Log of /tags/trunk_at_1942

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Revision 1944 - Directory Listing
Modified Wed Oct 29 04:30:49 2008 UTC (14 years, 5 months ago) by phornby
Copied from: trunk revision 1943

preserve current functioning trunk.

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Revision 1942 - Directory Listing
Modified Wed Oct 29 03:29:35 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

remove unused rtmp var.

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Revision 1941 - Directory Listing
Modified Tue Oct 28 07:51:49 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

Updated installation directions in the User Guide to simply
point to the instructions on the wiki, which I have already
updated extensively.

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Revision 1940 - Directory Listing
Modified Tue Oct 28 03:50:01 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

get Gauss-Seidel factorization moved solverAMG to getAMG. Stopping criterium for corsening changed to depend to the number of unknowns left

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Revision 1939 - Directory Listing
Modified Tue Oct 28 03:47:08 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

get Gauss-Seidel factorization moved solverAMG to getAMG. Stopping criterium for corsening changed to depend to the number of unknowns left

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Revision 1937 - Directory Listing
Modified Tue Oct 28 01:26:55 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

Created a mid-sized test suite 'scalable_tests' as an alternative to 'all_tests'.
These run on small-ish systems and also on all 512 cores of Savanna.
Most features are covered, but it's better to use 'all_tests'.

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Revision 1936 - Directory Listing
Modified Mon Oct 27 23:30:57 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

checks openMP for proper break usage

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Revision 1934 - Directory Listing
Modified Mon Oct 27 05:03:12 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

some typos

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Revision 1933 - Directory Listing
Modified Mon Oct 27 04:58:59 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

Gauss-Seidel which takes into acound initianl x

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Revision 1932 - Directory Listing
Modified Mon Oct 27 04:15:00 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

one input parameter is added

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Revision 1931 - Directory Listing
Modified Mon Oct 27 01:31:28 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

Direct solver is added to solve_AMG. It is now working but I guess need optimization.

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Revision 1930 - Directory Listing
Modified Fri Oct 24 09:35:55 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

revert to MS compiler for now.

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Revision 1929 - Directory Listing
Modified Fri Oct 24 09:20:17 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

abortive attempt to automate the choice of windows compiler based uponj the options file.

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Revision 1928 - Directory Listing
Modified Fri Oct 24 08:20:23 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Pass 2 at getting openMP going on windows.
Problem is incompatible mathinf.h and system math.h at this point.

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Revision 1927 - Directory Listing
Modified Fri Oct 24 06:24:49 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

First cut at omp options for windows.

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Revision 1923 - Directory Listing
Modified Thu Oct 23 12:53:39 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

The calls to Finley routines turned out to be cut & past errors, easily fixed.

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Revision 1921 - Directory Listing
Modified Thu Oct 23 11:32:24 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Jump through hoops to meet the OPENMP 2.5 restrictions on loop variables.
It's all ready for OPENMP 3.0 improvments, and should compile cleanly on other platforms.

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Revision 1920 - Directory Listing
Modified Thu Oct 23 10:05:27 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

remove unused vars.

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Revision 1919 - Directory Listing
Modified Thu Oct 23 10:03:10 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Remove un-used vars introduced by my _WIN32 compilation branch. This is a checkin to allow a test of both compilation brabches.

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Revision 1918 - Directory Listing
Modified Thu Oct 23 09:14:13 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

fix a signed and unsigned integer comparison. As your meshes get larger, this type of error will bite.

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Revision 1917 - Directory Listing
Modified Thu Oct 23 09:09:31 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Remove unused vars, do a bit of standardising of indentation, and use the new Pattern_coupling.h to eliminate some implicit function declarations in Solver_AMG.c

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Revision 1916 - Directory Listing
Modified Thu Oct 23 08:51:36 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

This is a fake commit, to note that

Finley_IndexList_insertIndex is being called from paso's Pattern.c.

I was under the impresssion that this was a violation of the module rule forbidding
paso from calling Finley code. I have not fixed this, since I am not the
best person to formulate the workaround. My immediate suggestion would be to move the
functionality into paso, and call it from Finley. However, I'm sure there is a better way.

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Revision 1915 - Directory Listing
Modified Thu Oct 23 08:40:09 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

As far as I can tell, just the new Pattern_coupling.h and Pattern_coupling.h
are all that's needed to compile Pattern_coupling.c

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Revision 1914 - Directory Listing
Modified Thu Oct 23 08:31:22 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Adding include files back to keep Altix happy.

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Revision 1913 - Directory Listing
Modified Thu Oct 23 08:27:33 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Create Pattern_coupling.h as there were too many modules that implicitly defined these
functions. This checkin is to test the minimum number of files this change allows me to
include to get Pattern_coupling.c to compile correctly on the Altix.

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Revision 1912 - Directory Listing
Modified Thu Oct 23 05:08:31 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

Finished wrapper script by setting PATH.

The wrapper script reproduces the environment of the person who built
the software + values specified in his hostname_options.py file.  A
user can run a python script without setting any environment variables
or loading any SGI modules.

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Revision 1909 - Directory Listing
Modified Thu Oct 23 01:47:50 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

Updated the wrapper script to set MPI_NUM_MEMORY_REGIONS=0 to avoid
bug where truncated messages are sent in hybrid runs under MPT MPI

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Revision 1907 - Directory Listing
Modified Wed Oct 22 11:41:18 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Mesh_read.c - remove a debug printout introduced by me (oops).

Pattern_coupling.c - remove declaration of naib where it was not used, and remove naib frpm
omp pragmas where it was not declared, and not used.

Apparently cognac.ivec.org did not like this??

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Revision 1906 - Directory Listing
Modified Wed Oct 22 08:48:32 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

This file was pining for a final return at its end.

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Revision 1905 - Directory Listing
Modified Wed Oct 22 08:40:05 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

I did a lot of rationalising of the indentation, which looks like an alarming number of changes. I just got sick of my editor getting confused about what the indent was in this function as opposed to the last one I was working on.

The real mods. are trivial, arising from the fact that 'nix'es will write 1e-05 (say), while winblows will write 1e-005. This causes string comparisons that check the mesh file generation to fail. This, combined with the more pedantic behaviour of unlink() made pycad very fragile on windows. All fixed now.

Test on the 'nixes tonight.

May I ask for a hold off on the branch merge, Joel, till I get this stable on all platforms, and deal with the usual unused vars. that pop up from all the ifdefs?

  

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Revision 1904 - Directory Listing
Modified Wed Oct 22 08:27:56 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

This now passes on windows. The main issue was that __del__ was being called when there was no open script or mesh file??? Could not fathom why, but added an extra test in __del__ to make sure the files were actually open before closing & unlinking.  It may be better to deal with the opening, writing, closing, os.system call, and final unlinking of the script file in getMeshHandler(). That way all manipulations are local, and only the mesh file need be handled in a remote piece of code like __del__.

Not tested on Altix or linux yet.... get to that tonight.

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Revision 1902 - Directory Listing
Modified Wed Oct 22 03:54:14 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

some bugs fixed in coresening methods

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Revision 1900 - Directory Listing
Modified Mon Oct 20 07:33:42 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Fake commit to sync with my windows machine.

Fix looks like like it worked on Dedbian. Thanks.

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Revision 1897 - Directory Listing
Modified Mon Oct 20 00:32:30 2008 UTC (14 years, 5 months ago) by jfenwick
Original Path: trunk

Modified Data::toString() so it doesn't throw on DataEmpty.
Added setEscriptParamInt and getEscriptParamInt as free functions.
At the moment all they do is allow you to set the param TOO_MANY_LINES.
This is used to determine when printing a Data object will show you the 
points and when it will print a summary.

I've set the default value back to 80 lines.
If you need to see more lines use (in python):

setEscriptParamInt("TOO_MANY_LINES",80000)

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Revision 1896 - Directory Listing
Modified Sun Oct 19 23:16:21 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

small fixes.

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Revision 1895 - Directory Listing
Modified Sat Oct 18 11:06:38 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Remove the amalgamated test suite because it consumes too much resource on winblows

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Revision 1894 - Directory Listing
Modified Sat Oct 18 11:00:08 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Break run_linearPDEsOnFinley.py into 3 separate test modules to avoid crashes on winblows

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Revision 1893 - Directory Listing
Modified Fri Oct 17 09:59:39 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

brakets in SCAN error detection were missing.

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Revision 1892 - Directory Listing
Modified Fri Oct 17 00:55:59 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

memory leak is fixed

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Revision 1891 - Directory Listing
Modified Fri Oct 17 00:15:17 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

minor

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Revision 1890 - Directory Listing
Modified Fri Oct 17 00:14:22 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

Current version of AMG. check levels for stoping applies presmoothing, but not ready yet

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Revision 1887 - Directory Listing
Modified Wed Oct 15 03:26:25 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

Fixed two typos that stopped the test suite from running.

Also, gcc 4.3.2 issued several warnings not seen before:
ignoring the return value of fscanf and using the wrong format
with printf.

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Revision 1883 - Directory Listing
Modified Tue Oct 14 04:46:27 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

< changed to >=

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Revision 1882 - Directory Listing
Modified Tue Oct 14 04:39:02 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

minor

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Revision 1881 - Directory Listing
Modified Tue Oct 14 04:34:09 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

pattern multiply, binary operation are added

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Revision 1880 - Directory Listing
Modified Tue Oct 14 04:23:21 2008 UTC (14 years, 5 months ago) by caltinay
Original Path: trunk

s/==/=/ in one more place in generate_dumps.py

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Revision 1878 - Directory Listing
Modified Tue Oct 14 03:39:13 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

new version of JacobiFree Newton GMRES + test added.

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Revision 1877 - Directory Listing
Modified Tue Oct 14 02:58:39 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

convection.py checkpointing uses mkdir/rmdir, and under MPI there
was a race condition.

mkdir needs to be run on only one CPU and then a barrier to prevent
working processors from using the directory before it exists.

Added methods domain.MPIBarrier and domain.onMasterProcessor() to
implement this technique.

A more general solution might be possible in the future.

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Revision 1876 - Directory Listing
Modified Mon Oct 13 10:19:17 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

ftell lies on windows, so there is a win32 branch that reads the tag lines char by char.

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Revision 1875 - Directory Listing
Modified Mon Oct 13 10:15:04 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Add a TMPMEMREALLOC macro

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Revision 1874 - Directory Listing
Modified Mon Oct 13 05:15:55 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

num_equations -> numEquations

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Revision 1873 - Directory Listing
Modified Mon Oct 13 04:32:22 2008 UTC (14 years, 5 months ago) by jfenwick
Original Path: trunk

Fixed a compile error under MPI.
Cleaned up a comment.

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Revision 1872 - Directory Listing
Modified Mon Oct 13 00:18:55 2008 UTC (14 years, 5 months ago) by jfenwick
Original Path: trunk

Closing the moreshared branch

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Revision 1870 - Directory Listing
Modified Thu Oct 9 08:49:53 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

a bug in the nc test fixed (hopefully.)

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Revision 1869 - Directory Listing
Modified Thu Oct 9 08:34:40 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

typo fixed.

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Revision 1867 - Directory Listing
Modified Thu Oct 9 05:35:24 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

New method for unit testing to compare two saveVTK files.
Can detect same-ness even if the nodes are re-ordered.
To do: issue with contact elements in that identical
nodes confuses test for node re-ordering.

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Revision 1866 - Directory Listing
Modified Thu Oct 9 04:01:06 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

Repair to saveVTK similar to revision 1677 (there we got the number of offsets correct
and in this revision we got the number of types correct).
In case of MPI > 1 do not run saveDX tests since saveDX is not MPI parallel.

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Revision 1863 - Directory Listing
Modified Wed Oct 8 23:54:00 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

Improved test for off-screen rendering with pyvisi

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Revision 1862 - Directory Listing
Modified Wed Oct 8 06:30:50 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

Should work now

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Revision 1861 - Directory Listing
Modified Wed Oct 8 04:20:07 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

minres test are switched on

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Revision 1860 - Directory Listing
Modified Wed Oct 8 04:07:10 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

minor bug is fixed

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Revision 1859 - Directory Listing
Modified Wed Oct 8 03:03:37 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

first version of testing for transport solver.

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Revision 1857 - Directory Listing
Modified Tue Oct 7 23:58:44 2008 UTC (14 years, 5 months ago) by jfenwick
Original Path: trunk

Updated doco to describe the behaviour of inf, sup and Lsup for cases 
where none of the tags in use in the domain have values.

It confused me when I was testing.

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Revision 1856 - Directory Listing
Modified Tue Oct 7 07:10:47 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

The NC dump tests work now with MPI.
In fact the old test did not exactly what it supposed to

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Revision 1855 - Directory Listing
Modified Tue Oct 7 05:25:30 2008 UTC (14 years, 5 months ago) by jfenwick
Original Path: trunk

Modified Data::copyWithMask to have a less cryptic implementation.

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Revision 1854 - Directory Listing
Modified Tue Oct 7 01:38:55 2008 UTC (14 years, 5 months ago) by ksteube
Original Path: trunk

local_NE0 typo

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Revision 1848 - Directory Listing
Modified Mon Oct 6 01:45:59 2008 UTC (14 years, 5 months ago) by jfenwick
Original Path: trunk

Fixed copyright notice on linux_gcc_eg_options.py

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Revision 1847 - Directory Listing
Modified Fri Oct 3 06:45:34 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

OK, these get the blahcpp.so names correct now.

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Revision 1846 - Directory Listing
Modified Fri Oct 3 06:42:35 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

bug fixed.

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Revision 1845 - Directory Listing
Modified Fri Oct 3 05:23:47 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

some naming problem for the installation of escriptcpp and finleycpp. Apparently this came is trough some mofifications in windows

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Revision 1844 - Directory Listing
Modified Fri Oct 3 05:19:23 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

This is prep for AMG solver. It is only a copy from RILU not actual AMG

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Revision 1843 - Directory Listing
Modified Fri Oct 3 04:21:29 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

forgot this one

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Revision 1842 - Directory Listing
Modified Fri Oct 3 04:18:26 2008 UTC (14 years, 5 months ago) by artak
Original Path: trunk

Gauss-Seidel preconditioner now works for any number of sweeps. One need to specify parameter in options->sweep=2 (by default)

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Revision 1841 - Directory Listing
Modified Fri Oct 3 03:57:52 2008 UTC (14 years, 5 months ago) by gross
Original Path: trunk

modification on LinearPDE class and a first version of Transport class

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Revision 1840 - Directory Listing
Modified Fri Oct 3 03:16:11 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

These now install the correct .pyd files on windows.

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Revision 1839 - Directory Listing
Modified Fri Oct 3 02:06:00 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

temporary fix to get run_tests working

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Revision 1838 - Directory Listing
Modified Fri Oct 3 02:05:01 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

add 4 missing  ESCRIPT_DLL_API that prevented linking.

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Revision 1837 - Directory Listing
Modified Fri Oct 3 02:03:07 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

Just getting run_tests going. I now recall that windows python will look for a .pyd
and not a .dll. So somehow we must install the python wrapper .dlls as a .pyds
I'll get to that later.

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Revision 1836 - Directory Listing
Modified Fri Oct 3 01:53:50 2008 UTC (14 years, 5 months ago) by phornby
Original Path: trunk

do some code reuse to ease upkeep.

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Revision 1835 - Directory Listing
Modified Thu Oct 2 10:18:03 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

There is no unistd.h on windows, as the name would imply.
I assume it is included for gethostname only.

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Revision 1834 - Directory Listing
Modified Thu Oct 2 09:48:45 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

Remove a signed/unsigned comparison

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Revision 1833 - Directory Listing
Modified Thu Oct 2 09:47:24 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

One cannot give a static function external linkage
(eigenvalues_and_eigenvectors and swapaxes).
I'm not even sure the external linkage is needed for inline functions.

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Revision 1832 - Directory Listing
Modified Thu Oct 2 09:33:48 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

This one is closer to working.

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Revision 1831 - Directory Listing
Modified Thu Oct 2 08:55:16 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

First cut at a windows option file. I probably does not work. This is a backup commit.

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Revision 1830 - Directory Listing
Modified Thu Oct 2 06:51:48 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Tests using JoinFaces() and domain.write() will not work under MPI and must be disabled for num procs > 1

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Revision 1829 - Directory Listing
Modified Thu Oct 2 05:40:30 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Adjusted tests for MPI.
Enabled two tests in run_inputOutput.py for order=2 after recent bugfix.

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Revision 1827 - Directory Listing
Modified Thu Oct 2 04:28:07 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

MPI parallelized dump/load for Constant and Tagged data.
run_escriptOnFinley.py runs hybrid MPI/OpenMP.

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Revision 1826 - Directory Listing
Modified Thu Oct 2 03:13:27 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

Updated for new build system.
Still generating std::bad_alloc deep in VTK.

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Revision 1824 - Directory Listing
Modified Thu Oct 2 01:08:25 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Updated tests for new Mesh_readGmsh.c of revision 1814

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Revision 1823 - Directory Listing
Modified Wed Oct 1 05:56:05 2008 UTC (14 years, 6 months ago) by artak
Original Path: trunk

GS preconditioner now works for block_size 2 and 3 as well. Sweep parameter introdiced, but not working yet

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Revision 1819 - Directory Listing
Modified Tue Sep 30 05:58:06 2008 UTC (14 years, 6 months ago) by artak
Original Path: trunk

Firs version of symmetric Gauss-Seidel preconditioner with coloring

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Revision 1818 - Directory Listing
Modified Tue Sep 30 04:09:13 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

chnaged the wrong line

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Revision 1817 - Directory Listing
Modified Tue Sep 30 04:03:40 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Install runmodel.py into bin
Remove obsolete script esysXML.py

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Revision 1816 - Directory Listing
Modified Tue Sep 30 03:40:51 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

bug with MPI fixed (relevant for cases of n0 and n1 < num processors)

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Revision 1815 - Directory Listing
Modified Tue Sep 30 02:10:32 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

tools to generate dump files for relevant data and mesh types

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Revision 1814 - Directory Listing
Modified Tue Sep 30 00:21:21 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

Contact elements have the right tyoe now.

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Revision 1812 - Directory Listing
Modified Fri Sep 26 00:19:18 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Re-ordered the methods in paso/src/SolverFCT_solve.c and resolved several compiler warnings

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Revision 1811 - Directory Listing
Modified Thu Sep 25 23:11:13 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Copyright updated in all files

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Revision 1810 - Directory Listing
Modified Thu Sep 25 06:53:26 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Updated copyright for a few remaining python files

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Revision 1809 - Directory Listing
Modified Thu Sep 25 06:43:44 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Copyright updated in all python files

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Revision 1808 - Directory Listing
Modified Thu Sep 25 03:14:56 2008 UTC (14 years, 6 months ago) by jfenwick
Original Path: trunk

Removed some commented out lines.
Modified DataExpanded to not throw when creating objects with zero 
samples.
Modified toString() to report "(data contains no samples)" rather than 
printing a blank line.
Modified DataExpanded::dump() and load so that they do not attempt so 
save/load the ids and data fields if the data object contains no 
samples.

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Revision 1807 - Directory Listing
Modified Thu Sep 25 01:04:51 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

The new MPI parallel ReadMesh is now the default after having passed
all tests both with and without MPI.
If you have been using ReadMesh you should notice no difference.
If you were using ReadMeshMPI then change to ReadMesh.

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Revision 1806 - Directory Listing
Modified Thu Sep 25 00:36:10 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Cleaned up use of gethostname

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Revision 1805 - Directory Listing
Modified Wed Sep 24 23:39:00 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Added python-level methods getMPISizeWorld() and getMPIRankWorld() for MPI process info.
Test suite run_inputOutput.py runs on any number of cores now, hybrid may still be a problem.

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Revision 1804 - Directory Listing
Modified Wed Sep 24 07:52:19 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

a robister version of the upwinding scheme

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Revision 1803 - Directory Listing
Modified Wed Sep 24 06:20:29 2008 UTC (14 years, 6 months ago) by jfenwick
Original Path: trunk

All about making DataEmpty instances throw.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Exposed getDim from AbstractDomain to python to fix bug.

Added isEmpty member to DataAbstract to allow it to throw is queries are 
made about a DataEmpty instance.


Added exceptions to DataAbstract, DataEmpty and Data to prevent calls 
being made against DataEmpty objects.
The following still work as expected on DataEmpty instances

copy, getDomain, getFunctionSpace, isEmpty, isExpanded, isProtected, 
isTagged, setprotection.

You can also call interpolate, however it should throw if you try to 
change FunctionSpaces.

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Revision 1802 - Directory Listing
Modified Tue Sep 23 01:03:29 2008 UTC (14 years, 6 months ago) by jfenwick
Original Path: trunk

Added canTag methods to FunctionSpace and AbstractDomain (and its 
offspring).
This checks to see if the domain supports tags for the given type of 
function space.

Constructors for DataTagged now throw exceptions if you attempt to make 
a DataTagged with a FunctionSpace which does not support tags.
To allow the default constructor to work, NullDomain has a single 
functioncode which "supports" tagging.

Fixed a bug in DataTagged::toString and DataTypes::pointToString.

Added FunctionSpace::getListOfTagsSTL.

algorithm(DataTagged, BinaryFunction) in DataAlgorithm now only 
processes tags known to be in use.
This fixes mantis issue #0000186.

Added comment to Data.h intro warning about holding references if the 
underlying DataAbstract changes.

_python_ unit tests have been updated to test TaggedData with invalid 
FunctionSpaces and to give the correct answers to Lsup etc.

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Revision 1801 - Directory Listing
Modified Fri Sep 19 01:37:09 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Fixed serialization of I/O for MPI...code didn't compile without MPI

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Revision 1800 - Directory Listing
Modified Thu Sep 18 05:28:20 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Serialized parallel I/O when writing mesh or data to NetCDF file on multiple MPI processors.
Added domain method getMPIComm() to complement getMPISize() and getMPIRank().

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Revision 1799 - Directory Listing
Modified Wed Sep 17 06:33:18 2008 UTC (14 years, 6 months ago) by jfenwick
Original Path: trunk

Added Data::copySelf() [Note: this is exposed as copy() in python].
This method returns a pointer to a deep copy of the target.
There are c++ tests but no python tests for this yet.

All DataAbstracts now have a deepCopy() which simplifies the 
implementation of the compy methods.

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Revision 1798 - Directory Listing
Modified Wed Sep 17 06:21:12 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

Fixes for the JacobeanFreeNewton scheme. Still needs to be tested under OPENMP but runs under MPI.

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Revision 1797 - Directory Listing
Modified Wed Sep 17 03:39:34 2008 UTC (14 years, 6 months ago) by jfenwick
Original Path: trunk

Putting MINRES.c back after it went missing.

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Revision 1796 - Directory Listing
Modified Wed Sep 17 01:45:46 2008 UTC (14 years, 6 months ago) by jfenwick
Original Path: trunk

Merged noarrayview branch onto trunk.

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Revision 1792 - Directory Listing
Modified Tue Sep 16 08:28:25 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

bug fixed: obviously in rather than NULL should be returned

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Revision 1791 - Directory Listing
Modified Tue Sep 16 08:21:57 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

I know this ia a no no, but it was necessary to get scons run_tests, going on my debian box,
even with usepedanitc off.

My g++ version is 4.3.1, that may explain the different behavour.

#include'd cstdlib. This checkin is to see if this hurts the other ports.

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Revision 1790 - Directory Listing
Modified Tue Sep 16 07:45:38 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

test is obsolet

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Revision 1789 - Directory Listing
Modified Mon Sep 15 08:34:44 2008 UTC (14 years, 6 months ago) by phornby
Original Path: trunk

Near line 288 of SConstruct.

Fixed the HAVE_GETHOSTNAME environment variable setting.
The the test had a "not" that should not be there,
and the wrong env was being Append()'ed.

On linux, this resulted in HAVE_GETHOSTNAME not being -D'ed.

the strcpy at line 78 of 
escript/src/Utils.cpp

was flagged by gcc as an error because
strcpy is not declared on the compilation branch
that compiles if HAVE_GETHOSTNAME is not set.
I have not fixed this.

Also, the hostname buffer is only 64 char long.
Why limit the length of the hostname,
admitting buffer overflow, in a .cpp file?
Why use strcpy in C++?

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Revision 1788 - Directory Listing
Modified Mon Sep 15 02:20:20 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

levelset in the way laurent did it.

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Revision 1787 - Directory Listing
Modified Mon Sep 15 01:36:34 2008 UTC (14 years, 6 months ago) by artak
Original Path: trunk

MINRES solver is added to escript. Additional 16 tests are added to run_simplesolve for MINRES and TFQMR solvers

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Revision 1785 - Directory Listing
Modified Thu Sep 11 23:35:42 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Config variables such as boost_lib_path and netcdf_lib_path are stored in
the wrapper script bin/finleypython so the user gets the proper environment
automatically

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Revision 1780 - Directory Listing
Modified Thu Sep 11 04:42:15 2008 UTC (14 years, 6 months ago) by artak
Original Path: trunk

Now works with block size 2 and 3 as well

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Revision 1778 - Directory Listing
Modified Tue Sep 9 07:46:02 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

memry leak fixed

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Revision 1777 - Directory Listing
Modified Tue Sep 9 06:39:37 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Implemented Lutz fix for MPI mesh dump/load using NetCDF

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Revision 1776 - Directory Listing
Modified Tue Sep 9 06:03:53 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Cleared away some debugging prints

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Revision 1774 - Directory Listing
Modified Tue Sep 9 03:50:45 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

bug: unitialized values

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Revision 1772 - Directory Listing
Modified Tue Sep 9 00:18:49 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Added tests for reading a finley mesh and comparing it to a newly-created
mesh of the same type

Moved my mesh comparison function to be a class method

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Revision 1771 - Directory Listing
Modified Mon Sep 8 22:47:55 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Removed failing test until we fix a bug.
Fixed several compiler warnings.

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Revision 1770 - Directory Listing
Modified Mon Sep 8 06:58:47 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Detects an array reference out of bounds when running run_inputOutput.py

---

Revision 1769 - Directory Listing
Modified Mon Sep 8 04:34:33 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

test commit

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Revision 1768 - Directory Listing
Modified Mon Sep 8 04:32:19 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

ld_lib_path had a path listed twice...removed one

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Revision 1767 - Directory Listing
Modified Mon Sep 8 02:53:50 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

print statements removed

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Revision 1766 - Directory Listing
Modified Mon Sep 8 02:51:14 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

code formatting

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Revision 1765 - Directory Listing
Modified Mon Sep 8 02:49:57 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

some fixes for the case of empty processor

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Revision 1764 - Directory Listing
Modified Mon Sep 8 02:48:26 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

type for the non mpi case fixed.

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Revision 1763 - Directory Listing
Modified Mon Sep 8 02:47:55 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

more code formatting

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Revision 1762 - Directory Listing
Modified Mon Sep 8 02:42:39 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

some formatting

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Revision 1761 - Directory Listing
Modified Mon Sep 8 02:36:47 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

using MPI_Init_thread rather than MPI_Init to clarify the usage with mpi

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Revision 1760 - Directory Listing
Modified Mon Sep 8 02:35:56 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

some renaming of variables to clarify what is going on

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Revision 1759 - Directory Listing
Modified Mon Sep 8 02:31:22 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

MPI version plus some openmp optimization

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Revision 1758 - Directory Listing
Modified Mon Sep 8 02:29:33 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

uses now memcpy rather than for loop

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Revision 1757 - Directory Listing
Modified Mon Sep 8 02:28:38 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

no ifdef _OPENMP required

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Revision 1756 - Directory Listing
Modified Mon Sep 8 01:45:46 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

First version of a wrapper script that sets LD_LIBRARY_PATH and PYTHONPATH

Not yet ready for general use

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Revision 1755 - Directory Listing
Modified Mon Sep 8 01:34:40 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Added new field to NetCDF dump of mesh

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Revision 1754 - Directory Listing
Modified Sun Sep 7 22:07:26 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Added new test suite run_inputOutput.py to systematically test I/O.
Can determine if two domains are same with Fourier analysis.
Added new method getNumDataPointsGlobal to return number of DPs of a distributed mesh.
Reading of tags in ReadMeshMPI failed occasionally, should be more robust now.

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Revision 1753 - Directory Listing
Modified Sun Sep 7 22:01:23 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

Test suite fails due to missing arg in call to Finley_Mesh_createMappings.
Added NULL arg, but still need to find proper fix as loadMesh does not work.

Adjusted SConstruct to delete pythonMPI if not compiled for MPI.

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Revision 1750 - Directory Listing
Modified Wed Sep 3 23:09:29 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

small bug fixed

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Revision 1749 - Directory Listing
Modified Wed Sep 3 07:25:01 2008 UTC (14 years, 6 months ago) by gross
Original Path: trunk

fixes a problem with the saveVTK writing under mpi

---

Revision 1748 - Directory Listing
Modified Wed Sep 3 06:10:39 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

MPI parallelism for Data().dump and load.  Use multiple NetCDF
files, one file per MPI process

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Revision 1746 - Directory Listing
Modified Wed Sep 3 01:24:16 2008 UTC (14 years, 6 months ago) by lgraham
Original Path: trunk

Corrected plus (+) sign in Equation (2.54) for elastic tensor, and (2.60) for von Mises stress.

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Revision 1745 - Directory Listing
Modified Wed Sep 3 00:41:24 2008 UTC (14 years, 6 months ago) by ksteube
Original Path: trunk

MPI mesh_read was crashing if tags not present

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Revision 1744 - Directory Listing
Modified Tue Sep 2 07:39:18 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Can now read and MPI distribute a finley mesh including the tags.

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Revision 1743 - Directory Listing
Modified Tue Sep 2 00:54:05 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Avoid crash due to zero-length writes in MPI_File_write_ordered.
Write a space instead of empty string.
The space will be at the end of a line and cause no problem.

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Revision 1742 - Directory Listing
Modified Mon Sep 1 05:55:00 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

tests for VTK writer rec9 and Hex27 added

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Revision 1741 - Directory Listing
Modified Mon Sep 1 04:06:41 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

VTK writer supports HEX27 and REC9 now.

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Revision 1740 - Directory Listing
Modified Fri Aug 29 06:23:11 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

and some fixes for the GMSH reader

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Revision 1739 - Directory Listing
Modified Fri Aug 29 06:19:53 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

Fix in the MPI mesh reader: Owner need to be set.

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Revision 1738 - Directory Listing
Modified Fri Aug 29 05:06:45 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

some changes improving the robustness for MPI if the elements/processor is small

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Revision 1737 - Directory Listing
Modified Fri Aug 29 03:01:29 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

the MaskFromBoundaryTag function didn't make much sense. The argument function_space is replaced by domain.

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Revision 1736 - Directory Listing
Modified Fri Aug 29 02:23:16 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

This fixes a problem which is typically arising when using reduced order
with MPI and a "small" number of elements per processor. In this case it
can happen that the couple matrix is not using all entries sent to the
processor. The old implementations assumed that the indices will cover
the entire input. This assumption has been removed.

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Revision 1735 - Directory Listing
Modified Fri Aug 29 00:18:26 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

This fixes a bug in the callculation of communication tables in
particular for the data to be send away. The problem was that the
previously used method based on the idea to use the elements stored on a
processor to decide what to send away is not suitable for the reduced
DOF. Now each processor sends a list of the DOFs it is expecting to its
naighbours. 

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Revision 1733 - Directory Listing
Modified Thu Aug 28 01:46:07 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

bug fix: if the numer of elements to be generated suppose to be zero
still face elements and nodes are generated. this is fixed now.

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Revision 1732 - Directory Listing
Modified Wed Aug 27 05:47:03 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

MPI read of finley mesh file working except for a bug related to mesh_prepare

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Revision 1731 - Directory Listing
Modified Wed Aug 27 03:11:24 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Updated "assumed modules" in scons/cognac_options.py

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Revision 1729 - Directory Listing
Modified Tue Aug 26 06:48:40 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Added prefix/lib go LD_LIBRARY_PATH

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Revision 1728 - Directory Listing
Modified Tue Aug 26 05:15:32 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Minor update to configuration for cognac

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Revision 1727 - Directory Listing
Modified Tue Aug 26 04:19:27 2008 UTC (14 years, 7 months ago) by artak
Original Path: trunk

numarray.dot in MAC has a bug, so if it is possible use numpy.dot instead in Point.isColoacted()

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Revision 1725 - Directory Listing
Modified Tue Aug 26 03:31:49 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

MPI read of .fly mesh file: fixed bug in message size while fanning out elements

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Revision 1723 - Directory Listing
Modified Fri Aug 22 04:24:19 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

some unnecessary code removed.

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Revision 1722 - Directory Listing
Modified Fri Aug 22 04:20:30 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

The CSR matrix patters handed ober to ParMetis may not containn the main diagonal entry. 
This revisison is fixing the problem.

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Revision 1720 - Directory Listing
Modified Fri Aug 22 00:24:35 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

PARAMETIS macro renamed to USE_PARAMETIS as set by scons

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Revision 1719 - Directory Listing
Modified Thu Aug 21 06:24:29 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

robust function to normalize data object added

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Revision 1718 - Directory Listing
Modified Thu Aug 21 05:50:11 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

method returning reference id added to FunctionSpace class

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Revision 1717 - Directory Listing
Modified Thu Aug 21 05:24:35 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

function to calculate value closest to given value added

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Revision 1716 - Directory Listing
Modified Thu Aug 21 05:03:49 2008 UTC (14 years, 7 months ago) by gross
Original Path: trunk

getListOfTags method added to FunctionSpace class

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Revision 1713 - Directory Listing
Modified Wed Aug 20 07:03:45 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

MPI read of mesh.fly: reduced memory requirements

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Revision 1711 - Directory Listing
Modified Tue Aug 19 03:37:25 2008 UTC (14 years, 7 months ago) by artak
Original Path: trunk

minor

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Revision 1709 - Directory Listing
Modified Fri Aug 15 01:09:45 2008 UTC (14 years, 7 months ago) by lgraham
Original Path: trunk

added separate section for Einstein notation

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Revision 1708 - Directory Listing
Modified Thu Aug 14 22:42:24 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Added newline at end of file TFQMR.c because it is an error for icc.
Turned useumfpack off by default.

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Revision 1707 - Directory Listing
Modified Thu Aug 14 06:38:14 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Fixed nightly tests for savanna (no longer running in PBS cause can't
compile on compute node).
Modified domain.print_mesh_info() to tell how many elements are owned by
a node and how many are in the overlap.
Instrumented the preconditioner step.

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Revision 1706 - Directory Listing
Modified Thu Aug 14 06:09:50 2008 UTC (14 years, 7 months ago) by artak
Original Path: trunk

some problems with C90 compiler fixed

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Revision 1705 - Directory Listing
Modified Thu Aug 14 05:56:40 2008 UTC (14 years, 7 months ago) by ksteube
Original Path: trunk

Branch scons-dev is hereby closed.
Some parts of scons scripts have been re-written.

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Revision 1703 - Directory Listing
Modified Thu Aug 14 05:34:25 2008 UTC (14 years, 7 months ago) by artak
Original Path: trunk

TFQMR solver is added to PASO solver. It is not parallelised yet.

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Revision 1702 - Directory Listing
Modified Thu Aug 14 04:10:23 2008 UTC (14 years, 7 months ago) by lgraham
Original Path: trunk

added in latex file for models chapter

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Revision 1701 - Directory Listing
Modified Thu Aug 14 04:05:15 2008 UTC (14 years, 7 months ago) by lgraham
Original Path: trunk

comments for rev 1700.
Ran through spell checker for tutorial chapters.
Added in a tutorial chapter introducing the level set method with the Rayleigh-Taylor instability problem. Need to add python code at a later date for level set class.
Started to write up a chapter on model classes, e.g. StokesProblemCartesian, LevelSet, DurckerPrager, and TemperatureCartesian etc.
  

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Revision 1700 - Directory Listing
Modified Thu Aug 14 03:35:46 2008 UTC (14 years, 7 months ago) by lgraham
Original Path: trunk

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Revision 1695 - Directory Listing
Modified Fri Aug 8 04:28:28 2008 UTC (14 years, 7 months ago) by artak
Original Path: trunk

test_NoPDE_vector_variable is changed to avoid 0/0 division

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Revision 1694 - Directory Listing
Modified Fri Aug 8 04:27:46 2008 UTC (14 years, 7 months ago) by artak
Original Path: trunk

test_NoPDE_vector_variable is changed to avoid 0/0 division

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Revision 1693 - Directory Listing
Modified Fri Aug 8 04:22:58 2008 UTC (14 years, 7 months ago) by jfenwick
Original Path: trunk

Modified toString() on Data objects.
str(x) or print x will now print a summary of the data rather than all 
the points if the output would take more than 80 lines.

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Revision 1692 - Directory Listing
Modified Thu Aug 7 23:05:37 2008 UTC (14 years, 7 months ago) by artak
Original Path: trunk

working configuration

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Revision 1690 - Directory Listing
Modified Thu Aug 7 01:12:38 2008 UTC (14 years, 7 months ago) by jfenwick
Original Path: trunk

Added Configuration for shake63 (Joel-Box)

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Revision 1679 - Directory Listing
Modified Wed Jul 30 00:09:12 2008 UTC (14 years, 8 months ago) by artak
Original Path: trunk

now convection works for other solvers as well, besides PCG.

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Revision 1677 - Directory Listing
Modified Mon Jul 28 06:36:19 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

bug in the MPI version of saveVTK fixed

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Revision 1674 - Directory Listing
Modified Fri Jul 25 00:47:16 2008 UTC (14 years, 8 months ago) by artak
Original Path: trunk

Command line options (-e NE and -s solver ) are added

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Revision 1673 - Directory Listing
Modified Thu Jul 24 22:28:50 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

more algorithms for level set

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Revision 1670 - Directory Listing
Modified Thu Jul 24 04:30:43 2008 UTC (14 years, 8 months ago) by ksteube
Original Path: trunk

Fix variable declaration to compile under MPI

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Revision 1669 - Directory Listing
Modified Thu Jul 24 01:10:04 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

A problem with VTK writer and MPI is fixed: Apparently MPI_file_open does not "delete" the file  which has the effect that 
if less date are written into the file as the file contained when opened bits of the previous containt remains in the file. This problem is fixed
by deleting the file if it exists before open it with MPI. The additional function Paso_existFile needed to be added as there is no standart C 
function to test the exists of a file.

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Revision 1666 - Directory Listing
Modified Wed Jul 23 04:44:30 2008 UTC (14 years, 8 months ago) by ksteube
Original Path: trunk

Removed unused software bruce

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Revision 1665 - Directory Listing
Modified Wed Jul 23 03:23:03 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

bug in the MPI version of saveVTK fixed

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Revision 1664 - Directory Listing
Modified Tue Jul 22 03:41:38 2008 UTC (14 years, 8 months ago) by ksteube
Original Path: trunk

Install() on Mac OS was naming shared libs file.dylib...not OK for our
libraries for python calling C++ (escriptcpp.so and finleycpp.so).
This is because python's dlopen() calls only look for .so files.

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Revision 1663 - Directory Listing
Modified Tue Jul 22 02:56:21 2008 UTC (14 years, 8 months ago) by artak
Original Path: trunk

-pedantic_errors commented for compiling in MAC OS X

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Revision 1662 - Directory Listing
Modified Tue Jul 22 01:49:21 2008 UTC (14 years, 8 months ago) by ksteube
Original Path: trunk

Ran a simple Escript program on Mac OS Darwin. Still much to do.

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Revision 1661 - Directory Listing
Modified Mon Jul 21 22:08:27 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

some improvements on level set

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Revision 1660 - Directory Listing
Modified Mon Jul 21 03:23:46 2008 UTC (14 years, 8 months ago) by ksteube
Original Path: trunk

Some variables were not declared as a result of recent cleanup

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Revision 1659 - Directory Listing
Modified Fri Jul 18 02:28:13 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

some first version of a robust level set

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Revision 1651 - Directory Listing
Modified Tue Jul 15 09:33:48 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Altix:

remove remaining warnings involving printf's and functions not returning values.
Only warnings left are in boost, and warnings that optimisation is turned off on big files.

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Revision 1650 - Directory Listing
Modified Tue Jul 15 08:58:22 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

more care with m_t and diagS needed in the pragmas.

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Revision 1649 - Directory Listing
Modified Tue Jul 15 08:41:02 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Make operator=() on exception non-virtual. Should silence the Altix compiler.
However, if an exception is cast to another parent type, and
operator=() is called when the exception so cast is an l-value in the assignment,
an "incomplete" assignment will occur, copying only the parent class members of the 
l-value in the assignmnet.

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Revision 1648 - Directory Listing
Modified Tue Jul 15 08:01:03 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Remove -c99 option on compiler, no longer needed.

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Revision 1646 - Directory Listing
Modified Tue Jul 15 05:27:39 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Unused vars due to the #if 0's in the code.

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Revision 1645 - Directory Listing
Modified Tue Jul 15 05:26:38 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

unused vars.

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Revision 1644 - Directory Listing
Modified Tue Jul 15 05:25:32 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

tmp_str was unused var on windows.

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Revision 1643 - Directory Listing
Modified Tue Jul 15 05:24:14 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Missing include file. A

ssume that a NULL F passed to Paso_FunctionCall() is an error.

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Revision 1642 - Directory Listing
Modified Tue Jul 15 05:21:57 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

make the 1st arg of the ...._call(const double alpha,....
consistent between the .h and .c file. The const is not really needed.

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Revision 1639 - Directory Listing
Modified Mon Jul 14 08:55:25 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

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Revision 1638 - Directory Listing
Modified Mon Jul 14 05:47:20 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Fake checkin to see if my identity is correct now.

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Revision 1637 - Directory Listing
Modified Mon Jul 14 05:34:59 2008 UTC (14 years, 8 months ago) by ksteube
Original Path: trunk

Resolved some compiler warnings
Changed blocktimer to not use strdup, intead malloc and strcpy

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Revision 1636 - Directory Listing
Modified Mon Jul 14 03:40:22 2008 UTC (14 years, 8 months ago) by trankine
Original Path: trunk

somehow, this was not correctly merged from the branch??

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Revision 1635 - Directory Listing
Modified Sat Jul 12 10:00:50 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Last commit hung. Trying to recover. Also, remove excessive extern C {} I introduced

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Revision 1634 - Directory Listing
Modified Sat Jul 12 09:08:33 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

linux_gcc_eg_options.py:
remove the std99 option, it is no longer needed as the code compiles without
C 1999 extension (need for these extensions elinminated in windows port).
Turn on all warnings except unknown pragmas. Should catch a lot of stuff.

SConstruct:
Impassioned plea

system_dep.h:
Add the standard incantation for dealing with const declarations
in C code called from C and C++

blocktimer:
Get the calling interface right for C code called from C and C++
and use __const as defined in system_dep.h
(Should be re-factored into compiler_dep.h file).

MeshAdapterFactory.cpp:
Since we have (effectively) no control over netCDF policy,
cast const char *'s to char *'s

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Revision 1633 - Directory Listing
Modified Sat Jul 12 07:45:17 2008 UTC (14 years, 8 months ago) by trankine
Original Path: trunk

Turn on netcdf in windows build. No new errors generated.... remarkable.

The correctly configured netCDF source and windows build config.
that matches enthought python25/vtk/PmdPyRT for windows, can be
obtained from

https://cgsrv1.arrc.csiro.au/subversion/swframeutils/thirdParty/netcdf/trunk

username & password needed. If you have access to our twiki, no new username is required,
but authorisation to read the repository will be required.

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Revision 1632 - Directory Listing
Modified Sat Jul 12 07:17:50 2008 UTC (14 years, 8 months ago) by trankine
Original Path: trunk

compiling with netcdf on revealed an unused var.

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Revision 1631 - Directory Listing
Modified Sat Jul 12 07:16:39 2008 UTC (14 years, 8 months ago) by trankine
Original Path: trunk

eliminate unused var argument of catch statement.

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Revision 1630 - Directory Listing
Modified Sat Jul 12 07:15:32 2008 UTC (14 years, 8 months ago) by trankine
Original Path: trunk

Merge resulted in double declaration.

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Revision 1629 - Directory Listing
Modified Sat Jul 12 05:16:32 2008 UTC (14 years, 8 months ago) by trankine
Original Path: trunk

This is a fake checkin to notify that the trunk passes its tests on windows except for known problems in pycad.

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Revision 1628 - Directory Listing
Modified Fri Jul 11 13:12:46 2008 UTC (14 years, 8 months ago) by phornby
Original Path: trunk

Merge in /branches/windows_from_1456_trunk_1620_merged_in branch.

You will find a preserved pre-merge trunk in tags under tags/trunk_at_1625.
That will be useful for diffing & checking on my stupidity.

Here is a list of the conflicts and their resolution at this
point in time.


=================================================================================
(LLWS == looks like white space).

finley/src/Assemble_addToSystemMatrix.c - resolve to branch - unused var. may be wrong.....
finley/src/CPPAdapter/SystemMatrixAdapter.cpp - resolve to branch - LLWS
finley/src/CPPAdapter/MeshAdapter.cpp - resolve to branch - LLWS
paso/src/PCG.c - resolve to branch - unused var fixes.
paso/src/SolverFCT.c - resolve to branch - LLWS
paso/src/FGMRES.c - resolve to branch - LLWS
paso/src/Common.h - resolve to trunk version. It's omp.h's include... not sure it's needed,
but for the sake of saftey.....
paso/src/Functions.c - resolve to branch version, indentation/tab removal and return error
on bad unimplemented Paso_FunctionCall.
paso/src/SolverFCT_solve.c - resolve to branch version, unused vars
paso/src/SparseMatrix_MatrixVector.c - resolve to branch version, unused vars.
escript/src/Utils.cpp - resloved to branch, needs WinSock2.h
escript/src/DataExpanded.cpp - resolved to branch version - LLWS
escript/src/DataFactory.cpp - resolve to branch version
=================================================================================

This currently passes tests on linux (debian), but is not checked on windows or Altix yet.

This checkin is to make a trunk I can check out for windows to do tests on it.

Known outstanding problem is in the operator=() method of exceptions
causing warning messages on the intel compilers.

May the God of doughnuts have mercy on my soul.

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Revision 1625 - Directory Listing
Modified Thu Jul 10 23:55:31 2008 UTC (14 years, 8 months ago) by gross
Original Path: trunk

interpolate accepts now float and numarray as argument

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Revision 1620 - Directory Listing
Modified Fri Jun 27 02:30:18 2008 UTC (14 years, 9 months ago) by ksteube
Original Path: trunk

Included more MPI configuration options on Savanna

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Revision 1619 - Directory Listing
Modified Wed Jun 25 01:18:36 2008 UTC (14 years, 9 months ago) by ksteube
Original Path: trunk

Documentation nightly builds now working again

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Revision 1618 - Directory Listing
Modified Tue Jun 24 01:16:40 2008 UTC (14 years, 9 months ago) by ksteube
Original Path: trunk

Trying to get documentation builds going again after reinstalling my desktop OS

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Revision 1579 - Directory Listing
Modified Mon Jun 2 08:48:36 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

Fix typo in PCG.c
Improvement of build options for Savanna, ac.apac.edu, shake71

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Revision 1574 - Directory Listing
Modified Mon May 26 13:59:58 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some modifications that may help to speed up compilation

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Revision 1573 - Directory Listing
Modified Mon May 26 13:01:31 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some modifications to run less tests

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Revision 1572 - Directory Listing
Modified Mon May 26 12:50:56 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some openmp problems in PCG fixed.

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Revision 1571 - Directory Listing
Modified Sat May 24 22:28:33 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

fixes for OPenmp but PCG still does not work under openmp

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Revision 1570 - Directory Listing
Modified Sat May 24 21:31:04 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

modifications to PCG to support dynamic scheduling

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Revision 1569 - Directory Listing
Modified Sat May 24 04:51:38 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

Config for new installation at APAC with offscreen rendering

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Revision 1568 - Directory Listing
Modified Sat May 24 03:15:08 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

Some testing on ac.apac.edu.au, more work needed
New pyvisi example offscreen.py for offscreen rendering

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Revision 1567 - Directory Listing
Modified Thu May 22 22:52:41 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

scons all_tests passes on Savanna with OMP=1 and OMP=4.
New boost for Savanna.
A few more cases of #s -> %s.

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Revision 1566 - Directory Listing
Modified Thu May 22 12:07:35 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some changes to chunk test

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Revision 1565 - Directory Listing
Modified Thu May 22 10:19:47 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some small fixes for openmp

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Revision 1564 - Directory Listing
Modified Thu May 22 09:31:33 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some openmp dynamic scheduling for MVM.

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Revision 1563 - Directory Listing
Modified Wed May 21 15:27:34 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

Some stuff added to make the FCT solver work with Dirichlet Boundary conditions for MPI. 
and a memory leak in the coupler fixed.

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Revision 1562 - Directory Listing
Modified Wed May 21 13:04:40 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

The algebraic upwinding with MPI. The case of boundary constraint needs still some attention. 

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Revision 1561 - Directory Listing
Modified Wed May 21 06:58:52 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

Added python method printParallelThreadCounts() to tell how many MPI CPUs and OpenMP threads we are using (for testing hybrid runs)

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Revision 1560 - Directory Listing
Modified Wed May 21 05:55:30 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

Improvements to Savanna configuration

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Revision 1559 - Directory Listing
Modified Wed May 21 04:27:15 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

Compiles and runs on Savanna (hostname service0)

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Revision 1557 - Directory Listing
Modified Mon May 19 04:44:27 2008 UTC (14 years, 10 months ago) by artak
Original Path: trunk

some changes to ArithmenticTuple class

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Revision 1556 - Directory Listing
Modified Mon May 12 00:54:58 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

Modification to allow mixed mode execution. 
In order to keep the code portable accross platform all MPI calls within
parallel regions have been moved. 

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Revision 1555 - Directory Listing
Modified Mon May 12 00:32:08 2008 UTC (14 years, 10 months ago) by ksteube
Original Path: trunk

Adjusted vantage point

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Revision 1554 - Directory Listing
Modified Fri May 9 02:50:49 2008 UTC (14 years, 10 months ago) by artak
Original Path: trunk

minor changes

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Revision 1553 - Directory Listing
Modified Thu May 8 09:38:07 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some small bugs fixed to get MPI going with the modification. MPI version of BiCGStab added.

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Revision 1552 - Directory Listing
Modified Thu May 8 08:52:41 2008 UTC (14 years, 10 months ago) by gross
Original Path: trunk

some changes to make the implementatiopn of a upwind MPI version easier

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Revision 1551 - Directory Listing
Modified Wed May 7 23:11:44 2008 UTC (14 years, 10 months ago) by artak
Original Path: trunk

RILU canged to ILU0 to fix today's test failure

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Revision 1550 - Directory Listing
Modified Wed May 7 02:22:57 2008 UTC (14 years, 10 months ago) by artak
Original Path: trunk

coupled method is added, but it's still not working

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Revision 1543 - Directory Listing
Modified Wed Apr 30 23:21:27 2008 UTC (14 years, 11 months ago) by ksteube
Original Path: trunk

Create an MPEG movie from the state.N.vtu files of convection.py using pyvisi

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Revision 1542 - Directory Listing
Modified Wed Apr 30 03:40:15 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

#s and #e replaced by %s and %e 

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Revision 1541 - Directory Listing
Modified Wed Apr 30 02:05:29 2008 UTC (14 years, 11 months ago) by ksteube
Original Path: trunk

Changed #s to %s in print

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Revision 1527 - Directory Listing
Modified Tue Apr 29 00:52:01 2008 UTC (14 years, 11 months ago) by ksteube
Original Path: trunk

Changed from printing doubles with %s to %e

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Revision 1524 - Directory Listing
Modified Wed Apr 23 05:31:54 2008 UTC (14 years, 11 months ago) by phornby
Original Path: trunk

replace

abs -> fabs.

Shoot me an e-mail if this is the wrong thing.

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Revision 1519 - Directory Listing
Modified Tue Apr 22 03:45:36 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

Initial version of NewtonGMRES solver. Still to do: 1. The atol and rtol define globally. 2. Decide about N 

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Revision 1518 - Directory Listing
Modified Fri Apr 18 05:47:52 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

Test are created for MINRES and TFQMR methods

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Revision 1517 - Directory Listing
Modified Fri Apr 18 02:36:37 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

stopping criteriums are combined for GMRES,MINRES and TFQMR in stoppingcriterium2

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Revision 1516 - Directory Listing
Modified Fri Apr 18 01:02:25 2008 UTC (14 years, 11 months ago) by ksteube
Original Path: trunk

Reduced L and changed Arenious from 22.0 to 0.0

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Revision 1515 - Directory Listing
Modified Thu Apr 17 23:36:31 2008 UTC (14 years, 11 months ago) by ksteube
Original Path: trunk

Change to 3-D and change viscosity

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Revision 1514 - Directory Listing
Modified Wed Apr 16 00:15:44 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

default input parameter iter_restart for GMRES is set to 20

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Revision 1513 - Directory Listing
Modified Tue Apr 15 08:47:57 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

pragma ivdep removed. icc produced wrong code.

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Revision 1512 - Directory Listing
Modified Tue Apr 15 00:54:25 2008 UTC (14 years, 11 months ago) by ksteube
Original Path: trunk

Some typos

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Revision 1511 - Directory Listing
Modified Mon Apr 14 23:09:38 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

some fixes of compiler complains under windows

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Revision 1494 - Directory Listing
Modified Mon Apr 14 06:53:28 2008 UTC (14 years, 11 months ago) by phornby
Original Path: trunk

Make this exactly the same as the run_linearPDEsOnFinley.py.trunk_version on the windows
port branch.
Makes merge easier later.

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Revision 1489 - Directory Listing
Modified Mon Apr 14 04:29:30 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

Initial version of TFQMR method

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Revision 1488 - Directory Listing
Modified Fri Apr 11 00:22:31 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

restart parameter is changed in GMRES(m)

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Revision 1487 - Directory Listing
Modified Thu Apr 10 05:28:01 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

reordering when reading Netcfd files added.

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Revision 1486 - Directory Listing
Modified Thu Apr 10 00:10:50 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

minor

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Revision 1485 - Directory Listing
Modified Wed Apr 9 04:13:09 2008 UTC (14 years, 11 months ago) by ksteube
Original Path: trunk

Removed semicolons from #pragma omp

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Revision 1484 - Directory Listing
Modified Wed Apr 9 03:25:53 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

minor: PCG set as default solver

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Revision 1483 - Directory Listing
Modified Wed Apr 9 03:20:00 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

command line input parameters manipulation and execution time calculation are added

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Revision 1482 - Directory Listing
Modified Wed Apr 9 02:29:47 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

inital x taken into account in MINRES algorithm

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Revision 1481 - Directory Listing
Modified Wed Apr 9 00:45:47 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

initial version of MINRES algorithm

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Revision 1480 - Directory Listing
Modified Tue Apr 8 02:02:48 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

Unil.h header is added

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Revision 1479 - Directory Listing
Modified Tue Apr 8 02:02:25 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

Unil.h header is added

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Revision 1478 - Directory Listing
Modified Tue Apr 8 01:53:33 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

some more header file fixing

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Revision 1477 - Directory Listing
Modified Tue Apr 8 01:50:17 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

missing header file included

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Revision 1476 - Directory Listing
Modified Mon Apr 7 23:38:50 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

Jacobian-free Newton method added to Paso

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Revision 1475 - Directory Listing
Modified Mon Apr 7 05:13:21 2008 UTC (14 years, 11 months ago) by artak
Original Path: trunk

Initial version of GMRES with restart

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Revision 1474 - Directory Listing
Modified Mon Apr 7 01:27:01 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

restart is supported now.

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Revision 1473 - Directory Listing
Modified Fri Apr 4 07:49:18 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

initial checkin for level set

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Revision 1472 - Directory Listing
Modified Thu Apr 3 09:07:07 2008 UTC (14 years, 11 months ago) by gross
Original Path: trunk

some first steps towards restart added

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Revision 1471 - Directory Listing
Modified Thu Apr 3 05:19:06 2008 UTC (15 years ago) by gross
Original Path: trunk

test for GMRES solver for Stokes problem added

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Revision 1470 - Directory Listing
Modified Thu Apr 3 05:17:54 2008 UTC (15 years ago) by gross
Original Path: trunk

bug in pressure definition fixed

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Revision 1469 - Directory Listing
Modified Thu Apr 3 05:16:56 2008 UTC (15 years ago) by gross
Original Path: trunk

additional stopping criterion added

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Revision 1468 - Directory Listing
Modified Thu Apr 3 04:14:48 2008 UTC (15 years ago) by gross
Original Path: trunk

test for GMRES added

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Revision 1467 - Directory Listing
Modified Wed Apr 2 08:10:37 2008 UTC (15 years ago) by gross
Original Path: trunk

a bit of reengineering.

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Revision 1466 - Directory Listing
Modified Wed Apr 2 03:33:43 2008 UTC (15 years ago) by artak
Original Path: trunk

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Revision 1465 - Directory Listing
Modified Wed Apr 2 03:28:25 2008 UTC (15 years ago) by artak
Original Path: trunk

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Revision 1464 - Directory Listing
Modified Tue Apr 1 23:27:09 2008 UTC (15 years ago) by gross
Original Path: trunk

bug for interpoltion from reduced solution to elements in MPI fixed.

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Revision 1463 - Directory Listing
Modified Tue Apr 1 05:20:57 2008 UTC (15 years ago) by gross
Original Path: trunk

a better convection code

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Revision 1459 - Directory Listing
Modified Thu Mar 27 01:49:10 2008 UTC (15 years ago) by ksteube
Original Path: trunk

Implemented ParMETIS for mesh partition optimization under MPI.
Documented optimize=True in User Guide for Brick() and Rectangle().

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Revision 1458 - Directory Listing
Modified Mon Mar 3 23:42:06 2008 UTC (15 years ago) by ksteube
Original Path: trunk

Added config file for virtual machine with hostname 'vm_system'

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Revision 1456 - Directory Listing
Modified Thu Feb 28 17:20:49 2008 UTC (15 years, 1 month ago) by phornby
Original Path: trunk

Clean up some debugging files from the branch merge.

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Revision 1455 - Directory Listing
Modified Thu Feb 28 17:19:44 2008 UTC (15 years, 1 month ago) by phornby
Original Path: trunk

Merge of branches/windows_from_1431_trunk.

Revamp of the exception system.
Fix unused vars and signed/unsigned comparisons.
defined a macro THROW(ARG) in the system_dep.h's to
deal with the expectations of declarations on different architectures.

Details in the logs of branches/windows_from_1431_trunk.

pre-merge snapshot of the trunk in tags/trunk_at_1452

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Revision 1431 - Directory Listing
Modified Wed Feb 27 09:52:25 2008 UTC (15 years, 1 month ago) by trankine
Original Path: trunk

This trunk now compiles and links under windows.
It passes the FunctionSpace.__str__() test 50000 times on windows.
It fails scons run_tests and scons_py_tests as it always did, but I have an idea why.

Please remember to add the appropriate dll linkage info to declarations that are to be visible outside a .so or .dll. Terry (BTW, PGH here) spent a lot of hacks clearing out blocktimer from the rest of the code when these 5 or 6 lines would have done the trick.

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Revision 1430 - Directory Listing
Modified Wed Feb 27 09:07:19 2008 UTC (15 years, 1 month ago) by trankine
Original Path: trunk

Get the windows dll linkage right fo C_TensorBinaryOperation

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Revision 1429 - Directory Listing
Modified Wed Feb 27 08:53:20 2008 UTC (15 years, 1 month ago) by trankine
Original Path: trunk

"and" and "or" are not C or C++ boolean operations.

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Revision 1428 - Directory Listing
Modified Wed Feb 27 08:07:11 2008 UTC (15 years, 1 month ago) by trankine
Original Path: trunk

Merge changes from windows port branch to test build on *nix not broken.

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Revision 1427 - Directory Listing
Modified Wed Feb 27 07:54:48 2008 UTC (15 years, 1 month ago) by trankine
Original Path: trunk

brought from the windows port branch. Should make no difference to *nix's

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Revision 1426 - Directory Listing
Modified Wed Feb 27 06:12:15 2008 UTC (15 years, 1 month ago) by trankine
Original Path: trunk

Merge the changes to these few files with the windows port branch to test just these changes under linux and altix.

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Revision 1425 - Directory Listing
Modified Wed Feb 27 06:12:04 2008 UTC (15 years, 1 month ago) by artak
Original Path: trunk

Added new test for BiCGStab in run_simplesolve.py
algorithmic change in BICGSTAB: from r=r-wt to r=s-wt

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Revision 1423 - Directory Listing
Modified Wed Feb 27 04:28:48 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

interpoilation inserted

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Revision 1417 - Directory Listing
Modified Mon Feb 25 04:45:48 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

some more work on the transport solver.

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Revision 1416 - Directory Listing
Modified Mon Feb 25 03:56:17 2008 UTC (15 years, 1 month ago) by ksteube
Original Path: trunk

Set version number to 0 in case it's empty.

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Revision 1415 - Directory Listing
Modified Thu Feb 21 04:57:17 2008 UTC (15 years, 1 month ago) by ksteube
Original Path: trunk

Recent fixes have remedied problems with running OpenMP/MPI mixed mode programming.

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Revision 1414 - Directory Listing
Modified Thu Feb 14 10:01:43 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

a first verion of a Stokes solver

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Revision 1413 - Directory Listing
Modified Sun Feb 10 08:45:37 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

bug effecting MPI fixed found while compiling with windows.

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Revision 1412 - Directory Listing
Modified Fri Feb 8 04:46:10 2008 UTC (15 years, 1 month ago) by ksteube
Original Path: trunk

Updated configuration for ac.apac.edu.au

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Revision 1411 - Directory Listing
Modified Thu Feb 7 08:09:15 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

second test for upwinding added

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Revision 1410 - Directory Listing
Modified Thu Feb 7 04:24:00 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

a new version of the algebric upwinding a. flux limiter

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Revision 1409 - Directory Listing
Modified Wed Feb 6 22:44:28 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

getTagNumber called the wrong corresponding FunctionSpace method. Results were wrong for number of data points per sample >1.

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Revision 1408 - Directory Listing
Modified Mon Feb 4 07:19:50 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

some problems with openmp fixed.

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Revision 1407 - Directory Listing
Modified Mon Feb 4 06:45:48 2008 UTC (15 years, 1 month ago) by gross
Original Path: trunk

new upwinding algorithm (still fails)

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Revision 1403 - Directory Listing
Modified Thu Jan 31 04:17:38 2008 UTC (15 years, 2 months ago) by ksteube
Original Path: trunk

Added configuration options for VM to give it access to NetCDF

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Revision 1402 - Directory Listing
Modified Thu Jan 31 00:17:49 2008 UTC (15 years, 2 months ago) by ksteube
Original Path: trunk

now implemented to read/fan out elements

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Revision 1401 - Directory Listing
Modified Fri Jan 25 04:31:18 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

rewrite antidiffusion calculation to avoid coloring for OPENMP parallelization

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Revision 1400 - Directory Listing
Modified Thu Jan 24 06:04:31 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

better test example for upwinding added

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Revision 1393 - Directory Listing
Modified Mon Jan 21 06:21:14 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

axissymmetric collaps added.

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Revision 1392 - Directory Listing
Modified Mon Jan 21 06:20:54 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

axissymmetric collaps added.

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Revision 1391 - Directory Listing
Modified Mon Jan 14 03:54:57 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

a waring is printed if the revision number could not be recovered.

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Revision 1390 - Directory Listing
Modified Mon Jan 14 03:46:11 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

typo fixed.

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Revision 1389 - Directory Listing
Modified Mon Jan 14 03:31:57 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

a hopefully more robust way of setting the revision number.

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Revision 1388 - Directory Listing
Modified Fri Jan 11 07:45:58 2008 UTC (15 years, 2 months ago) by trankine
Original Path: trunk
Copied from: temp revision 1387

And get the *(&(*&(* name right

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Revision 1387 - Directory Listing
Modified Fri Jan 11 07:45:26 2008 UTC (15 years, 2 months ago) by trankine
Original Path: temp
Copied from: temp_trunk_copy revision 1386

Restore the trunk that existed before the windows changes were committed to the (now moved to branches) old trunk.

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Revision 1384 - Directory Listing
Modified Fri Jan 11 02:29:38 2008 UTC (15 years, 2 months ago) by phornby
Original Path: temp_trunk_copy
Copied from: trunk revision 1383

Make a temp copy of the trunk before checking in the windows changes

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Revision 1383 - Directory Listing
Modified Thu Jan 10 06:48:28 2008 UTC (15 years, 2 months ago) by phornby
Original Path: trunk

Link to the latest boost.

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Revision 1382 - Directory Listing
Modified Thu Jan 10 00:21:22 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

some tests got deactivated. they are back now.

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Revision 1381 - Directory Listing
Modified Wed Jan 9 07:59:15 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

import sys missing

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Revision 1380 - Directory Listing
Modified Wed Jan 9 04:26:03 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

some info about the modules to be used

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Revision 1379 - Directory Listing
Modified Wed Jan 9 04:17:03 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

this seems to work on the cognac@ivec.org

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Revision 1378 - Directory Listing
Modified Wed Jan 9 03:53:38 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

new reference files considering the change in quadrature schemes

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Revision 1377 - Directory Listing
Modified Wed Jan 9 03:45:59 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

Some code was moved around to slow down the bustling intel compiler v10.

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Revision 1376 - Directory Listing
Modified Wed Jan 9 01:38:18 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

inserted sys.exit(1) into the tests so scons can detect the failure of the test. 
A similar statement has been removed from an earlier as it produces problems on 64bit Linux. Previously exit(0) was called in case of success but now this is not done in order to avoid a fatal end of the program. in the case of an error in the test there could be a fatal error so but I guess that this not really a problem.

PS: the fact that signal 0 was returned even for the case of an error lead to the illusion that all tests have been completed successfully.

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Revision 1375 - Directory Listing
Modified Wed Jan 9 00:15:05 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

bug in interpolation at reduced face elements fixed.

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Revision 1374 - Directory Listing
Modified Tue Jan 8 09:37:55 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

some changes to get things going on the cognac.ivec.org.

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Revision 1373 - Directory Listing
Modified Mon Jan 7 05:32:25 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

on ess: link against python 2.4.3 now.

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Revision 1372 - Directory Listing
Modified Thu Jan 3 06:30:47 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

some OMP related compile problems fixed.

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Revision 1371 - Directory Listing
Modified Thu Jan 3 06:11:21 2008 UTC (15 years, 2 months ago) by gross
Original Path: trunk

some bugs in the updwing scheme but there are still problem with the cross wind direction.

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Revision 1370 - Directory Listing
Modified Wed Jan 2 09:21:43 2008 UTC (15 years, 3 months ago) by gross
Original Path: trunk

explicit upwinding scheme added.

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Revision 1369 - Directory Listing
Modified Fri Dec 21 05:51:44 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

does something now!

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Revision 1368 - Directory Listing
Modified Wed Dec 19 03:45:20 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

very first step towards a pythn wrapper for the transport problem.

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Revision 1367 - Directory Listing
Modified Wed Dec 19 02:45:07 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

finley can now assemble a transport problem.

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Revision 1366 - Directory Listing
Modified Tue Dec 18 05:49:17 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

finley can create a TransportProblem now

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Revision 1365 - Directory Listing
Modified Mon Dec 17 07:28:23 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

some cosmetics.

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Revision 1364 - Directory Listing
Modified Mon Dec 17 07:22:45 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

finley interface to paso's transport solver added.

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Revision 1363 - Directory Listing
Modified Mon Dec 17 03:42:03 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

initialization for FCT solver added.

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Revision 1362 - Directory Listing
Modified Mon Dec 17 02:28:16 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

and more on FCT solver

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Revision 1361 - Directory Listing
Modified Fri Dec 14 09:26:51 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

first steps towards a flux controlled transport solver.

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Revision 1360 - Directory Listing
Modified Thu Dec 13 05:05:00 2007 UTC (15 years, 3 months ago) by ksteube
Original Path: trunk

Partial implementation of ReadMeshMPI.
Will eventually replace ReadMesh but for now has a different name.

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Revision 1359 - Directory Listing
Modified Wed Dec 5 03:42:09 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

debug print removed.

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Revision 1358 - Directory Listing
Modified Wed Dec 5 03:41:06 2007 UTC (15 years, 3 months ago) by gross
Original Path: trunk

setTaggedValue works now for expanded data.

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Revision 1357 - Directory Listing
Modified Thu Nov 29 08:39:32 2007 UTC (15 years, 4 months ago) by gross
Original Path: trunk

interplote function returns now argument if it has requested function space

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Revision 1356 - Directory Listing
Modified Thu Nov 29 05:48:33 2007 UTC (15 years, 4 months ago) by poulet
Original Path: trunk

* moved to python 2.4 to python 2.5

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Revision 1355 - Directory Listing
Modified Thu Nov 29 00:53:31 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

Test didn't compile on Windows due to lack of cast to double

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Revision 1354 - Directory Listing
Modified Wed Nov 28 02:23:30 2007 UTC (15 years, 4 months ago) by trankine
Original Path: trunk

* rm and touch are not valid windows commands - use the scons provided methods.

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Revision 1353 - Directory Listing
Modified Thu Nov 22 06:05:35 2007 UTC (15 years, 4 months ago) by matt
Original Path: trunk

Reversed the removal of blocktimer code. This needs to be fixed properly for
the Windows stuff to work.

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Revision 1352 - Directory Listing
Modified Thu Nov 22 03:43:28 2007 UTC (15 years, 4 months ago) by matt
Original Path: trunk

Removed blocktimer code from Finley_Assemble_PDE().

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Revision 1351 - Directory Listing
Modified Thu Nov 22 01:54:26 2007 UTC (15 years, 4 months ago) by matt
Original Path: trunk

Removed blocktimer code from gradOn().

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Revision 1350 - Directory Listing
Modified Thu Nov 22 01:17:20 2007 UTC (15 years, 4 months ago) by matt
Original Path: trunk

Disambiguation of more template argument parameters so that it compiles under Windows.

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Revision 1349 - Directory Listing
Modified Wed Nov 21 06:38:08 2007 UTC (15 years, 4 months ago) by matt
Original Path: trunk

Disambiguation of several template argument parameters so that it compiles under Windows.

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Revision 1348 - Directory Listing
Modified Mon Nov 19 00:21:36 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

If using MPI then disable OpenMP, because it doesn't work with both.
Record in trunk/lib what options we compiled with:
	OpenMP, MPI, debug, bounds_check

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Revision 1347 - Directory Listing
Modified Fri Nov 16 05:37:07 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

Completed mesh.dump(file) and mesh=LoadMesh(file) by adding TagMap and
implementing MPI parallelism.
Now allocating ElementFile for ContactElements even if there are none.
Removed file Mesh_dump.c since dump/loadMesh are in CPPAdapter/MeshAdapter*.cpp.

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Revision 1346 - Directory Listing
Modified Wed Nov 14 22:48:12 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

dump/LoadMesh methods work except for TagMap, Point elements probably OK but are untested.

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Revision 1345 - Directory Listing
Modified Wed Nov 14 07:53:34 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

Created LoadMesh to read a mesh from a distributed NetCDF file.
Can read nodes but not elements yet.

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Revision 1344 - Directory Listing
Modified Wed Nov 14 04:28:25 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

Now using TMPMEMFREE but still thrashes memory for very large mesh.
Future solution will be to use NetCDF subsetting and less temp memory.

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Revision 1343 - Directory Listing
Modified Wed Nov 14 02:48:02 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

First cut implementation of mesh.dump() using NetCDF.  TagMap not
saved yet.  The code for Points probably works but has not been tested.

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Revision 1342 - Directory Listing
Modified Thu Nov 8 23:56:58 2007 UTC (15 years, 4 months ago) by gross
Original Path: trunk

improvements on integration schemes for tets and tris: double precision (not all), higher orders

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Revision 1341 - Directory Listing
Modified Thu Nov 8 23:55:20 2007 UTC (15 years, 4 months ago) by gross
Original Path: trunk

tests for numerical integration added.

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Revision 1340 - Directory Listing
Modified Thu Nov 8 06:24:43 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

Fixed create a local labeling of the DOFs

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Revision 1339 - Directory Listing
Modified Wed Nov 7 01:53:12 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

Modified scons target release_src to include lib/ and include/ since
their presence is required for a build.  Modified
mydomain.print_mesh_info(True) to include more useful info about a
distributed domain.  Added mypde.getOperator().print_matrix_info(True)
to tell about a distributed matrix.

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Revision 1338 - Directory Listing
Modified Mon Nov 5 06:32:29 2007 UTC (15 years, 4 months ago) by gross
Original Path: trunk

bug in the selection of the order of the output mesh fixed.

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Revision 1337 - Directory Listing
Modified Sun Nov 4 23:57:11 2007 UTC (15 years, 4 months ago) by ksteube
Original Path: trunk

Generation of nightly docs failed through the weekend because the access
certificate had expired. I added a comment to tell how to remedy this problem.

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Revision 1336 - Directory Listing
Modified Fri Nov 2 06:48:47 2007 UTC (15 years, 5 months ago) by poulet
Original Path: trunk

Chris Hines successfully modified this file to build escript on Cognac using:
* python/2.4.2
* intel-cc/10.0.023
* boost/1.33.1/python2.4.2/icc10.0.023
* netcdf/3.6.2
* intel-mkl
* scsl
* numarray/1.5.2

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Revision 1335 - Directory Listing
Modified Fri Nov 2 05:54:25 2007 UTC (15 years, 5 months ago) by gross
Original Path: trunk

color ranges were not initialized.

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Revision 1334 - Directory Listing
Modified Thu Oct 25 05:08:54 2007 UTC (15 years, 5 months ago) by matt
Original Path: trunk

Initial rewrite of escript unary operations. The rewritten operations are now single-pass.

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Revision 1333 - Directory Listing
Modified Tue Oct 23 03:30:15 2007 UTC (15 years, 5 months ago) by matt
Original Path: trunk

scons configuration file for shake45.

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Revision 1332 - Directory Listing
Modified Tue Oct 23 03:28:51 2007 UTC (15 years, 5 months ago) by matt
Original Path: trunk

Pow now uses the new binary function interface of C_TensorBinaryOperation.

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Revision 1331 - Directory Listing
Modified Tue Oct 23 00:42:15 2007 UTC (15 years, 5 months ago) by gross
Original Path: trunk

ArithmeticTuple added. It is useful for certain applications of PCG

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Revision 1330 - Directory Listing
Modified Mon Oct 22 04:54:49 2007 UTC (15 years, 5 months ago) by gross
Original Path: trunk

more flexible stopping criterium for the PCG

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Revision 1329 - Directory Listing
Modified Thu Oct 18 05:39:25 2007 UTC (15 years, 5 months ago) by ksteube
Original Path: trunk

Can now compile with openmp on cyclone. Had to fix a bug in scons in intelc.py
to allow use of Intel compilers.

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Revision 1328 - Directory Listing
Modified Mon Oct 15 03:23:15 2007 UTC (15 years, 5 months ago) by matt
Original Path: trunk

Fixed bug in power operation.

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Revision 1327 - Directory Listing
Modified Fri Oct 12 07:10:40 2007 UTC (15 years, 5 months ago) by matt
Original Path: trunk

Initial rewrite of binary escript operations.

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Revision 1326 - Directory Listing
Modified Mon Oct 1 08:10:41 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Implemented domain.print_mesh_info() so we can see the distribution of elements & nodes.
Implemented -DBOUNDS_CHECK to catch an error with periodicN=True.

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Revision 1325 - Directory Listing
Modified Mon Oct 1 06:28:24 2007 UTC (15 years, 6 months ago) by matt
Original Path: trunk

DataArray has been removed as it is no longer used. Unit tests have been
updated accordingly with substitute constructs. Any files pertaining to
DataArray have been removed.

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Revision 1324 - Directory Listing
Modified Sun Sep 30 23:35:17 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Interval mesh type has been removed from the User Guide
Adjusted getVersion method

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Revision 1323 - Directory Listing
Modified Thu Sep 27 06:20:29 2007 UTC (15 years, 6 months ago) by matt
Original Path: trunk

Minor inconsistency.

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Revision 1322 - Directory Listing
Modified Thu Sep 27 04:40:43 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Code now compiles and runs on cyclone.hpcu.uq.edu.au.
Had to remove intelc from the SConstruct, but didn't commit that change.
Changed a couple C++ comments to C comments.

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Revision 1319 - Directory Listing
Modified Thu Sep 27 00:27:51 2007 UTC (15 years, 6 months ago) by matt
Original Path: trunk

DataArray is no longer needed. However, the unit tests still require it.

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Revision 1318 - Directory Listing
Modified Wed Sep 26 04:39:14 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

A very quick edit of chapter 3 of the User Guide. More editing needed.

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Revision 1317 - Directory Listing
Modified Tue Sep 25 03:41:48 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

yet another file copied from MPI branch to trunk

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Revision 1316 - Directory Listing
Modified Tue Sep 25 03:18:30 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Quickly edited chapters 1 and 2 of the User Guide, but it needs more work.
Ran entire document through spell checker.

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Revision 1315 - Directory Listing
Modified Tue Sep 25 02:41:13 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Copied more files from MPI branch to trunk

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Revision 1314 - Directory Listing
Modified Tue Sep 25 01:46:27 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Copied a couple more files from MPI branch to trunk

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Revision 1313 - Directory Listing
Modified Tue Sep 25 01:44:26 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Copied a handful of files from trunk-mpi-branch into trunk

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Revision 1312 - Directory Listing
Modified Mon Sep 24 06:18:44 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

The MPI branch is hereby closed. All future work should be in trunk.

Previously in revision 1295 I merged the latest changes to trunk into trunk-mpi-branch.
In this revision I copied all files from trunk-mpi-branch over the corresponding
trunk files. I did not use 'svn merge', it was a copy.

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Revision 1310 - Directory Listing
Modified Mon Sep 24 04:00:47 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

A few additions to make trunk match trunk-mpi-branch

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Revision 1292 - Directory Listing
Modified Thu Sep 6 05:37:33 2007 UTC (15 years, 6 months ago) by ksteube
Original Path: trunk

Commented out setInsideOutOn call in setup because after that it's not
possible to use setInsideOutOff with rotation.

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Revision 1270 - Directory Listing
Modified Thu Aug 23 03:13:11 2007 UTC (15 years, 7 months ago) by gross
Original Path: trunk

PlaneSurface accepts now non-Line primitives (stupid mistake to restrict the type. in fact a test for points on a plane is needed

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Revision 1250 - Directory Listing
Modified Thu Aug 16 02:54:42 2007 UTC (15 years, 7 months ago) by ksteube
Original Path: trunk

Minor repairs to scons files

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Revision 1248 - Directory Listing
Modified Tue Aug 14 05:20:39 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Prepend various shareable library locations to PATH rather than appending.

Add (empty) include directory to the repository.

Impact of adding lib, include and esys dirs to repository.
You will need to move these aside in any checked out tree before doing an update.

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Revision 1247 - Directory Listing
Modified Tue Aug 14 01:29:20 2007 UTC (15 years, 7 months ago) by ksteube
Original Path: trunk

New python method getVersion() which returns the Subversion revision
from which escript was compiled

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Revision 1246 - Directory Listing
Modified Mon Aug 13 22:09:00 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Add the esys and lib directories to the repository.
Remove the IS_WINDOWS_PLATFORM from the SConscripts, and
do the logic once in SConstruct.
SConstruct now includes example options files if the hostname_options file is not present. 
This needs some more work for the altix.
The tests now depend upon the build target. This is important it seems, as there appears to be the
possibility of calling linking different libraries
against incompatible versions of sub-libraries. 
This addressed most of the exceptions we were getting on windows.
All the useNetCDF logic is now done by SConstruct.
Made the init_target part of the build alias so that __ini__.py is created on a fresh checkout.

py_tests mostly pass on windows, only need to track down the exception in run_tests.

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Revision 1245 - Directory Listing
Modified Mon Aug 13 14:27:20 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Add in the netcdf libraries.

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Revision 1244 - Directory Listing
Modified Mon Aug 13 07:13:17 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

use env['PROGSUFFIX'] instead of IS_WINDOWS_PLATFORM for the RunUnitTest builder.

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Revision 1243 - Directory Listing
Modified Mon Aug 13 06:48:37 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

build is the default target, and will build a local installation in the source tree.
A new install target will do a build and install in the system directories. The system dierctories are set up for altix/linux systems with a prefix of '/usr'

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Revision 1242 - Directory Listing
Modified Mon Aug 13 06:45:41 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Update for the new SConstruct

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Revision 1241 - Directory Listing
Modified Mon Aug 13 06:41:05 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

New options for the default windows + MSC combination.

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Revision 1240 - Directory Listing
Modified Mon Aug 13 06:39:29 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

query python_cmd in env to get the python command.

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Revision 1235 - Directory Listing
Modified Mon Aug 13 00:25:29 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Started the removal of IS_WINDOWS_PLATFORM, and now insis that the windows options file be kept up to date, and be complete.

boost_libs -> boost_lib.

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Revision 1234 - Directory Listing
Modified Mon Aug 13 00:22:25 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Based on http://www.scons.org/wiki/DoxygenBuilder, this is a useful tool for managing doxygen builds.

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Revision 1233 - Directory Listing
Modified Mon Aug 13 00:20:22 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Much more extensive extensions that can make SConscripts much shorter.

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Revision 1232 - Directory Listing
Modified Fri Aug 10 06:44:04 2007 UTC (15 years, 7 months ago) by phornby
Original Path: trunk

Reduce the number of IS_WINDOWS_PLATFORM references in SConstruct.
Change path to boost etc in windows_mscv71_options.py 
Some of these changes are present in windows_mscv71_options.py, more changes needed once I get the mscv71 build going properly.

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Revision 1221 - Directory Listing
Modified Fri Aug 3 00:27:20 2007 UTC (15 years, 8 months ago) by ksteube
Original Path: trunk

Disabled HRZ lumping until the tests pass

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Revision 1220 - Directory Listing
Modified Thu Aug 2 04:46:20 2007 UTC (15 years, 8 months ago) by btully
Original Path: trunk

Included HRZ lumping scheme for the LUMPED solver.

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Revision 1219 - Directory Listing
Modified Wed Aug 1 00:39:47 2007 UTC (15 years, 8 months ago) by ksteube
Original Path: trunk

Adjustments to the nightly tests and document generation

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Revision 1218 - Directory Listing
Modified Wed Jul 18 01:01:41 2007 UTC (15 years, 8 months ago) by ksteube
Original Path: trunk

New script to be run via cron on shake71 to generate all documentation
nightly.  This generates the docs available on the twiki page EsysLocalUser

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Revision 1217 - Directory Listing
Modified Wed Jul 18 00:47:01 2007 UTC (15 years, 8 months ago) by ksteube
Original Path: trunk

Can now install into /usr with scons prefix=/usr and get a typical
python package install. Setting PYTHONPATH and LD_LIBRARY_PATH is
not necessary.

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Revision 1216 - Directory Listing
Modified Thu Jul 12 06:20:08 2007 UTC (15 years, 8 months ago) by ksteube
Original Path: trunk

Build now works on systems where doxygen is not available.
Repaired target scons guide_html_index to create HTML user guide.

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Revision 1215 - Directory Listing
Modified Thu Jul 12 01:14:55 2007 UTC (15 years, 8 months ago) by ksteube
Original Path: trunk

Repaired all targets for: scons docs
It runs all these targets: release_examples guide_pdf api_epydoc api_doxygen

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Revision 1214 - Directory Listing
Modified Wed Jul 11 04:21:45 2007 UTC (15 years, 8 months ago) by ksteube
Original Path: trunk

Add image missing from user guide

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Revision 1213 - Directory Listing
Modified Thu Jul 5 04:18:34 2007 UTC (15 years, 8 months ago) by jongui
Original Path: trunk

Added a reference directory for sample images for the unit testing.

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Revision 1212 - Directory Listing
Modified Thu Jul 5 00:41:19 2007 UTC (15 years, 8 months ago) by jongui
Original Path: trunk

Made some minor changes to the guide.

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Revision 1211 - Directory Listing
Modified Wed Jul 4 05:16:46 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

- Fixed some minor bugs.
- Added a new feature called 'MapOnScalarClipWithRotation' that clips a two-dimensional data with a scalar value and subsequently rotating it to create a three-dimensional effect.
- Corresponding examples, test cases and documentation of the new module have also been added.

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Revision 1210 - Directory Listing
Modified Tue Jul 3 05:47:34 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Made some minor changes.

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Revision 1209 - Directory Listing
Modified Mon Jul 2 05:46:49 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Fixed a minor problem with regards to the Carpet module distinguishing between 2D and 3D data.

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Revision 1208 - Directory Listing
Modified Mon Jul 2 04:46:10 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Made some changes to the Carpet module. When 3D data is used, a cut will be performed using a plane before deformation occurs on the plane. However, if 2D data is used a cut will NOT be performed and deformation will instead occur immediately. 

Pyvisi distinguishes 2D from 3D data by retrieving the length of the z-axis. A 2D data will have a z-axis length of zero while a 3D data will have a z-axis length of non-zero. There are exceptions to these rules where some 2D data may have a non-zero z-axis length. However, such exceptions are not taken into account at this stage.

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Revision 1207 - Directory Listing
Modified Mon Jul 2 02:02:26 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Made some changes to the Carpet module. When 3D data is used, a cut will be performed using a plane before deformation occurs on the plane. However, if 2D data is used a cut will NOT be performed and deformation will instead occur immediately. 

Pyvisi distinguishes 2D from 3D data by retrieving the length of the z-axis. A 2D data will have a z-axis length of zero while a 3D data will have a z-axis length of non-zero. There are exceptions to these rules where some 2D data may have a non-zero z-axis length. However, such exceptions are not taken into account at this stage.

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Revision 1206 - Directory Listing
Modified Fri Jun 29 06:09:19 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Updated the guide further.

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Revision 1205 - Directory Listing
Modified Fri Jun 29 04:44:04 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

- Fixed a minor bug in the Velocity module.
- Added the Rectangle module which enables rectangles to be created.
- Added corresponding examples and test cases for the Rectangle.
- Updated the guide and necessary epydocs.

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Revision 1204 - Directory Listing
Modified Sat Jun 23 11:43:12 2007 UTC (15 years, 9 months ago) by gross
Original Path: trunk

a frame for an improved lumping procedure added.

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Revision 1203 - Directory Listing
Modified Thu Jun 21 23:17:16 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Made some minor changes to the exampels.

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Revision 1202 - Directory Listing
Modified Thu Jun 21 04:44:17 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Minor change to the movie example.

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Revision 1201 - Directory Listing
Modified Thu Jun 21 04:42:56 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Added a pyvisi readme file for internal use (by Ken).

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Revision 1200 - Directory Listing
Modified Thu Jun 21 02:04:47 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Corrected a small epydoc error.

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Revision 1199 - Directory Listing
Modified Wed Jun 20 05:01:30 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

- Updated the epydocs and guide.
Deleted redundant files and methods.
Tidied up the codes.

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Revision 1198 - Directory Listing
Modified Tue Jun 19 00:24:29 2007 UTC (15 years, 9 months ago) by btully
Original Path: trunk

Updated Rec9 Shape Functions.
Included a new definition for Hex27 Reference Element and associated Shape Functions.

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Revision 1197 - Directory Listing
Modified Mon Jun 18 02:08:34 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Update the way movies are generated. Please refer to the examples. 

The user can now either specify the image range(first and last images inclusive):
mov.imageRange(input_directory = PYVISI_EXAMPLE_IMAGES_PATH,
        first_image = IMAGE_NAME + "000938.jpg",
		last_image = IMAGE_NAME + "000948.jpg")
mov.makeMovie(os.path.join(PYVISI_EXAMPLE_IMAGES_PATH, "movie.mpg"))

or the user can specify a list of images:

lst = ['image1.jpg', 'image5.jpg', 'image7.jpg]
mov.imageList(input_directory = PYVISI_EXAMPLE_IMAGES_PATH, image_list = lst)
mov.makeMovie(os.path.join(PYVISI_EXAMPLE_IMAGES_PATH, "movie.mpg"))

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Revision 1194 - Directory Listing
Modified Thu Jun 14 05:53:49 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

- Fixed a minor bug in the Camera module.
- Added some extra capability to the Movie module.
- The Camera module now has the capability to perform parallel projection by calling the 'parallelProjectionOn' method.
- The Camera at this stage is only capable of zooming towards the rendered object using 'dolly'. However, it appears that 'dolly' cannot be used to perform zooming out.

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Revision 1193 - Directory Listing
Modified Wed Jun 13 22:35:25 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Added the missing movie module.

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Revision 1191 - Directory Listing
Modified Tue Jun 12 05:54:41 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

A movie can now be generated within the python script itself by creating an instace of 'Movie'. The 'Movie' instance will in turn execute the 'ppmtompeg' command. The corresponding tests and examples have also been added.

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Revision 1190 - Directory Listing
Modified Fri Jun 8 05:47:25 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

Fixed a minor bug in the scene module.

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Revision 1189 - Directory Listing
Modified Thu Jun 7 05:31:25 2007 UTC (15 years, 9 months ago) by jongui
Original Path: trunk

A Scalar Bar can now be displayed by creating an instance of a 'Legend'. The Scalar Bar can either show the scalar data range or vector data range. Corresponding examples and tests have also been added.

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Revision 1186 - Directory Listing
Modified Fri Jun 1 03:26:23 2007 UTC (15 years, 10 months ago) by ksteube
Original Path: trunk

More mods to compile options for ac.apac.edu.au

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Revision 1185 - Directory Listing
Modified Thu May 31 04:33:31 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

once again: some changes to get the tests passed on windows.

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Revision 1184 - Directory Listing
Modified Thu May 31 04:28:37 2007 UTC (15 years, 10 months ago) by matt
Original Path: trunk

Fixed netCDF compile option.

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Revision 1181 - Directory Listing
Modified Wed May 30 06:08:44 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

some more test for vtk interface

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Revision 1180 - Directory Listing
Modified Wed May 30 05:53:38 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

some new test data

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Revision 1179 - Directory Listing
Modified Wed May 30 05:10:02 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

some debug print outs removed.

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Revision 1178 - Directory Listing
Modified Wed May 30 05:03:17 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

bug in visualization interface test fixed.

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Revision 1177 - Directory Listing
Modified Wed May 30 05:01:29 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

debug print out removed.

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Revision 1175 - Directory Listing
Modified Wed May 30 03:51:11 2007 UTC (15 years, 10 months ago) by ksteube
Original Path: trunk

Adjustments for ac.apac.edu.au paths

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Revision 1174 - Directory Listing
Modified Tue May 29 07:05:59 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

more modifications to the test rquired by the new intergartion schemes

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Revision 1173 - Directory Listing
Modified Mon May 28 03:29:57 2007 UTC (15 years, 10 months ago) by ksteube
Original Path: trunk

Reverted to revision 1170, update in 1171 was a mistake

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Revision 1172 - Directory Listing
Modified Mon May 28 00:03:32 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Made some minor changes to the tests.

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Revision 1171 - Directory Listing
Modified Fri May 25 06:55:05 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

some modifications to the tests to consider the new integration schemes for tri and tet

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Revision 1170 - Directory Listing
Modified Fri May 25 05:24:57 2007 UTC (15 years, 10 months ago) by btully
Original Path: trunk

Added new methods for integration of Tri's and Tet's For Order 2 and 3.
NB: There is a conflict in the testing of the getNormal() function. On consultation with Lutz, we have concluded this is an issue with the test rather than the new methods.

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Revision 1169 - Directory Listing
Modified Fri May 25 03:44:14 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Added another example that shows the use of multiple modules in a script together.

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Revision 1168 - Directory Listing
Modified Thu May 24 05:36:42 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Pyvisi now has the capability to save the rendered objects as VRML (.wrl) and OpenInventor (.iv) file types. Corresponding tests have also been added.

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Revision 1167 - Directory Listing
Modified Thu May 24 01:04:17 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Deleted remaining scenes from the test cases and updated the guide.

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Revision 1166 - Directory Listing
Modified Thu May 24 00:56:00 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Updated some test.

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Revision 1164 - Directory Listing
Modified Thu May 24 00:38:40 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

As it turned out XAUTHORITY has to be imported into scons, too.

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Revision 1163 - Directory Listing
Modified Wed May 23 23:56:39 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

import of DISPLAY environment variable into scons ENV added. This is required to run pyvisi tests under XGL

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Revision 1162 - Directory Listing
Modified Wed May 23 05:31:15 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Added a script that executes all test scripts.

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Revision 1161 - Directory Listing
Modified Wed May 23 04:17:52 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Made some minor updates to the test.

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Revision 1160 - Directory Listing
Modified Wed May 23 00:44:01 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

The OMP_NUM_THREADS environment variable is now imported into the scons evironment.

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Revision 1159 - Directory Listing
Modified Tue May 22 05:09:31 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Some update to test_escript.

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Revision 1158 - Directory Listing
Modified Tue May 22 04:24:01 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Made some changes to fix the memory leak problem. However, the problem still persists for run_escript_with_lazy_evaluation.py, run_streamline.py and run_streamline_with_lazy_evaluation.py.

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Revision 1157 - Directory Listing
Modified Mon May 21 06:45:52 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

ops, wrong name

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Revision 1156 - Directory Listing
Modified Mon May 21 06:45:14 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

node label optimization

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Revision 1154 - Directory Listing
Modified Fri May 18 02:46:32 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Updated the in-line documentation and guide.

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Revision 1153 - Directory Listing
Modified Thu May 17 06:33:54 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Made some minor modifications and fixed minor bugs. Most tests appear to pass on the Altix although there are two tests which occasionally throw an error related to memory corruption.

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Revision 1152 - Directory Listing
Modified Thu May 17 04:46:04 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

some features for PMDCRC project

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Revision 1151 - Directory Listing
Modified Thu May 17 04:11:18 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

More update.

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Revision 1150 - Directory Listing
Modified Thu May 17 00:42:34 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Added the new images.

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Revision 1149 - Directory Listing
Modified Thu May 17 00:30:15 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

some fixes from the windows version

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Revision 1148 - Directory Listing
Modified Wed May 16 22:45:33 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Added the updated files for pyvisi and removed some incorrect reference images.

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Revision 1147 - Directory Listing
Modified Wed May 16 06:39:11 2007 UTC (15 years, 10 months ago) by ksteube
Original Path: trunk

Added back in some files that were accidentally deleted.

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Revision 1146 - Directory Listing
Modified Wed May 16 05:07:02 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Removed the old version of pyvisi.

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Revision 1144 - Directory Listing
Modified Wed May 16 04:51:19 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

Added updated files.

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Revision 1143 - Directory Listing
Modified Wed May 16 04:49:55 2007 UTC (15 years, 10 months ago) by jongui
Original Path: trunk

some cleanup.

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Revision 1141 - Directory Listing
Modified Tue May 15 04:24:51 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

Some changes to make things run on windows. There is still a problem with netcdf an long file names on windows but there is the suspicion that this is a bigger problem related to boost (compiler options). In fact runs with large numbers of iteration/time steps tend to create seg faults. 

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Revision 1139 - Directory Listing
Modified Mon May 14 05:12:53 2007 UTC (15 years, 10 months ago) by ksteube
Original Path: trunk

Finished renaming of boost_lib to boost_libs and boost_lib_path to boost_libs_path.

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Revision 1138 - Directory Listing
Modified Mon May 14 04:15:04 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

 * some of the sys.exit calls removed.
 * some modifications on the test (and more work needs to be done, use test/python/run_carpet.py as an example) to get them going with scons 

-> things seems to run on windows XP.

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Revision 1137 - Directory Listing
Modified Thu May 10 08:11:31 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

This version passes the tests on windows except for 

   * vtk
   * netCDF

The version needs to be tested on altix and linux

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Revision 1135 - Directory Listing
Modified Wed May 9 01:58:32 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

These are still modifications for windows.

The run_generators.py and run_visualization_interface.py pass now. There is no need for the win32 reference directory. 

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Revision 1134 - Directory Listing
Modified Wed May 9 01:44:04 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

fixed a bag in the extra bits to make the ordering unique. This does not effect the correctness of the result but makes sure that the results are independent from the sorting algorithm.

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Revision 1133 - Directory Listing
Modified Tue May 8 07:19:33 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

Changes needed for windows. This still does not work on and has not run on linux and the altix. 
 
There are a few changes in names in the scons script, in particular _libs is used rather than _lib and _libs is always a list. By default on windows MSVC is used. The location of python is at C:\Program Files\python<version>, boost at C:\Program Files\boost and netcdf at C:\Program Files\netcdf. 

 

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Revision 1132 - Directory Listing
Modified Tue May 8 05:58:46 2007 UTC (15 years, 10 months ago) by phornby
Original Path: trunk

c flags to suppress pragma warnings

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Revision 1131 - Directory Listing
Modified Tue May 8 05:52:21 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

netcdf c++ interface removed

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Revision 1130 - Directory Listing
Modified Tue May 8 04:23:51 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

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Revision 1129 - Directory Listing
Modified Tue May 8 04:23:25 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

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Revision 1128 - Directory Listing
Modified Tue May 8 04:22:53 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

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Revision 1127 - Directory Listing
Modified Tue May 8 03:23:12 2007 UTC (15 years, 10 months ago) by gross
Original Path: trunk

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Revision 1125 - Directory Listing
Modified Thu May 3 05:40:30 2007 UTC (15 years, 11 months ago) by ksteube
Original Path: trunk

Print more convergence info in the verbose output

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Revision 1123 - Directory Listing
Modified Thu May 3 04:13:52 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

PropertySets cann now be created wirout an intial 
set of items.

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Revision 1122 - Directory Listing
Modified Tue May 1 03:21:04 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

As the LinearPDE uses coefficients as reduced even if they are handed
over as full the projector runs into a problem when reduced and full
arguments are used in the same projector. Now the projector resets the
coefficients befor starting the projection.

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Revision 1119 - Directory Listing
Modified Tue Apr 24 08:58:05 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

debug print removed.

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Revision 1118 - Directory Listing
Modified Tue Apr 24 08:55:04 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

problem with reset of faulty PDE rhs fixed.

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Revision 1116 - Directory Listing
Modified Mon Apr 23 03:36:34 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

Interporpolation from full to reduced integration order added.

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Revision 1115 - Directory Listing
Modified Sun Apr 22 07:18:30 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

The problem regarding the increasing use of memory when Map is instantiated is partially fixed. Some problems still persists when the Map instance invoke methods.

Therefore, the run_map.py auto test have been disabled for the time being.

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Revision 1114 - Directory Listing
Modified Sun Apr 22 05:16:05 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Started doing some changes to the modules due to the problem of the continuous increase in memory usage when reading directly from escript objects.

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Revision 1113 - Directory Listing
Modified Thu Apr 19 08:53:24 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Added some epydocs.

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Revision 1112 - Directory Listing
Modified Thu Apr 19 06:31:49 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Made some updates to the guide.

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Revision 1111 - Directory Listing
Modified Thu Apr 19 05:28:19 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Some clean up.

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Revision 1110 - Directory Listing
Modified Thu Apr 19 05:24:28 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Some test for the logo.

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Revision 1109 - Directory Listing
Modified Thu Apr 19 04:21:43 2007 UTC (15 years, 11 months ago) by btully
Original Path: trunk

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Revision 1108 - Directory Listing
Modified Thu Apr 19 04:02:11 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Added modules that allows logos (i.e. access logo) to be inserted together with the rendered object. An example on how to use the 'Logo' class has also been provided.

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Revision 1107 - Directory Listing
Modified Thu Apr 19 02:14:18 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

Small bug in ReadMeh call fixed.
Test for typ of verbose argument in pdetools.SaddlePointSolver added.

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Revision 1106 - Directory Listing
Modified Thu Apr 19 01:54:57 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

I take it all back! Ignore the last check in.

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Revision 1105 - Directory Listing
Modified Thu Apr 19 01:10:49 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

The modification fixes a problem with the garbage collection in python. 
The problem seems that a default value of a method argument is seen as
being dependend on the the instance of the class. This produces a
circular dependence and can stop the garbage collection to delete the
object. The situation becomes in particulary bad if the class provides a
__del__ method as it is not clear where to break the circle.

We need to revisit all python classes in escript & Co to remove this
possible problem. 

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Revision 1104 - Directory Listing
Modified Wed Apr 18 04:32:35 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Removed test for reading escript objects directly using 'setData'. There seems to be a problem with the usage of memory.

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Revision 1103 - Directory Listing
Modified Wed Apr 18 04:31:06 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Some updates.

---

Revision 1102 - Directory Listing
Modified Tue Apr 17 07:16:49 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

some cleanup.

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Revision 1101 - Directory Listing
Modified Tue Apr 17 07:11:02 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Added some test for reading escript objects.

---

Revision 1100 - Directory Listing
Modified Tue Apr 17 05:36:24 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Fixed the problem related to the use of point and cell data. Both point and cell data should now be able to work properly together. i.e. plotting a velocity field using 'vector point data' but coloring the arrows using 'scalar cell data'.

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Revision 1099 - Directory Listing
Modified Tue Apr 17 01:45:08 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Upated some examples.

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Revision 1098 - Directory Listing
Modified Mon Apr 16 23:15:23 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

add a few #pragma ivdep which should speed up MV but cannot confiirm this on Pentium

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Revision 1097 - Directory Listing
Modified Mon Apr 16 23:03:55 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Added more examples reading directly from escript objects.

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Revision 1095 - Directory Listing
Modified Mon Apr 16 06:32:24 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Added some example scripts reading directly from escript objects.

---

Revision 1094 - Directory Listing
Modified Mon Apr 16 06:04:25 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Fixed the bug related to the use of the 'setData' method in the DataCollector. Reading directly from escript objects should now work.

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Revision 1093 - Directory Listing
Modified Sun Apr 15 23:58:53 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Fixed a minor bug related to clipping vector and tensor data.

---

Revision 1092 - Directory Listing
Modified Fri Apr 13 03:39:49 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

the useless profilinf for data.cpp removed (doDebug=yes should work again)
and a small bug in the gmsh reader fixed.

---

Revision 1091 - Directory Listing
Modified Fri Apr 13 01:26:22 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

More updates to the guide.

---

Revision 1086 - Directory Listing
Modified Thu Apr 12 05:54:14 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Performed some cleanup.

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Revision 1085 - Directory Listing
Modified Thu Apr 12 05:36:31 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

More minor fixes to Camera.

---

Revision 1084 - Directory Listing
Modified Thu Apr 12 05:19:22 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Updated the guide and fixed a minor bug with the use of the Camera.

---

Revision 1083 - Directory Listing
Modified Thu Apr 12 01:15:01 2007 UTC (15 years, 11 months ago) by ksteube
Original Path: trunk

Install prefix: can now use

	scons prefix=/some/dir

to build and install into another directory.

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Revision 1082 - Directory Listing
Modified Wed Apr 11 22:33:52 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Made some updates to the guide.

---

Revision 1081 - Directory Listing
Modified Wed Apr 11 06:13:46 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Made some updates to the guide.

---

Revision 1080 - Directory Listing
Modified Wed Apr 11 06:07:30 2007 UTC (15 years, 11 months ago) by gross
Original Path: trunk

small typo fixed.

---

Revision 1079 - Directory Listing
Modified Tue Apr 10 04:27:31 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Updated more epydocs and the user guide. At this stage, a DataCollector should only be used to read either point data or cell data but not both. If both point and cell data are read using the same DataCollector, the object rendered may be incorrect.

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Revision 1078 - Directory Listing
Modified Thu Apr 5 06:18:47 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Added and updated some epydocs.

---

Revision 1077 - Directory Listing
Modified Wed Apr 4 13:31:39 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

There seems to be some problems with regards to reading data directly from an ESCRIPT object using the 'setData' method in the DataCollector. Please avoid using this method at this stage.

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Revision 1076 - Directory Listing
Modified Wed Apr 4 06:40:33 2007 UTC (15 years, 11 months ago) by jongui
Original Path: trunk

Some updates.

---

Revision 1075 - Directory Listing
Modified Tue Apr 3 02:47:39 2007 UTC (16 years ago) by jongui
Original Path: trunk

Some minor cleanup.

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Revision 1074 - Directory Listing
Modified Fri Mar 30 02:44:42 2007 UTC (16 years ago) by jongui
Original Path: trunk

Added tests for the text and image modules, including their corresponding sample output.

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Revision 1072 - Directory Listing
Modified Thu Mar 29 06:44:30 2007 UTC (16 years ago) by gross
Original Path: trunk

PDE assemblage for reduced integration order + tests added.

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Revision 1071 - Directory Listing
Modified Thu Mar 29 04:26:58 2007 UTC (16 years ago) by jongui
Original Path: trunk

Added sample output images for the tests.

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Revision 1070 - Directory Listing
Modified Thu Mar 29 04:20:50 2007 UTC (16 years ago) by jongui
Original Path: trunk

Added tests for the camera, carpet, contouir, ellipsoid, light, streamline and velocity modules.

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Revision 1069 - Directory Listing
Modified Thu Mar 29 04:16:38 2007 UTC (16 years ago) by jongui
Original Path: trunk

Perform some cleanup.

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Revision 1068 - Directory Listing
Modified Wed Mar 28 22:26:00 2007 UTC (16 years ago) by jongui
Original Path: trunk

Added test for the velocity module.

---

Revision 1067 - Directory Listing
Modified Wed Mar 28 04:14:13 2007 UTC (16 years ago) by jongui
Original Path: trunk

Added some test for the datacollector, map and scene modules.

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Revision 1066 - Directory Listing
Modified Wed Mar 28 00:59:19 2007 UTC (16 years ago) by ksteube
Original Path: trunk

Second draft of pycad document...probably needs more work

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Revision 1065 - Directory Listing
Modified Tue Mar 27 09:04:56 2007 UTC (16 years ago) by gross
Original Path: trunk

tests VTK + DX files for reduced integration order added. Tests pass.

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Revision 1064 - Directory Listing
Modified Tue Mar 27 06:21:02 2007 UTC (16 years ago) by gross
Original Path: trunk

test for reduced integration order for grad, interpolate and integrate added.
Bug shown by the tests have been fixed.

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Revision 1063 - Directory Listing
Modified Mon Mar 26 08:29:18 2007 UTC (16 years ago) by gross
Original Path: trunk

test for creation of reduced function spaces added.
tests for dumping data on reduced function spaces added.
This showed a small bug with compilation setting for compilation with netCDF which is fixed

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Revision 1062 - Directory Listing
Modified Mon Mar 26 06:17:53 2007 UTC (16 years ago) by gross
Original Path: trunk

reduced integration schemes are implemented now for grad, integrate, etc. Tests still to be added.

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Revision 1061 - Directory Listing
Modified Mon Mar 26 05:32:22 2007 UTC (16 years ago) by ksteube
Original Path: trunk

Commented the example

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Revision 1060 - Directory Listing
Modified Mon Mar 26 05:11:10 2007 UTC (16 years ago) by ksteube
Original Path: trunk

A new pycad example which shows how to have an object with a cutout area

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Revision 1059 - Directory Listing
Modified Fri Mar 23 11:01:53 2007 UTC (16 years ago) by gross
Original Path: trunk

first steps toward reduced element integration order. The escript bit is done but the finley part still needs work.

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Revision 1058 - Directory Listing
Modified Fri Mar 23 04:06:56 2007 UTC (16 years ago) by jongui
Original Path: trunk

Locator argument fixed.

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Revision 1057 - Directory Listing
Modified Thu Mar 22 23:57:37 2007 UTC (16 years ago) by jongui
Original Path: trunk

The use of StructuredPoints and Probe filter have been removed and replaced with MaskPoints completely. The use of the method 'setDimension' is no longer valid and should be replace with 'setRatio'.

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Revision 1056 - Directory Listing
Modified Thu Mar 22 06:52:08 2007 UTC (16 years ago) by jongui
Original Path: trunk

Removed the use of StructuredPointsProbe and replaced it with MaskPoints in the Ellipsoid module. The masking of arrows and ellipsoids should now work for both point and cell data.

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Revision 1055 - Directory Listing
Modified Thu Mar 22 04:49:23 2007 UTC (16 years ago) by gross
Original Path: trunk

a bit of work towards the bandwidth optimizer

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Revision 1054 - Directory Listing
Modified Thu Mar 22 03:41:46 2007 UTC (16 years ago) by jongui
Original Path: trunk

Removed the use of StructuredPointsProbe and replaced it with MaskPoints in the Velocity module. StructuredPointsProbe does NOT work well in all instances.

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Revision 1053 - Directory Listing
Modified Thu Mar 22 01:14:43 2007 UTC (16 years ago) by jongui
Original Path: trunk

Removed the use of StructuredPointsProbe and replaced it with MaskPoints in the Velocity module. StructuredPointsProbe does NOT work well in all instances.

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Revision 1052 - Directory Listing
Modified Wed Mar 21 23:45:29 2007 UTC (16 years ago) by gross
Original Path: trunk

Teo problems in the TagMap class fixed:

1) keyword argument map has been renamed to mapping (as map is a python keyword)
2) self.__mapping is now a copy of the argument in __init__. Otherwise the default 
   value for mapping is changed if self.__mapping is altered.

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Revision 1051 - Directory Listing
Modified Wed Mar 21 21:56:54 2007 UTC (16 years ago) by jongui
Original Path: trunk

Velocity module does not work properly with all types of files yet.

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Revision 1050 - Directory Listing
Modified Tue Mar 20 09:39:11 2007 UTC (16 years ago) by gross
Original Path: trunk

rename so compilation does not fail

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Revision 1049 - Directory Listing
Modified Tue Mar 20 03:00:18 2007 UTC (16 years ago) by gross
Original Path: trunk

bandwidth optimizer has been moved back (Lutz: switch on your brain.
)

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Revision 1048 - Directory Listing
Modified Tue Mar 20 02:59:14 2007 UTC (16 years ago) by gross
Original Path: trunk

bandwidth optimizer has been moved.

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Revision 1047 - Directory Listing
Modified Tue Mar 20 02:54:09 2007 UTC (16 years ago) by gross
Original Path: trunk

some clean-up

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Revision 1046 - Directory Listing
Modified Tue Mar 20 02:52:24 2007 UTC (16 years ago) by gross
Original Path: trunk

the finley benchmarks have been moved into a seperate directory to get keep them out off the building process.

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Revision 1045 - Directory Listing
Modified Tue Mar 20 01:30:58 2007 UTC (16 years ago) by gross
Original Path: trunk

some modifications on the pycad implementation to make it easier to build
interfaces for other mesh generators. The script statement generation is now
done by the Design and not the Primitive classes.

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Revision 1044 - Directory Listing
Modified Mon Mar 19 07:29:31 2007 UTC (16 years ago) by gross
Original Path: trunk

clear name tagging is supported now.

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Revision 1043 - Directory Listing
Modified Mon Mar 19 06:46:34 2007 UTC (16 years ago) by jongui
Original Path: trunk

Map and Contour now able to display cell data correctly. At this stage, it appears that the probe filter cannot be applied on cell data as a segmentation fault will be thrown.

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Revision 1042 - Directory Listing
Modified Mon Mar 19 03:50:34 2007 UTC (16 years ago) by gross
Original Path: trunk

a small fix which deals with the case that a Model class
does not take the argument debug.

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Revision 1041 - Directory Listing
Modified Fri Mar 16 09:11:10 2007 UTC (16 years ago) by phornby
Original Path: trunk

Change the netcdf path options to reflect the svn controlled netcdf path.

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Revision 1040 - Directory Listing
Modified Fri Mar 16 08:43:08 2007 UTC (16 years ago) by phornby
Original Path: trunk

Now links against netcdf and netcdf_cpp on windows.

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Revision 1039 - Directory Listing
Modified Fri Mar 16 08:42:17 2007 UTC (16 years ago) by phornby
Original Path: trunk

Just trying to get the intelc version going.

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Revision 1038 - Directory Listing
Modified Fri Mar 16 05:15:37 2007 UTC (16 years ago) by jongui
Original Path: trunk

Added more examples.

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Revision 1037 - Directory Listing
Modified Fri Mar 16 05:00:32 2007 UTC (16 years ago) by jongui
Original Path: trunk

Added the updated files.

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Revision 1036 - Directory Listing
Modified Fri Mar 16 04:55:44 2007 UTC (16 years ago) by phornby
Original Path: trunk

msvc7.1 options file for windows.

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Revision 1035 - Directory Listing
Modified Fri Mar 16 04:54:17 2007 UTC (16 years ago) by jongui
Original Path: trunk

Performed some cleanup of old files.

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Revision 1034 - Directory Listing
Modified Wed Mar 14 23:49:20 2007 UTC (16 years ago) by gross
Original Path: trunk

In VC++ boost has problems with numarray arguments from python. This
fixes that problem by taking python::object arguments from the python
level and converting it into python::numeric::array on the C++ level.
This hasn't been tested with VC++ yet.

Moreover the two Data methods dealing with big numarrays as argument and
return value have been removed.

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Revision 1033 - Directory Listing
Modified Wed Mar 14 08:38:00 2007 UTC (16 years ago) by phornby
Original Path: trunk

Options for the IVEC SGI altix.

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Revision 1032 - Directory Listing
Modified Wed Mar 14 06:32:09 2007 UTC (16 years ago) by phornby
Original Path: trunk

Implement inverse hyp. functions.

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Revision 1031 - Directory Listing
Modified Wed Mar 14 06:03:21 2007 UTC (16 years ago) by phornby
Original Path: trunk

Finer control of the inverse hyp. functions.

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Revision 1030 - Directory Listing
Modified Wed Mar 14 05:14:44 2007 UTC (16 years ago) by phornby
Original Path: trunk

Assemble_CopyElementData.c - resolve with my local edits.
Mesh_saveVTK.c - remove debug print.
DataArrayView.h - remove dllim/export declarations on template functions.

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Revision 1029 - Directory Listing
Modified Wed Mar 14 05:01:13 2007 UTC (16 years ago) by jongui
Original Path: trunk

Fixed problems in relation to updates propagating when multiple files/sources are read.

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Revision 1028 - Directory Listing
Modified Wed Mar 14 00:15:24 2007 UTC (16 years ago) by gross
Original Path: trunk

modifications to be compliant with _WIN32. The substitutes for asinh, acosh, atanh are still missing (erf will through an exception)

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Revision 1027 - Directory Listing
Modified Tue Mar 13 23:03:46 2007 UTC (16 years ago) by ksteube
Original Path: trunk

Generate epydoc every night

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Revision 1026 - Directory Listing
Modified Tue Mar 13 08:25:00 2007 UTC (16 years ago) by phornby
Original Path: trunk

Data.cpp - indefed out the erf & inv. hyperbolics on windows.
DataAlgorithmAdapterTestCase & DataTestCase - Fix the ifndef on _WIN32 & _INTEL_COMPILER
SConstruct - chamges to the PATH so windows can find DLLs.

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Revision 1025 - Directory Listing
Modified Tue Mar 13 08:02:12 2007 UTC (16 years ago) by phornby
Original Path: trunk

More windows options.

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Revision 1024 - Directory Listing
Modified Tue Mar 13 06:31:50 2007 UTC (16 years ago) by gross
Original Path: trunk

import of PATH

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Revision 1023 - Directory Listing
Modified Tue Mar 13 05:43:36 2007 UTC (16 years ago) by gross
Original Path: trunk

netCDF can now be switched off at compilation. Consequently load and dump of data objects is not available then.

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Revision 1022 - Directory Listing
Modified Tue Mar 13 02:25:53 2007 UTC (16 years ago) by phornby
Original Path: trunk

Now define the destructors for all the Exceptions (sorry guys & gals).

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Revision 1021 - Directory Listing
Modified Tue Mar 13 02:06:30 2007 UTC (16 years ago) by gross
Original Path: trunk

some changes to make things run with python 2.3

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Revision 1020 - Directory Listing
Modified Mon Mar 12 10:12:36 2007 UTC (16 years ago) by phornby
Original Path: trunk

Added explicit destructors to all Exception classes.

Fixed an ifdef in TestCase.cpp

Made the conditional definition of M_PI in LocalOps.h
depend only on M_PI being undefined.

Replace dynamically dimensioned arrays in DataFactory & DataTagged with malloc.

sort() method of list does not take a named argument
(despite the manual's claims to the contary).

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Revision 1019 - Directory Listing
Modified Mon Mar 12 10:04:54 2007 UTC (16 years ago) by phornby
Original Path: trunk

More windows options changes.

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Revision 1018 - Directory Listing
Modified Mon Mar 12 07:36:36 2007 UTC (16 years ago) by phornby
Original Path: trunk

Make Name consistent.

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Revision 1017 - Directory Listing
Modified Mon Mar 12 07:35:46 2007 UTC (16 years ago) by phornby
Original Path: trunk

Windows options files.

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Revision 1010 - Directory Listing
Modified Mon Mar 5 04:01:43 2007 UTC (16 years ago) by gross
Original Path: trunk

simple quad example added

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Revision 1009 - Directory Listing
Modified Mon Mar 5 02:13:40 2007 UTC (16 years ago) by ksteube
Original Path: trunk

The crontab file that runs the tests every nite

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Revision 1006 - Directory Listing
Modified Sun Mar 4 23:15:15 2007 UTC (16 years ago) by ksteube
Original Path: trunk

pycad test was failing due to typo and to missing parameter in Design.setOptions

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Revision 1005 - Directory Listing
Modified Fri Mar 2 06:50:48 2007 UTC (16 years, 1 month ago) by ksteube
Original Path: trunk

Catch errors when we execute external program gmsh. We don't yet
report what type of error happened.

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Revision 1004 - Directory Listing
Modified Thu Mar 1 04:57:31 2007 UTC (16 years, 1 month ago) by jongui
Original Path: trunk

Updated the epydocs, comments and organized codes to ease readability.

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Revision 1003 - Directory Listing
Modified Thu Mar 1 01:53:37 2007 UTC (16 years, 1 month ago) by gross
Original Path: trunk

small fix on the finley gmsh reader for the case of no face elements.

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Revision 1002 - Directory Listing
Modified Wed Feb 28 06:51:33 2007 UTC (16 years, 1 month ago) by jongui
Original Path: trunk

Included some try/except statements for error checking and some documentation. Also fixed a bug in DataCollector.

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Revision 1001 - Directory Listing
Modified Wed Feb 28 01:15:27 2007 UTC (16 years, 1 month ago) by jongui
Original Path: trunk

Added diffusion_with_pyvisi.py, but the reading of multiple temporary files (created in the background) appears not to work properly. The first file is always displayed.

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Revision 1000 - Directory Listing
Modified Wed Feb 28 00:34:42 2007 UTC (16 years, 1 month ago) by gross
Original Path: trunk

coulomb stress failure added

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Revision 999 - Directory Listing
Modified Tue Feb 27 08:12:37 2007 UTC (16 years, 1 month ago) by gross
Original Path: trunk

start to put some pycad documentation into the users guide

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Revision 998 - Directory Listing
Modified Mon Feb 26 07:09:37 2007 UTC (16 years, 1 month ago) by gross
Original Path: trunk

basic mine scenario

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Revision 997 - Directory Listing
Modified Mon Feb 26 06:31:45 2007 UTC (16 years, 1 month ago) by gross
Original Path: trunk

small small fixes in modellib

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Revision 996 - Directory Listing
Modified Mon Feb 26 03:43:13 2007 UTC (16 years, 1 month ago) by jongui
Original Path: trunk

Updated the drivers. Setting the active scalar/vector/tensor is now done in the DataCollector. i.e. 
dc = DataCollector(...)
dc.setFileName(...)
dc.setActiveScalar(...)

The use of setActiveScalar / setActiveVector / setActiveTensor have to be done after the setFileName.