (8 years, 6 months ago) by ahallam
Original Path: trunk
Week 8: Still working on seismic wave propagation. Need to come up with a smooth source function next week. All TEXT files up to date.

Revision 2433 - Directory Listing
Modified Wed May 20 08:43:43 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
some documentation on power law added

Revision 2432 - Directory Listing
Modified Wed May 20 06:06:20 2009 UTC (8 years, 6 months ago) by gross
Original Path: trunk
power law and incompressible flow is running now

Revision 2431 - Directory Listing
Modified Wed May 20 03:39:57 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Added at the request of Dian.


Revision 2430 - Directory Listing
Modified Wed May 20 03:20:57 2009 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk
Use Variables class instead of Options in scons versions which support 
it.


Revision 2429 - Directory Listing
Modified Tue May 19 10:04:54 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
pycad allows noe to set the number of elements per line and the generation of quadrilateral elements over serfaces.

Revision 2428 - Directory Listing
Modified Tue May 19 04:04:11 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
problem for python2.4 fixed: IOError has no attribute message.

Revision 2427 - Directory Listing
Modified Fri May 15 04:29:01 2009 UTC (8 years, 7 months ago) by ahallam
Original Path: trunk
Week 7: Work done on wave problem.

Revision 2426 - Directory Listing
Modified Fri May 15 04:28:31 2009 UTC (8 years, 7 months ago) by ahallam
Original Path: trunk
Week 7: Work done on wave problem.

Revision 2425 - Directory Listing
Modified Thu May 14 09:06:35 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
bug in getListOfTags fixed and some tested added

Revision 2424 - Directory Listing
Modified Thu May 14 05:15:47 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
small bug fixed.

Revision 2423 - Directory Listing
Modified Thu May 14 05:02:20 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
* handling LD_LIBRARY_PATH for Windows (that only uses PATH)
* passing PATH env var in mpi call for Windows

Revision 2422 - Directory Listing
Modified Thu May 14 03:17:28 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
bug in testing saveVTK fixed

Revision 2421 - Directory Listing
Modified Thu May 14 02:29:06 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
vtk writer supports now meta data and meta data schema

Revision 2420 - Directory Listing
Modified Thu May 14 02:28:58 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
vtk writer supports now meta data and meta data schema

Revision 2419 - Directory Listing
Modified Thu May 14 01:56:18 2009 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk
Use os.path.join instead of os.sep in tests
If you can read this message it means svn commit mails are working again.
... Or you are looking at the logs

Revision 2418 - Directory Listing
Modified Wed May 13 08:36:04 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
redirect stdout to NULL instead of /dev/null for Windows

Revision 2417 - Directory Listing
Modified Wed May 13 08:18:47 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
some remarks on load and dump added to the users guide.

Revision 2416 - Directory Listing
Modified Wed May 13 06:03:59 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
* fix Windows MPI case: export system variables
* define ESCRIPT_NUM_PROC and ESCRIPT_NUM_NODES
* cleanup using os.path.join()

Revision 2415 - Directory Listing
Modified Wed May 13 02:48:39 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
FileWriter added: this class takes care of writing data which are global in MPI to a file. It is recommended to use this class rather then the build in open as it takes care of the case of many processors.

Revision 2414 - Directory Listing
Modified Tue May 12 03:33:49 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
added flags (commented out) to compile MPI version on Windows (Visual Studio 2003) using MPICH2

Revision 2413 - Directory Listing
Modified Tue May 12 01:26:20 2009 UTC (8 years, 7 months ago) by artak
Original Path: trunk
There was a bug in computing logical_block_size. It was always returning 0.

Revision 2412 - Directory Listing
Modified Fri May 8 04:27:17 2009 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk
Clean up cookbook-
Cleaned up the svn:ignore
removed some latex intermediate files


Revision 2411 - Directory Listing
Modified Fri May 8 03:13:15 2009 UTC (8 years, 7 months ago) by ahallam
Original Path: trunk
Week 6 I think?? Started work on 2d wave solution, want to change from verlet according to lutz. Have semi finished heat diffusion but is ready for review and further modification in the future. Added new sections to first chapter, may or may not be needed but added as a reminder anyway.

Revision 2409 - Directory Listing
Modified Tue May 5 06:22:11 2009 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk
bin/escript is now under version control.
The wrapper template is no longer used.
Extraneous output doc removed from scons during build.

note: finleypython is no longer built (it was deprecated anyway).

Revision 2405 - Directory Listing
Modified Wed Apr 29 23:57:38 2009 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk
Another attempt at building the doco.
--transform is not supported by savanna's tar


Revision 2404 - Directory Listing
Modified Wed Apr 29 06:53:36 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
documentation for units added.

Revision 2403 - Directory Listing
Modified Wed Apr 29 06:08:18 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
units support Celsius, Farenheit and kelvin now

Revision 2402 - Directory Listing
Modified Wed Apr 29 06:02:21 2009 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk
Fixing the build of example tar and zip files so they don't have full 
paths.


Revision 2401 - Directory Listing
Modified Wed Apr 29 04:23:07 2009 UTC (8 years, 7 months ago) by ahallam
Original Path: trunk
End Week 5:
Renamed *.tex files to more logical, changed to chapter format as HEAT_DIFFUSION.tex
Editted and Reviewed text portion and some python scripts for heat diffusion.
Looking to push for finalisation on heat diffusion in the next couple of week to begin next modelling problem/Chapter.

Revision 2399 - Directory Listing
Modified Tue Apr 28 12:04:34 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
some improvements on units

Revision 2398 - Directory Listing
Modified Tue Apr 28 04:41:53 2009 UTC (8 years, 7 months ago) by gross
Original Path: trunk
first version of units in escript




Revision 2397 - Directory Listing
Modified Fri Apr 24 04:24:28 2009 UTC (8 years, 7 months ago) by ahallam
Original Path: trunk
End Week 4, Finalised 1D examples, need work on text but script ok.
Begining of 2D example builds on 1D. Script semi-finalised, text to complete.

Revision 2394 - Directory Listing
Modified Fri Apr 17 01:32:30 2009 UTC (8 years, 8 months ago) by caltinay
Original Path: trunk
Updated shake75 options file.


Revision 2393 - Directory Listing
Modified Thu Apr 16 04:24:07 2009 UTC (8 years, 8 months ago) by ahallam
Original Path: trunk
End Day Commit
Working on onedheatdiff_var001

Revision 2392 - Directory Listing
Modified Thu Apr 16 01:53:23 2009 UTC (8 years, 8 months ago) by ahallam
Original Path: trunk
Initial Commital of CookBook to SVN
Has 2.5 Weeks work and semi completed first heat diffusion tutorial

Revision 2391 - Directory Listing
Modified Thu Apr 16 01:08:57 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Minor tweak to title page.
Better handling of alternative names in SConstruct.


Revision 2390 - Directory Listing
Modified Wed Apr 15 06:46:42 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some minor fixes.

Revision 2389 - Directory Listing
Modified Wed Apr 15 06:46:01 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some minor fixes.

Revision 2388 - Directory Listing
Modified Wed Apr 15 06:21:25 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
scons files executed on compute nodes will use the config file for the service node (when we get the other issues 
sorted).


Revision 2387 - Directory Listing
Modified Wed Apr 15 05:05:27 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Changed the figure eps->pdf to use a builder to make hypothetical windows doc building easier.

Revision 2386 - Directory Listing
Modified Wed Apr 15 03:54:25 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some minor fixes

Revision 2385 - Directory Listing
Modified Wed Apr 15 03:52:38 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
two fixes dealing with zero samples under MPI

Revision 2384 - Directory Listing
Modified Wed Apr 15 00:17:20 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Added getDataRW to DataC

Revision 2383 - Directory Listing
Modified Tue Apr 14 03:53:56 2009 UTC (8 years, 8 months ago) by artak
Original Path: trunk
-h parameter added for help

Revision 2382 - Directory Listing
Modified Tue Apr 14 03:48:22 2009 UTC (8 years, 8 months ago) by artak
Original Path: trunk
Testing environment now mor flexible. Added a lot of options.

Revision 2381 - Directory Listing
Modified Tue Apr 14 03:46:59 2009 UTC (8 years, 8 months ago) by artak
Original Path: trunk
Ruge Stuben and Aggregiation is added for testing performance of AMG solver.

Revision 2380 - Directory Listing
Modified Tue Apr 14 03:23:29 2009 UTC (8 years, 8 months ago) by artak
Original Path: trunk
minor typo

Revision 2379 - Directory Listing
Modified Thu Apr 9 07:36:55 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
type fixed.

Revision 2378 - Directory Listing
Modified Thu Apr 9 01:09:08 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Added warning when openmp params are specified by escript was build without openmp.
escript now reports the number of threads requested. 


Revision 2377 - Directory Listing
Modified Wed Apr 8 07:57:55 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
a namespace  problem in pycad fixed.

Revision 2376 - Directory Listing
Modified Tue Apr 7 06:21:31 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
output form others than the master process can now be switched off (stderr is still redirected to master)

Revision 2375 - Directory Listing
Modified Tue Apr 7 04:41:28 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
MPI hints added

Revision 2374 - Directory Listing
Modified Tue Apr 7 00:26:49 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Modified utest to use the wrapper script.


Revision 2373 - Directory Listing
Modified Mon Apr 6 23:49:31 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Minor spelling and man page tweaks.


Revision 2372 - Directory Listing
Modified Mon Apr 6 23:36:15 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
changes to the urls

Revision 2371 - Directory Listing
Modified Mon Apr 6 11:48:32 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
missing  citations and references added

Revision 2370 - Directory Listing
Modified Mon Apr 6 06:41:49 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some modifications to docu for MPI

Revision 2369 - Directory Listing
Modified Mon Apr 6 05:32:12 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some fixed for mpich2

Revision 2368 - Directory Listing
Modified Mon Apr 6 05:05:35 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some fixes for MKL and Mpisize>1

Revision 2367 - Directory Listing
Modified Mon Apr 6 04:51:49 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Added version number to deb files.
Fixed tests to check for ppmtompeg before running

Revision 2366 - Directory Listing
Modified Mon Apr 6 03:10:55 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
starter for MPICH and MPICH2 add

Revision 2365 - Directory Listing
Modified Mon Apr 6 01:25:25 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
all tests passed under scons on 4 mpi processes with  openmpi on shake34

Revision 2364 - Directory Listing
Modified Fri Apr 3 08:06:30 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
MPI intel works now for the escript wrapper.

Revision 2363 - Directory Listing
Modified Fri Apr 3 03:56:19 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
scons should now be able to run tests under MPI and OpenMP

Revision 2362 - Directory Listing
Modified Fri Apr 3 02:41:14 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
escript wrapper does not use Compiled.with.*

Revision 2361 - Directory Listing
Modified Fri Apr 3 00:37:25 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Hopefully fixing the bad figures.
It turns out latex2html can not handle the optional angle= param in 
\includegraphics


Revision 2360 - Directory Listing
Modified Thu Apr 2 04:12:12 2009 UTC (8 years, 8 months ago) by artak
Original Path: trunk
AMG now checks how many elemens left. if n_F<500, then it does not coursen further.

Revision 2359 - Directory Listing
Modified Thu Apr 2 03:50:33 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Moved man page for easier testing.
Modified the wrapper script to take into account debian packaging.
This setting is recorded in the escript wrapper automatically by the package building script.

Revision 2358 - Directory Listing
Modified Wed Apr 1 22:25:24 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
mpi is not really ready yet.

Revision 2357 - Directory Listing
Modified Wed Apr 1 06:01:56 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
fixes to run escript command with SGI MPT

Revision 2356 - Directory Listing
Modified Wed Apr 1 04:46:22 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
more on escript command.

Revision 2355 - Directory Listing
Modified Wed Apr 1 04:08:28 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
intel MPI added.

Revision 2354 - Directory Listing
Modified Wed Apr 1 04:01:58 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some modifications to the Darcy flux solver to make it faster and more robust.

Revision 2353 - Directory Listing
Modified Wed Apr 1 01:49:47 2009 UTC (8 years, 8 months ago) by artak
Original Path: trunk
AMG levels parameter moved to options file. Now one can set how many levels AMG will go in SetDefauls. Default value is 3.

Revision 2352 - Directory Listing
Modified Wed Apr 1 01:15:15 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Updated doco to reflect changed env variables


Revision 2351 - Directory Listing
Modified Tue Mar 31 08:26:41 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
some fixes in the transport solver

Revision 2350 - Directory Listing
Modified Tue Mar 31 08:26:05 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
more escript wrapper stuff

Revision 2349 - Directory Listing
Modified Mon Mar 30 08:14:23 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
first version of escript command: no MPI support yet.

Revision 2348 - Directory Listing
Modified Mon Mar 30 06:27:14 2009 UTC (8 years, 8 months ago) by gross
Original Path: trunk
obsolet

Revision 2347 - Directory Listing
Modified Mon Mar 30 06:07:47 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Added windows notes to install guide.


Revision 2346 - Directory Listing
Modified Mon Mar 30 05:05:44 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Added instructions to test installations.


Revision 2345 - Directory Listing
Modified Mon Mar 30 04:44:06 2009 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk
Added proper man page (with formatting and everything).
Updated packa