Log of /branches

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Revision 7028 - Directory Listing
Modified Sun Aug 9 23:44:45 2020 UTC (22 months, 3 weeks ago) by mendrei

flush utest print output at start of each test

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Revision 7026 - Directory Listing
Modified Fri Aug 7 04:07:54 2020 UTC (22 months, 4 weeks ago) by mendrei

fixed paso complex memory leak

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Revision 7019 - Directory Listing
Modified Fri Jul 31 02:30:32 2020 UTC (23 months ago) by mendrei

added in/out data dump for real mumps verbose

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Revision 7018 - Directory Listing
Modified Thu Jul 30 23:30:36 2020 UTC (23 months ago) by mendrei

added in/out data dump for real mumps verbose

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Revision 7017 - Directory Listing
Modified Thu Jul 30 23:06:49 2020 UTC (23 months ago) by mendrei

added in/out data dump for real mumps verbose

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Revision 7016 - Directory Listing
Modified Thu Jul 30 22:57:04 2020 UTC (23 months ago) by mendrei

added in/out data dump for real mumps verbose

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Revision 7015 - Directory Listing
Modified Thu Jul 30 05:49:04 2020 UTC (23 months, 1 week ago) by mendrei

conda-build updates

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Revision 7014 - Directory Listing
Modified Thu Jul 30 05:43:59 2020 UTC (23 months, 1 week ago) by mendrei

mumps paso integration

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Revision 7013 - Directory Listing
Modified Thu Jul 30 05:36:52 2020 UTC (23 months, 1 week ago) by mendrei

utest working without trilinos

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Revision 7012 - Directory Listing
Modified Thu Jul 30 05:06:44 2020 UTC (23 months, 1 week ago) by mendrei

Open new branch for port to windows.

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Revision 6970 - Directory Listing
Modified Mon May 18 04:31:40 2020 UTC (2 years, 1 month ago) by uqaeller

Changes to dof map in Rectangle, & getConnections

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Revision 6969 - Directory Listing
Modified Fri May 15 06:12:35 2020 UTC (2 years, 1 month ago) by uqaeller

getRowsColumns now uses CRS format.

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Revision 6968 - Directory Listing
Modified Fri May 15 05:24:59 2020 UTC (2 years, 1 month ago) by uqaeller

getRowsColumns now works correctly. 

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Revision 6967 - Directory Listing
Modified Tue May 12 06:25:55 2020 UTC (2 years, 1 month ago) by uqaeller

Fixed bug

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Revision 6966 - Directory Listing
Modified Tue May 12 03:02:45 2020 UTC (2 years, 1 month ago) by uqaeller

Oxley now keeps track of the node numbering as well as hanging node information (this is necessary because the p4est lnodes structure does not number hanging nodes.)

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Revision 6965 - Directory Listing
Modified Wed Apr 29 02:07:31 2020 UTC (2 years, 2 months ago) by uqaeller

- Rewrote the code that keeps track of hanging nodes to fix a bug. (Note that the p4est lnodes structure does not record this information.)

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Revision 6964 - Directory Listing
Modified Tue Apr 21 23:29:34 2020 UTC (2 years, 2 months ago) by uqaeller

Another bug fix

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Revision 6961 - Directory Listing
Modified Wed Apr 8 06:05:05 2020 UTC (2 years, 2 months ago) by uqaeller

new files

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Revision 6960 - Directory Listing
Modified Wed Apr 8 05:43:38 2020 UTC (2 years, 2 months ago) by uqaeller

Faster version of assembleCoordinates

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Revision 6959 - Directory Listing
Modified Wed Apr 8 02:00:59 2020 UTC (2 years, 2 months ago) by uqaeller

bug fix

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Revision 6958 - Directory Listing
Modified Tue Apr 7 23:31:44 2020 UTC (2 years, 2 months ago) by uqaeller

Added code for the assembler in 2D. (This version still has some bugs)

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Revision 6957 - Directory Listing
Modified Tue Apr 7 06:08:51 2020 UTC (2 years, 2 months ago) by uqaeller

Changes to the rectangle nodes ordering

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Revision 6956 - Directory Listing
Modified Tue Apr 7 03:15:18 2020 UTC (2 years, 2 months ago) by uqaeller

Fixed a bug in which the assembleCoordinates function would incorrectly label some nodes.

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Revision 6955 - Directory Listing
Modified Fri Mar 20 05:32:29 2020 UTC (2 years, 3 months ago) by uqaeller

-Rewrote the code that generates the connectivity for Rectangle.
-Other minor changes

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Revision 6954 - Directory Listing
Modified Tue Mar 17 00:06:09 2020 UTC (2 years, 3 months ago) by uqaeller

Added the following to oxley rectangle
- functionSpaceTypeAsString
- setToSize
- getNumDOF

Also, made some changes to getNumNodes

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Revision 6953 - Directory Listing
Modified Mon Mar 16 02:55:37 2020 UTC (2 years, 3 months ago) by uqaeller

Fixed getX(), getNumNodes(), getNumElements(), getNumFaceElements() for Rectangle.

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Revision 6952 - Directory Listing
Modified Thu Mar 12 05:45:59 2020 UTC (2 years, 3 months ago) by uqaeller

Most of the code for the assembler.

Note that this code currently does not work. I am only committing it because I would like a restore point before I start debugging.

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Revision 6950 - Directory Listing
Modified Tue Feb 11 05:33:27 2020 UTC (2 years, 4 months ago) by uqaeller

- Added an lnodes structure to rectangle and brick to record the node number information
- Added a function that tests whether or not a quadrant/octant is on the boundary of the domain 

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Revision 6910 - Directory Listing
Modified Fri Nov 8 05:36:01 2019 UTC (2 years, 7 months ago) by aellery

Fixed mistake in last commit

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Revision 6909 - Directory Listing
Modified Fri Nov 8 05:01:58 2019 UTC (2 years, 7 months ago) by aellery

- Various bug fixes
- Multithreaded (and considerably faster) version of the GCE algorithm

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Revision 6908 - Directory Listing
Modified Wed Nov 6 00:29:05 2019 UTC (2 years, 8 months ago) by aellery

- Another bug fix

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Revision 6907 - Directory Listing
Modified Tue Nov 5 06:10:40 2019 UTC (2 years, 8 months ago) by aellery

I have finished implementing the Gross-Codd-Ellery Refinement Algorithm. 

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Revision 6906 - Directory Listing
Modified Tue Nov 5 00:10:54 2019 UTC (2 years, 8 months ago) by aellery

Bug fix

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Revision 6905 - Directory Listing
Modified Mon Nov 4 11:27:19 2019 UTC (2 years, 8 months ago) by aellery

Another bug fix.

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Revision 6904 - Directory Listing
Modified Mon Nov 4 05:13:00 2019 UTC (2 years, 8 months ago) by aellery

Another bug fix

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Revision 6903 - Directory Listing
Modified Fri Nov 1 06:16:09 2019 UTC (2 years, 8 months ago) by aellery

- Bug fix
- Rewrote the gce algorithm functions

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Revision 6902 - Directory Listing
Modified Thu Oct 31 07:56:49 2019 UTC (2 years, 8 months ago) by aellery

Another bug fix

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Revision 6901 - Directory Listing
Modified Wed Oct 30 05:09:21 2019 UTC (2 years, 8 months ago) by aellery

Another bug fix

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Revision 6900 - Directory Listing
Modified Tue Oct 29 06:37:57 2019 UTC (2 years, 8 months ago) by aellery

Another bug fix

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Revision 6899 - Directory Listing
Modified Tue Oct 29 03:28:13 2019 UTC (2 years, 8 months ago) by aellery

- More bugfixes
- Rewrote the connectivity section of the constructor functions for Rectangle and Brick

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Revision 6897 - Directory Listing
Modified Fri Oct 25 03:44:19 2019 UTC (2 years, 8 months ago) by aellery

Another bug fix

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Revision 6896 - Directory Listing
Modified Tue Oct 22 03:11:28 2019 UTC (2 years, 8 months ago) by aellery

-Another bug fix
-Modified the writeToVtk function to include additional parameters

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Revision 6895 - Directory Listing
Modified Mon Oct 21 02:33:51 2019 UTC (2 years, 8 months ago) by aellery

- Bug fix
- Added some warnings

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Revision 6894 - Directory Listing
Modified Thu Oct 17 05:52:55 2019 UTC (2 years, 8 months ago) by aellery

Another bug fix

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Revision 6893 - Directory Listing
Modified Tue Oct 15 23:16:44 2019 UTC (2 years, 8 months ago) by aellery

New files

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Revision 6891 - Directory Listing
Modified Thu Oct 10 01:00:38 2019 UTC (2 years, 8 months ago) by aellery

Fixed a bug in the writeToVTK function.

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Revision 6889 - Directory Listing
Modified Wed Oct 2 06:37:37 2019 UTC (2 years, 9 months ago) by aellery

- The p4est logger is disabled unless escript with compiled with debug=1 enabled
- Fixed a segmentation fault that occurred whenever a rectangle or brick was destroyed
- Started adding unit tests

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Revision 6888 - Directory Listing
Modified Mon Sep 30 02:26:03 2019 UTC (2 years, 9 months ago) by aellery

This commit contains most of the code needed to implement the Gross-Codd-Ellery refinement algorithm. 

At present there are still a lot of bugs. I am doing this commit so that I have a restore point. The next commit will have the unit tests that confirm that everything is working properly.

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Revision 6870 - Directory Listing
Modified Fri Aug 2 05:44:43 2019 UTC (2 years, 11 months ago) by aellery

Added in the License files for the p4est library

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Revision 6867 - Directory Listing
Modified Fri Aug 2 02:00:50 2019 UTC (2 years, 11 months ago) by aellery

p4est is now built by scons and not by a bootstrap/configure/makefile

Currently compiles successfully on debian 10.

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Revision 6863 - Directory Listing
Modified Fri Jul 26 03:46:51 2019 UTC (2 years, 11 months ago) by aellery

- Rewrote the code that builds the p4est library files in dependencies.py
- New files: RefinementAlgorithms.h RefinementAlgorithms.cpp

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Revision 6862 - Directory Listing
Modified Thu Jul 25 05:53:23 2019 UTC (2 years, 11 months ago) by aellery

Implemented the p4est write_to_vtk code into escript. This can be used to write the mesh information to a vtk file.

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Revision 6861 - Directory Listing
Modified Thu Jul 25 04:31:16 2019 UTC (2 years, 11 months ago) by aellery

-Code for unit testing Oxley.

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Revision 6860 - Directory Listing
Modified Wed Jul 24 05:33:34 2019 UTC (2 years, 11 months ago) by aellery

- Fixed bug in last commit
- More code in Rectangle.cpp and Brick.cpp

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Revision 6859 - Directory Listing
Modified Wed Jul 24 01:58:17 2019 UTC (2 years, 11 months ago) by aellery

- Fixed linking error
- Added constructors and destructors for Rectangle and Brick

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Revision 6858 - Directory Listing
Modified Mon Jul 22 06:00:29 2019 UTC (2 years, 11 months ago) by aellery

More code in Brick.h and Brick.cpp

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Revision 6857 - Directory Listing
Modified Mon Jul 22 04:44:17 2019 UTC (2 years, 11 months ago) by aellery

- New files (Brick.h, Brick.cpp, OxleyException.h)
- More code in the Rectangle class

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Revision 6856 - Directory Listing
Modified Sun Jul 21 23:43:42 2019 UTC (2 years, 11 months ago) by aellery

- Rewrote dependencies.py so that it finds p4est.h
- New files in oxley/src

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Revision 6855 - Directory Listing
Modified Fri Jul 19 02:27:58 2019 UTC (2 years, 11 months ago) by aellery

Fixed bug with p4est bootstrap

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Revision 6854 - Directory Listing
Modified Fri Jul 19 01:08:21 2019 UTC (2 years, 11 months ago) by aellery

-Added a folder containing the code to the p4est library
-Modified the SConstruct so that it compiles and installs the p4est library as well as escript

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Revision 6853 - Directory Listing
Modified Thu Jul 18 04:01:09 2019 UTC (2 years, 11 months ago) by aellery

Creating a new branch for oxley

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Revision 6705 - Directory Listing
Modified Wed Jul 4 11:14:02 2018 UTC (4 years ago) by aellery

Quick and nasty python user interface for rectangle is done.

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Revision 6704 - Directory Listing
Modified Wed Jul 4 01:38:56 2018 UTC (4 years ago) by aellery

About to start new revisions re: speckley pmls

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Revision 6703 - Directory Listing
Modified Fri Jun 29 05:25:25 2018 UTC (4 years ago) by aellery

Minor revisions.

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Revision 6701 - Directory Listing
Modified Tue Jun 26 03:33:03 2018 UTC (4 years ago) by aellery

Initial commit for pml branch

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Revision 6700 - Directory Listing
Modified Tue Jun 26 03:26:46 2018 UTC (4 years ago) by aellery

Creating a new branch for PML

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Revision 6564 - Directory Listing
Modified Mon May 15 01:14:42 2017 UTC (5 years, 1 month ago) by jfenwick

Initial paso pass complete.

Note: it compiles but it is _wrong_!
For example, many internal variables are still type double instead of T

The plan is to "fix" dudley next so that I have a version that compiles and
then swing back around to fix the internal typing issues.

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Revision 6563 - Directory Listing
Modified Mon May 15 00:09:56 2017 UTC (5 years, 1 month ago) by jfenwick

More compile fixes

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Revision 6562 - Directory Listing
Modified Fri May 12 08:15:37 2017 UTC (5 years, 1 month ago) by jfenwick

little progress

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Revision 6561 - Directory Listing
Modified Fri May 12 05:55:22 2017 UTC (5 years, 1 month ago) by jfenwick

Do not use, does not compile

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Revision 6560 - Directory Listing
Modified Fri May 12 05:51:39 2017 UTC (5 years, 1 month ago) by jfenwick

Experiments with paso

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Revision 6520 - Directory Listing
Modified Tue Mar 7 03:11:48 2017 UTC (5 years, 4 months ago) by jfenwick

Remove dead comment

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Revision 6518 - Directory Listing
Modified Tue Mar 7 01:21:24 2017 UTC (5 years, 4 months ago) by jfenwick

Can now promote/complicate lazy Data

Add some detail to error messages.
Can add Real lazy and complex lazy objects
(other operations to follow)

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Revision 6517 - Directory Listing
Modified Mon Mar 6 06:35:31 2017 UTC (5 years, 4 months ago) by jfenwick

Work towards complex lazy.

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Revision 6516 - Directory Listing
Modified Mon Mar 6 03:55:11 2017 UTC (5 years, 4 months ago) by jfenwick

Properly detect when lazy is complex.

Also, let the code know that anti-hermitian is a valid op

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Revision 6514 - Directory Listing
Modified Mon Mar 6 01:53:40 2017 UTC (5 years, 4 months ago) by jfenwick

isComplex on lazy to report accurately

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Revision 6513 - Directory Listing
Modified Fri Mar 3 03:04:03 2017 UTC (5 years, 4 months ago) by jfenwick

Add information for the promote operation
Operation not implemented yet

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Revision 6512 - Directory Listing
Modified Fri Mar 3 02:01:57 2017 UTC (5 years, 4 months ago) by jfenwick

Experiments on starting complex lazy

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Revision 6511 - Directory Listing
Modified Fri Mar 3 01:41:39 2017 UTC (5 years, 4 months ago) by jfenwick

For some experiments

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Revision 6118 - Directory Listing
Modified Fri Apr 1 09:51:13 2016 UTC (6 years, 3 months ago) by caltinay

fixed weipa dependencies.

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Revision 6117 - Directory Listing
Modified Fri Apr 1 07:34:57 2016 UTC (6 years, 3 months ago) by caltinay

add a note about trilinos to install guide. More to come...

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Revision 6116 - Directory Listing
Modified Fri Apr 1 06:56:23 2016 UTC (6 years, 3 months ago) by caltinay

sync with trunk and relicense new/moved files.

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Revision 6115 - Directory Listing
Modified Fri Apr 1 06:22:05 2016 UTC (6 years, 3 months ago) by caltinay

continue to make things more modular and make some dependencies clearer so
we can now actually do:
(minimal but useless build):
scons domains= weipa=0 paso=0 trilinos=0
(build ripley with trilinos solvers only):
scons domains=ripley paso=0 trilinos=1

Fixed some example scripts that weren't checking for domain availability.

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Revision 6111 - Directory Listing
Modified Thu Mar 31 08:08:51 2016 UTC (6 years, 3 months ago) by caltinay

starting to make things more modular...
...and removing paso profiling which doesn't work any more.

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Revision 6106 - Directory Listing
Modified Wed Mar 30 23:16:30 2016 UTC (6 years, 3 months ago) by caltinay

complex versions of solve and ypAx now implemented.

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Revision 6105 - Directory Listing
Modified Wed Mar 30 06:22:10 2016 UTC (6 years, 3 months ago) by caltinay

sync with trunk.

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Revision 6104 - Directory Listing
Modified Wed Mar 30 06:01:20 2016 UTC (6 years, 3 months ago) by caltinay

Factored out and templetized preconditioner,solver and direct solver creation.
The SystemMatrix constructor now takes an optional arg 'isComplex'.
Some complex operations are commented out as we need the complex getSampleData*
methods from trunk for them to work.

It looks like we have to modify the Abstract class in escript eventually as
there is a single method that takes a `double` argument (nullifyRowsAndCols).

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Revision 6101 - Directory Listing
Modified Tue Mar 29 05:42:30 2016 UTC (6 years, 3 months ago) by caltinay

minor code reduction by making paso distribution member a stl vector.

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Revision 6100 - Directory Listing
Modified Tue Mar 29 04:56:51 2016 UTC (6 years, 3 months ago) by caltinay

Fixed node IDs for 2D multiresolution ripley domains and added trilinos tests.

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Revision 6090 - Directory Listing
Modified Wed Mar 23 06:35:54 2016 UTC (6 years, 3 months ago) by caltinay

Simplified dudley PDE routines.

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Revision 6089 - Directory Listing
Modified Wed Mar 23 04:46:03 2016 UTC (6 years, 3 months ago) by caltinay

Fixing MPI issue.

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Revision 6085 - Directory Listing
Modified Tue Mar 22 06:58:00 2016 UTC (6 years, 3 months ago) by caltinay

added trilinos support for dudley.

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Revision 6081 - Directory Listing
Modified Mon Mar 21 12:31:39 2016 UTC (6 years, 3 months ago) by caltinay

I swear, it compiles!11!!

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Revision 6080 - Directory Listing
Modified Mon Mar 21 12:23:23 2016 UTC (6 years, 3 months ago) by caltinay

fix compiling without trilinos.

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Revision 6079 - Directory Listing
Modified Mon Mar 21 12:22:38 2016 UTC (6 years, 3 months ago) by caltinay

Big commit - making dudley much more like finley to make it more
managable. Fixed quite a few issues that had been fixed in finley.
Disposed of all ReducedNode/ReducedDOF entities that dudley never supported.
Compiles and passes tests.

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Revision 6062 - Directory Listing
Modified Fri Mar 11 04:58:19 2016 UTC (6 years, 3 months ago) by caltinay

added dudley trilinos tests. All failing for now.

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Revision 6059 - Directory Listing
Modified Thu Mar 10 07:04:41 2016 UTC (6 years, 3 months ago) by caltinay

Started teaching dudley how to use trilinos....

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Revision 6058 - Directory Listing
Modified Thu Mar 10 06:51:55 2016 UTC (6 years, 3 months ago) by caltinay

added getPtr() to AbstractSystemMatrix so we can now use shared systemmatrix
pointers rather than circumventing them.

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Revision 6055 - Directory Listing
Modified Thu Mar 10 03:34:13 2016 UTC (6 years, 3 months ago) by caltinay

added more trilinos tests to ripley.

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Revision 6054 - Directory Listing
Modified Thu Mar 10 03:13:50 2016 UTC (6 years, 3 months ago) by caltinay

added trilinos solver tests to finley.

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Revision 6053 - Directory Listing
Modified Thu Mar 10 03:13:16 2016 UTC (6 years, 3 months ago) by caltinay

fixed local row numbers. The previous version worked but only on non-optimized
domains.

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Revision 6052 - Directory Listing
Modified Thu Mar 10 03:11:47 2016 UTC (6 years, 3 months ago) by caltinay

- added missing fillComplete() call when matrix has been instantiated.
- added support for BiCGStab.
- switched to right-preconditioning if using BiCGStab (left is not supported in
Trilinos yet)
- now calling matrix->apply for mvp which is the recommended way.

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Revision 6051 - Directory Listing
Modified Thu Mar 10 03:09:26 2016 UTC (6 years, 3 months ago) by caltinay

Silence ParMETIS timing output and remove obsolete test file.

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Revision 6049 - Directory Listing
Modified Wed Mar 9 07:39:28 2016 UTC (6 years, 3 months ago) by caltinay

enclose assembly of trilinos matrix with resumeFill/fillComplete.

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Revision 6040 - Directory Listing
Modified Wed Mar 9 03:11:36 2016 UTC (6 years, 3 months ago) by caltinay

sync and add trilinos tests in ripley.

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Revision 6030 - Directory Listing
Modified Tue Mar 8 02:07:16 2016 UTC (6 years, 4 months ago) by caltinay

sync with the now stable trunk.

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Revision 6009 - Directory Listing
Modified Wed Mar 2 04:13:26 2016 UTC (6 years, 4 months ago) by caltinay

Much needed sync with trunk...

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Revision 5963 - Directory Listing
Modified Mon Feb 22 06:59:27 2016 UTC (6 years, 4 months ago) by caltinay

sync and fix.

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Revision 5941 - Directory Listing
Modified Thu Feb 18 11:04:11 2016 UTC (6 years, 4 months ago) by caltinay

rearrange some lines to have a contiguous parallel section.

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Revision 5940 - Directory Listing
Modified Thu Feb 18 10:53:56 2016 UTC (6 years, 4 months ago) by caltinay

We can now solve finley PDEs with Trilinos, but only on non-reduced FS for now.

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Revision 5937 - Directory Listing
Modified Thu Feb 18 04:16:29 2016 UTC (6 years, 4 months ago) by jfenwick

More type aliasing

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Revision 5935 - Directory Listing
Modified Thu Feb 18 03:46:40 2016 UTC (6 years, 4 months ago) by jfenwick

Switching some explicit double/comple with DataTypes aliases

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Revision 5934 - Directory Listing
Modified Thu Feb 18 03:05:32 2016 UTC (6 years, 4 months ago) by jfenwick

It now compiles and passes unit tests under mpi

The reduction stuff for complex is completely 
untested.
There have been some additions to manipulating
tags which are untested.

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Revision 5933 - Directory Listing
Modified Wed Feb 17 23:53:30 2016 UTC (6 years, 4 months ago) by caltinay

sync with trunk.

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Revision 5928 - Directory Listing
Modified Wed Feb 17 06:15:14 2016 UTC (6 years, 4 months ago) by jfenwick

C++11 options for sage

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Revision 5927 - Directory Listing
Modified Wed Feb 17 03:30:48 2016 UTC (6 years, 4 months ago) by jfenwick

Lsup etc updated to take complex into acccount.

All these reductions return real_t regardless of their input type.
Only ==0 and !=0 will permit complex inputs, others will object.

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Revision 5926 - Directory Listing
Modified Tue Feb 16 04:40:52 2016 UTC (6 years, 4 months ago) by jfenwick

Support more unary ops

Also removed some dead code.
Added checks and a list for function which aren't supported
with complex args.

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Revision 5925 - Directory Listing
Modified Tue Feb 16 03:36:17 2016 UTC (6 years, 4 months ago) by jfenwick

sin(z) now supported

Made enum version of C_TensorUnaryOperation in Data.cpp
Remove unnecessarily restrictive :: on unary functions 
  this had prevented the complex versions being picked up.
Added dummy versions for those which do not support complex inputs.
  -- anything which calls those should be trapped earlier.
Also still to be done, I noticed that C_TensorUnaryOperation is
using constructing redundant Data objects - can this be avoided?

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Revision 5924 - Directory Listing
Modified Mon Feb 15 10:45:39 2016 UTC (6 years, 4 months ago) by caltinay

moved typedefs and utility func to separate header.

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Revision 5922 - Directory Listing
Modified Fri Feb 12 04:53:06 2016 UTC (6 years, 4 months ago) by caltinay

query for different direct solvers and bail out if none found.

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Revision 5921 - Directory Listing
Modified Fri Feb 12 04:22:35 2016 UTC (6 years, 4 months ago) by jfenwick

removed ValueType.

Also added complex version of replaceNaN.
Fixed hasNaN.

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Revision 5920 - Directory Listing
Modified Thu Feb 11 14:52:21 2016 UTC (6 years, 4 months ago) by jfenwick

Passes unit tests with tagging

There is still dead code commented out which
needs to be cleaned up.

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Revision 5919 - Directory Listing
Modified Thu Feb 11 06:25:33 2016 UTC (6 years, 4 months ago) by caltinay

Added some direct solvers via Amesos2.

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Revision 5918 - Directory Listing
Modified Thu Feb 11 04:42:05 2016 UTC (6 years, 4 months ago) by jfenwick

Deleting an extra line

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Revision 5917 - Directory Listing
Modified Thu Feb 11 04:38:34 2016 UTC (6 years, 4 months ago) by jfenwick

Complex objects can now be .expand()ed

Also removed non-const versions of getPointOffset from the top of 
the hierachy (since they are redundant).

Complex objects can't be .tag()ed yet though.

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Revision 5916 - Directory Listing
Modified Wed Feb 10 23:32:19 2016 UTC (6 years, 4 months ago) by jfenwick

Renaming FloatVectorType to RealVectorType

for symmetry with CplxVector type and real_t

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Revision 5915 - Directory Listing
Modified Wed Feb 10 07:22:50 2016 UTC (6 years, 4 months ago) by jfenwick

All python arithmetic assignment ops "work".

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Revision 5914 - Directory Listing
Modified Wed Feb 10 06:15:12 2016 UTC (6 years, 4 months ago) by caltinay

Added support for more Trilinos preconditioners and solvers.
Need to think about how to deal with the wealth of options!

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Revision 5913 - Directory Listing
Modified Wed Feb 10 05:07:48 2016 UTC (6 years, 4 months ago) by jfenwick

Improvements +=

Fixed bug for <complex, complex>
+ operation is not hard coded.

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Revision 5912 - Directory Listing
Modified Wed Feb 10 03:48:24 2016 UTC (6 years, 4 months ago) by jfenwick

Work on +=

Some cases don't work yet (and the + operation is hardcoded). 

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Revision 5911 - Directory Listing
Modified Tue Feb 9 06:33:24 2016 UTC (6 years, 4 months ago) by caltinay

Can now solve with Trilinos on Bricks. Moved common code to superclass.
Still limited to blocksize 1 and CG.

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Revision 5910 - Directory Listing
Modified Tue Feb 9 03:24:30 2016 UTC (6 years, 4 months ago) by caltinay

switched to local indexing everywhere.
Not sure what to do about our threads interacting with threading in
Trilinos.

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Revision 5909 - Directory Listing
Modified Tue Feb 9 02:56:07 2016 UTC (6 years, 4 months ago) by jfenwick

Adding type discriminated versions of getVector.

I don't know which one (getVectorROC / getTypedVector) will
end up being the most useful.

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Revision 5908 - Directory Listing
Modified Mon Feb 8 06:44:52 2016 UTC (6 years, 4 months ago) by caltinay

working prototype for ripley Rectangles with block size 1.

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Revision 5907 - Directory Listing
Modified Mon Feb 8 06:44:20 2016 UTC (6 years, 4 months ago) by caltinay

macro rename to avoid clashes.

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Revision 5906 - Directory Listing
Modified Mon Feb 8 04:06:54 2016 UTC (6 years, 4 months ago) by jfenwick

Now support more binary operators

-, /, * supported.
Also:

>>> e=Data(math.e)
>>> pi=Data(math.pi)
>>> print e**(-pi*1j)
-1-1.22465e-16j

We still don't have support for assignment
operators.

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Revision 5905 - Directory Listing
Modified Mon Feb 8 01:46:09 2016 UTC (6 years, 4 months ago) by jfenwick

Addition now works with mixed types.

We can now add reals to complexes (and vice versa).
Main change here is that binary operations take multiple
template params to account for type mixing.
Fixed a bug in the binary tensor template where the wrong
type proxy was used.

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Revision 5904 - Directory Listing
Modified Mon Feb 8 01:21:32 2016 UTC (6 years, 4 months ago) by caltinay

added trilinoswrap library with working code, not integrated yet.

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Revision 5903 - Directory Listing
Modified Fri Feb 5 04:12:40 2016 UTC (6 years, 5 months ago) by caltinay

Added trilinos detection code.

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Revision 5902 - Directory Listing
Modified Fri Feb 5 04:12:10 2016 UTC (6 years, 5 months ago) by caltinay

merge from trunk so I don't have to deal with it later.

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Revision 5901 - Directory Listing
Modified Fri Feb 5 04:06:46 2016 UTC (6 years, 5 months ago) by jfenwick

Now copes with Data([3+4j, 7+1j])

After much frustrating debugging, I discovered that "next" in gdb
does not work on execeptions and catch clauses.

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Revision 5898 - Directory Listing
Modified Fri Feb 5 03:37:49 2016 UTC (6 years, 5 months ago) by caltinay

trilinos playground

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Revision 5897 - Directory Listing
Modified Fri Jan 29 05:29:24 2016 UTC (6 years, 5 months ago) by jfenwick

pointToString outputs complexes in python form

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Revision 5896 - Directory Listing
Modified Fri Jan 29 03:43:52 2016 UTC (6 years, 5 months ago) by jfenwick

Can now add two complex constant data together.

getDataAtOffsetRO and getDataAtOffsetRW now take an extra dummy param.
The type of this parameter determines whether the method returns a
real reference or a complex reference.
The rationale for this method is that it works in templated functions (without
needing to have type checking logic).
At the lower levels (DataAbstract etc) there are separate real and complex versions.
eg: getVectorRW vs getVectorRWC

tensor_binary_operation is templated instead of always expecting doubles.

Modified the MAKELAZYBIN2 macro to prevent it being called with complex.

Weaknesses in the work so far.
- Creating a Constant and then complicate()ing it is fine, but it would be better
if we could create Data objects with the appropriate complexity. This would seem like
a job for an optional parameter on the Data constructors. Problem is, there are already
a number of optionals there already (functionspace and expanded). So it does not make sense
to just add another one and hope the booleans line up.  Looks like we would need to remove
the current uses of the optional params; ie make all uses supply all required arguments.
Not all of the constructors would need the param though, because some could infer it from
the arguments.

- Should do something about trapping calls to the wrong form of getVectorRW/getVectorRWC.

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Revision 5895 - Directory Listing
Modified Thu Jan 28 09:01:35 2016 UTC (6 years, 5 months ago) by jfenwick

Adding "promote()" to the python interface. Blocking complex ops

Need to think of a better name perhaps although it probably won't
be used that often.
Added macro checks to throw when operations are called with complex args.

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Revision 5894 - Directory Listing
Modified Thu Jan 28 08:59:33 2016 UTC (6 years, 5 months ago) by jfenwick

Adding virtual DataAbstract::complicate()

The complicate method makes things (data) complex.
It is only implemented for Constant at the moment.

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Revision 5893 - Directory Listing
Modified Thu Jan 28 04:42:10 2016 UTC (6 years, 5 months ago) by jfenwick

Updating some options files to require c++11

Bumped the required version of options files to 203.
Modified cxx_extra to include -std=c++11.
I have not updated all the options files,
 my reasoning here is that I don't want to commit
 updates until those machines/platforms have been
 properly tested.
Other issues with this version:
  It doesn't actually build on savanna unless cuda is
  disabled.  nvcc chokes on decltype lines in Data.h
  We'll need to get nvcc to ignore that part of the file somehow.

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Revision 5892 - Directory Listing
Modified Thu Jan 28 04:10:19 2016 UTC (6 years, 5 months ago) by jfenwick

Now compiles with MPI.

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Revision 5891 - Directory Listing
Modified Thu Jan 28 02:19:30 2016 UTC (6 years, 5 months ago) by jfenwick

Add missing file

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Revision 5890 - Directory Listing
Modified Thu Jan 28 01:44:46 2016 UTC (6 years, 5 months ago) by jfenwick

Added appendix to install the guide for required c++ features

Given that we are now depending on c++11 for some things,
it seems a good idea to warn people what they will need (or
what could go wrong if their compiler is buggy).
This dependency bump will primarily be of interest for windows builds.

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Revision 5889 - Directory Listing
Modified Thu Jan 28 01:14:32 2016 UTC (6 years, 5 months ago) by jfenwick

DataConstant can now hold and print complexes

Thanks to some help from Cihan, the template specialisation can
now coexist with the general one.
Since this depends on the c++11 extern template feaure,
we need to list those dependencies somewhere.

Note: DataComplex can't do anything else with complexes yet.
To attempt it results in a crash.

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Revision 5888 - Directory Listing
Modified Wed Jan 27 07:00:49 2016 UTC (6 years, 5 months ago) by jfenwick

Incomplete work on complex DataConstants

z=Data(7+2j)
print z

does't crash but it gives
(nan,0)

The problem is that copyFromArrayToOffset<T>  calls getElt() and friends -
  - which are set to always return doubles.
This means we need to have an explicit specialisation of 
  copyFromArrayToOffset<cplx_t>
  which pulls complex values.

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Revision 5887 - Directory Listing
Modified Wed Jan 27 05:09:22 2016 UTC (6 years, 5 months ago) by jfenwick

Some type renaming

Changing references to DataTypes::DataVector into DataTypes::FloatVectorType.
Trying to do a consistant naming for complex based types (which leads to
 CmplxVectorType -> CplxVectorType).
I'm not sure I like the _Type on the end of those so that might change.
DataExpanded now references m_data_r instead of m_data.

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Revision 5886 - Directory Listing
Modified Wed Jan 27 03:47:44 2016 UTC (6 years, 5 months ago) by jfenwick

Remove DataBlocks2D files and tests.

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Revision 5885 - Directory Listing
Modified Wed Jan 27 03:35:42 2016 UTC (6 years, 5 months ago) by jfenwick

Removing dependence on DataBlocks2D

The difficulty with this class is that it obfuscates
storage in DataExpanded without giving us any real benefit.
Removing it also means we don't need to make a complex
compatible version.

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Revision 5884 - Directory Listing
Modified Fri Jan 22 13:17:26 2016 UTC (6 years, 5 months ago) by jfenwick

Adding complex member to Tagged. Not used yet.

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Revision 5883 - Directory Listing
Modified Thu Jan 21 06:37:39 2016 UTC (6 years, 5 months ago) by jfenwick

Fixing signedness mismatch in random

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Revision 5882 - Directory Listing
Modified Thu Jan 21 04:23:59 2016 UTC (6 years, 5 months ago) by jfenwick

Adding a complex storage member to DataConstant.
It doesn't do anything yet. The changes were in renaming m_data to m_data_r.

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Revision 5881 - Directory Listing
Modified Thu Jan 21 04:21:25 2016 UTC (6 years, 5 months ago) by jfenwick

TensorOps functions are now defined in terms of template parameters rather
than using "double" directly.
This uses the typeinfo and c++11 feature decltype.
This commit does not necessarily fix the functions which TensorOps 
call but it passes unit tests for now.

Also replaced all <double (*)(double) > instantiations with function objects.

This commit does not force c++11 compilation in options files so
if your options are not configured properly you may have compile issues.

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Revision 5880 - Directory Listing
Modified Thu Jan 21 03:11:33 2016 UTC (6 years, 5 months ago) by jfenwick

C++11 requires std::isnan to exist

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Revision 5879 - Directory Listing
Modified Thu Jan 21 03:00:21 2016 UTC (6 years, 5 months ago) by jfenwick

The register keyword is deprecated and so has no place in our utopia.

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Revision 5878 - Directory Listing
Modified Wed Jan 20 07:23:48 2016 UTC (6 years, 5 months ago) by jfenwick

isComplex and conjugate methods added to Data.
We don't actually store complex values yet.

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Revision 5877 - Directory Listing
Modified Wed Jan 20 07:09:38 2016 UTC (6 years, 5 months ago) by jfenwick

Making copySelf() (and supporting methods) const.
Not sure why they weren't - I blame Python.

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Revision 5876 - Directory Listing
Modified Wed Jan 20 05:51:39 2016 UTC (6 years, 5 months ago) by jfenwick

Using malloced chunk rather than trying to cheat vector s reserve

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Revision 5875 - Directory Listing
Modified Fri Jan 15 04:52:16 2016 UTC (6 years, 5 months ago) by jfenwick

Correcting some types on loop counters because it bugs me.
Not really anything to do with the complex version.

---

Revision 5874 - Directory Listing
Modified Fri Jan 15 04:18:16 2016 UTC (6 years, 5 months ago) by jfenwick

Moved DataVector into escript::DataTypes (from escript).
Converted DataVectorAlt into a template (only instantiating for double atm).
Split out the implmentations for the DataVectors into separate files.

---

Revision 5873 - Directory Listing
Modified Fri Jan 15 01:56:05 2016 UTC (6 years, 5 months ago) by jfenwick

Trying to disentangle DataTypes.h and DataVector.h from each other.
DataTypes.h does not depend on DataVector at all anymore.
The contents of the DataTypes:: namespace is spread across DataTypes.h
 and DataVector.h now.

The aim is to get to a point where we can template DataVector without 
everything blowing up.

---

Revision 5870 - Directory Listing
Modified Thu Jan 14 06:50:47 2016 UTC (6 years, 5 months ago) by jfenwick

Made space in wrapped array for complex values as well.
Note: This code passes existing unit tests (for double values) but the complex functionality is 
_completely_ untested.

---

Revision 5869 - Directory Listing
Modified Wed Jan 13 07:44:57 2016 UTC (6 years, 5 months ago) by jfenwick

Fixing another bad naming case

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Revision 5868 - Directory Listing
Modified Wed Jan 13 07:23:44 2016 UTC (6 years, 5 months ago) by jfenwick

Adding an alternate DataVector which does not use Taipan

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Revision 5867 - Directory Listing
Modified Wed Jan 13 05:42:56 2016 UTC (6 years, 5 months ago) by jfenwick

Renaming typedef for the vector storage for easier reading.

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Revision 5866 - Directory Listing
Modified Wed Jan 13 03:13:08 2016 UTC (6 years, 5 months ago) by jfenwick

Trying again to branch

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Revision 5865 - Directory Listing
Modified Wed Jan 13 03:12:29 2016 UTC (6 years, 5 months ago) by jfenwick

Noooooooooooooo too much copy

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Revision 5864 - Directory Listing
Modified Wed Jan 13 03:11:44 2016 UTC (6 years, 5 months ago) by jfenwick

experiments on complex values

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Revision 5850 - Directory Listing
Modified Wed Dec 9 22:37:39 2015 UTC (6 years, 6 months ago) by jfenwick

Undoing changes which belong in d/patches

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Revision 5849 - Directory Listing
Modified Wed Dec 9 05:53:00 2015 UTC (6 years, 6 months ago) by jfenwick

Trying to dh-ify teh rules

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Revision 5848 - Directory Listing
Modified Wed Dec 2 06:57:49 2015 UTC (6 years, 7 months ago) by jfenwick

get dh_shlibdeps to include just build libraries in its checks

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Revision 5847 - Directory Listing
Modified Tue Dec 1 03:26:46 2015 UTC (6 years, 7 months ago) by jfenwick

Patches on 4.1 to debianise it

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Revision 5846 - Directory Listing
Modified Tue Dec 1 01:50:50 2015 UTC (6 years, 7 months ago) by jfenwick

Fix version number (removing reference to the pre-release)

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Revision 5844 - Directory Listing
Modified Fri Nov 27 05:15:49 2015 UTC (6 years, 7 months ago) by jfenwick

Fix python3 copy of py files (ignore __pycache__)

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Revision 5843 - Directory Listing
Modified Fri Nov 27 04:13:56 2015 UTC (6 years, 7 months ago) by jfenwick

lintian is now happy with the doc package

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Revision 5842 - Directory Listing
Modified Fri Nov 27 04:13:31 2015 UTC (6 years, 7 months ago) by jfenwick

Applying spelling fix I missed from trunk

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Revision 5841 - Directory Listing
Modified Fri Nov 27 01:56:13 2015 UTC (6 years, 7 months ago) by jfenwick

Trying to get docbase registration added

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Revision 5840 - Directory Listing
Modified Fri Nov 27 01:53:11 2015 UTC (6 years, 7 months ago) by jfenwick

renaming doxygen target for install

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Revision 5839 - Directory Listing
Modified Fri Nov 27 00:34:04 2015 UTC (6 years, 7 months ago) by jfenwick

missed one

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Revision 5838 - Directory Listing
Modified Fri Nov 27 00:23:36 2015 UTC (6 years, 7 months ago) by jfenwick

moving the debian/ out of the way

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Revision 5837 - Directory Listing
Modified Fri Nov 27 00:21:40 2015 UTC (6 years, 7 months ago) by jfenwick

Hopefully, this is all the changes after the 4.1 release (so far) which 
were made to make debian happier

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Revision 5836 - Directory Listing
Modified Fri Nov 27 00:03:56 2015 UTC (6 years, 7 months ago) by jfenwick

backporting debianising fixes from after 4.1 --- do not merge back into trunk

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Revision 5597 - Directory Listing
Modified Thu Apr 30 03:36:30 2015 UTC (7 years, 2 months ago) by jfenwick

Changes after Jessie update

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Revision 5596 - Directory Listing
Modified Thu Apr 30 00:13:43 2015 UTC (7 years, 2 months ago) by jfenwick

To work around that warning

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Revision 5595 - Directory Listing
Modified Thu Apr 30 00:01:11 2015 UTC (7 years, 2 months ago) by jfenwick

So some things were missing

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Revision 5578 - Directory Listing
Modified Fri Apr 3 11:46:53 2015 UTC (7 years, 3 months ago) by jfenwick

More changes from git

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Revision 5577 - Directory Listing
Modified Fri Apr 3 05:26:15 2015 UTC (7 years, 3 months ago) by jfenwick

Fixes to make us more lintian compliant (copied across from private git)

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Revision 5570 - Directory Listing
Modified Fri Mar 27 23:19:59 2015 UTC (7 years, 3 months ago) by jfenwick

more changes to fit science policy - more to do

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Revision 5569 - Directory Listing
Modified Fri Mar 27 04:50:14 2015 UTC (7 years, 3 months ago) by jfenwick

Notes on where I am up to.
Compressing man page.
Added python version fields to control

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Revision 5566 - Directory Listing
Modified Fri Mar 27 00:35:24 2015 UTC (7 years, 3 months ago) by jfenwick

Branch for changes dealing with hopefully debian packaging.

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Revision 5552 - Directory Listing
Modified Fri Mar 20 05:49:57 2015 UTC (7 years, 3 months ago) by jfenwick

It doesnt run properly

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Revision 5551 - Directory Listing
Modified Fri Mar 20 01:25:10 2015 UTC (7 years, 3 months ago) by jfenwick

Another experiment on downunder

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Revision 5530 - Directory Listing
Modified Wed Mar 11 23:39:58 2015 UTC (7 years, 3 months ago) by jfenwick

Finally making the modded script available.   Some other tweaks

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Revision 5512 - Directory Listing
Modified Fri Mar 6 04:22:49 2015 UTC (7 years, 4 months ago) by jfenwick

Progress, but doesnt work yet

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Revision 5511 - Directory Listing
Modified Fri Mar 6 04:05:46 2015 UTC (7 years, 4 months ago) by jfenwick

For better answers, use the correct field as line number.

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Revision 5509 - Directory Listing
Modified Fri Mar 6 00:51:59 2015 UTC (7 years, 4 months ago) by jfenwick

Nifty function to get string form of a python exception in c++

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Revision 5505 - Directory Listing
Modified Wed Mar 4 23:05:47 2015 UTC (7 years, 4 months ago) by jfenwick

Changes which were sitting in my trunk dir

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Revision 5504 - Directory Listing
Modified Wed Mar 4 22:58:13 2015 UTC (7 years, 4 months ago) by jfenwick

Again with a more up to date copy

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Revision 5501 - Directory Listing
Modified Fri Feb 27 01:42:09 2015 UTC (7 years, 4 months ago) by jfenwick

Adding local only variables and deferred config for regularizations

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Revision 5500 - Directory Listing
Modified Fri Feb 27 01:36:22 2015 UTC (7 years, 4 months ago) by jfenwick

An area where I can hack on inversion without breaking everything else.

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Revision 5415 - Directory Listing
Modified Tue Dec 23 23:31:47 2014 UTC (7 years, 6 months ago) by jfenwick

For experiments with the new netcdf

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Revision 5147 - Directory Listing
Modified Fri Sep 12 00:33:02 2014 UTC (7 years, 9 months ago) by caltinay

merge to latest trunk.

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Revision 5146 - Directory Listing
Modified Thu Sep 11 06:29:28 2014 UTC (7 years, 9 months ago) by caltinay

Check for CUDA devices only once when target=GPU.

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Revision 5144 - Directory Listing
Modified Thu Sep 11 02:56:56 2014 UTC (7 years, 9 months ago) by caltinay

fix to find changes in cusp automatically from scons.

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Revision 5141 - Directory Listing
Modified Wed Sep 10 05:50:35 2014 UTC (7 years, 9 months ago) by caltinay

Minor.

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Revision 5137 - Directory Listing
Modified Wed Sep 10 04:01:57 2014 UTC (7 years, 9 months ago) by caltinay

Implmented CGLS method with fixed shift for now.

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Revision 5136 - Directory Listing
Modified Tue Sep 9 07:13:55 2014 UTC (7 years, 9 months ago) by caltinay

ripley now supports paso solvers again and returns an appropriate matrix type
id. Changed the getSystemMatrixTypeId() method to take a full SolverBuddy
instance and made some other simplifications.

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Revision 5135 - Directory Listing
Modified Mon Sep 8 07:17:34 2014 UTC (7 years, 9 months ago) by caltinay

Added and renamed Solver Options. Still need to update some tests.

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Revision 5134 - Directory Listing
Modified Mon Sep 8 01:41:21 2014 UTC (7 years, 9 months ago) by caltinay

Constness fixes.

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Revision 5131 - Directory Listing
Modified Thu Sep 4 06:42:18 2014 UTC (7 years, 10 months ago) by caltinay

fixed order of arguments for dia/csr->cds conversion.

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Revision 5130 - Directory Listing
Modified Tue Sep 2 06:09:54 2014 UTC (7 years, 10 months ago) by caltinay

Implemented transposed SpMV for DIA and CDS on CPU and GPU.
Added LSQR solver, not optimized yet but works in general.

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Revision 5122 - Directory Listing
Modified Thu Aug 21 04:32:39 2014 UTC (7 years, 10 months ago) by caltinay

Fast-forward to latest trunk to be able to use both Paso or cusp.

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Revision 5095 - Directory Listing
Modified Fri Jul 11 05:54:25 2014 UTC (7 years, 11 months ago) by caltinay

Added implementation of column diagonal storage (CDS) matrix format
and relevant operations within cusp to allow solving for block sizes > 1.
Added exception if trying to solve with more than one rank.
Minor clean up.

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Revision 5086 - Directory Listing
Modified Mon Jun 30 02:31:20 2014 UTC (8 years ago) by caltinay

tweak to set some flags only to nvcc and move THRUST_*_SYSTEM defs to the
scons file.

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Revision 5085 - Directory Listing
Modified Mon Jun 30 01:20:41 2014 UTC (8 years ago) by caltinay

Make nvcc really configurable and report version, fail when not found.

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Revision 5084 - Directory Listing
Modified Sun Jun 29 23:29:51 2014 UTC (8 years ago) by caltinay

Fast forward to latest trunk which has had an impressive number of changes...

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Revision 5083 - Directory Listing
Modified Sun Jun 29 23:11:11 2014 UTC (8 years ago) by caltinay

make compute capability 3.0 default on gerbil

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Revision 5075 - Directory Listing
Modified Tue Jun 24 03:23:04 2014 UTC (8 years ago) by caltinay

updated options file for gerbil

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Revision 5070 - Directory Listing
Modified Mon Jun 23 03:38:45 2014 UTC (8 years ago) by caltinay

Use Jacobi preconditioner if requested and don't be verbose unless
set by user. Also, avoid copying matrix to device if unmodified.
Plus store list of available CUDA devices so a future option can set
which ones to use.

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Revision 5068 - Directory Listing
Modified Fri Jun 20 06:29:22 2014 UTC (8 years ago) by jfenwick

Broken but logging changes

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Revision 5065 - Directory Listing
Modified Fri Jun 20 05:49:52 2014 UTC (8 years ago) by caltinay

Proof-of-concept 2:
matrix assembly on CPU as before, solving via cusp-based dia matrix on CPU
or GPU according to options.
CPU->GPU copy time is in the order of 1-2% of solver time,
solver speed-up is nice.
Unfortunately, no MPI support in cusp so this is just to confirm that
it makes sense to pursue further with custom solvers using thrust.

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Revision 5064 - Directory Listing
Modified Fri Jun 20 05:24:53 2014 UTC (8 years ago) by caltinay

only add nvcc tool if cuda enabled. Also bumped opts version.

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Revision 5063 - Directory Listing
Modified Fri Jun 20 05:23:26 2014 UTC (8 years ago) by caltinay

hmpf...typos

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Revision 5062 - Directory Listing
Modified Fri Jun 20 05:22:25 2014 UTC (8 years ago) by caltinay

added solver options for target (CPU/GPU)

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Revision 5053 - Directory Listing
Modified Fri Jun 20 00:36:10 2014 UTC (8 years ago) by caltinay

nvcc options and cusp install.

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Revision 5052 - Directory Listing
Modified Thu Jun 19 22:28:26 2014 UTC (8 years ago) by jfenwick

Need somewhere to park my changes

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Revision 4988 - Directory Listing
Modified Wed Jun 4 01:15:10 2014 UTC (8 years, 1 month ago) by caltinay

merge to current trunk

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Revision 4987 - Directory Listing
Modified Wed Jun 4 00:59:41 2014 UTC (8 years, 1 month ago) by caltinay

scons nvcc tool.

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Revision 4958 - Directory Listing
Modified Wed May 21 01:32:53 2014 UTC (8 years, 1 month ago) by caltinay

merge more unittest2 wrapping.

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Revision 4956 - Directory Listing
Modified Tue May 20 12:34:41 2014 UTC (8 years, 1 month ago) by caltinay

minor changes to cusp to allow compilation with -pedantic and -Werror.
One bug fix in spmv_dia.

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Revision 4955 - Directory Listing
Modified Tue May 20 04:33:15 2014 UTC (8 years, 1 month ago) by caltinay

added pristine copy of cusplibrary (apache license) to be used by ripley.

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Revision 4953 - Directory Listing
Modified Tue May 20 03:58:35 2014 UTC (8 years, 1 month ago) by caltinay

Cherry picked downunder bug fix and unittest2 integration.

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Revision 4952 - Directory Listing
Modified Tue May 20 03:43:04 2014 UTC (8 years, 1 month ago) by caltinay

Copy of 3.4.2

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Revision 4951 - Directory Listing
Modified Tue May 20 03:42:49 2014 UTC (8 years, 1 month ago) by caltinay

Nope.

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Revision 4950 - Directory Listing
Modified Tue May 20 03:42:09 2014 UTC (8 years, 1 month ago) by caltinay

copy of release 3.4.2.

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Revision 4949 - Directory Listing
Modified Mon May 19 05:54:58 2014 UTC (8 years, 1 month ago) by caltinay

Fast forward to current trunk rev 4947.
All tests that don't require a direct solver pass without MPI.

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Revision 4948 - Directory Listing
Modified Mon May 19 04:47:10 2014 UTC (8 years, 1 month ago) by caltinay

fixed a typo. All tests pass now without MPI.

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Revision 4946 - Directory Listing
Modified Fri May 16 05:13:21 2014 UTC (8 years, 1 month ago) by caltinay

few fixes.

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Revision 4944 - Directory Listing
Modified Thu May 15 07:00:46 2014 UTC (8 years, 1 month ago) by caltinay

blocksize >1 lookin' good...

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Revision 4941 - Directory Listing
Modified Thu May 15 01:49:48 2014 UTC (8 years, 1 month ago) by caltinay

first proof of concept - self-contained ripley system matrix with diagonal
storage, CG solver, no preconditioner, no MPI, no blocks, quite a few
quick'n'dirty hacks.
Solves poisson faster than paso :-)

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Revision 4940 - Directory Listing
Modified Thu May 15 01:40:06 2014 UTC (8 years, 1 month ago) by caltinay

A branch to have fun with diagonal storage for ripley.

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Revision 4933 - Directory Listing
Modified Mon May 12 08:22:33 2014 UTC (8 years, 1 month ago) by jfenwick

Merged up to 4932

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Revision 4932 - Directory Listing
Modified Mon May 12 07:53:34 2014 UTC (8 years, 1 month ago) by jfenwick

Merged trunk up to 4929

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Revision 4813 - Directory Listing
Modified Thu Mar 27 07:57:49 2014 UTC (8 years, 3 months ago) by jfenwick

Blocking some uses of MPI_COMM_WORLD

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Revision 4812 - Directory Listing
Modified Thu Mar 27 07:41:59 2014 UTC (8 years, 3 months ago) by jfenwick

adding missing file

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Revision 4808 - Directory Listing
Modified Thu Mar 27 05:34:14 2014 UTC (8 years, 3 months ago) by jfenwick

More work towards export

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Revision 4804 - Directory Listing
Modified Wed Mar 26 07:28:27 2014 UTC (8 years, 3 months ago) by jfenwick

More Esys_MPI cleanup

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Revision 4802 - Directory Listing
Modified Wed Mar 26 05:48:28 2014 UTC (8 years, 3 months ago) by jfenwick

Some work towards exporting.

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Revision 4796 - Directory Listing
Modified Mon Mar 24 04:57:35 2014 UTC (8 years, 3 months ago) by jfenwick

Some work towards merge functions

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Revision 4790 - Directory Listing
Modified Fri Mar 21 01:46:38 2014 UTC (8 years, 3 months ago) by jfenwick

Subworld changes to dudley

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Revision 4785 - Directory Listing
Modified Thu Mar 20 23:48:43 2014 UTC (8 years, 3 months ago) by jfenwick

Fixed issue with finley domains not respecting escriptworld

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Revision 4784 - Directory Listing
Modified Thu Mar 20 09:31:14 2014 UTC (8 years, 3 months ago) by jfenwick

Compiles and passes unit tests with extra JMPI params. However It isnt working with SubWorld yet.

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Revision 4774 - Directory Listing
Modified Wed Mar 19 06:45:39 2014 UTC (8 years, 3 months ago) by jfenwick

Runs a mixture of jobs with no exports

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Revision 4773 - Directory Listing
Modified Wed Mar 19 06:19:42 2014 UTC (8 years, 3 months ago) by jfenwick

Fixing Data to use the domain's communicator.
Like it should!

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Revision 4763 - Directory Listing
Modified Tue Mar 18 05:20:23 2014 UTC (8 years, 3 months ago) by jfenwick

Replaced references to getSampleDataRO(0) with getDataRO()
This was to deal with the case where processes with no data where trying to compute the offset of sample 0 when all that was really needed was a null.

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Revision 4762 - Directory Listing
Modified Tue Mar 18 01:31:20 2014 UTC (8 years, 3 months ago) by jfenwick

I do not know why I took this out

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Revision 4757 - Directory Listing
Modified Mon Mar 17 04:04:24 2014 UTC (8 years, 3 months ago) by jfenwick

Missed reference to MPI_info.  This version builds but fails under sages options file

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Revision 4756 - Directory Listing
Modified Mon Mar 17 03:31:28 2014 UTC (8 years, 3 months ago) by jfenwick

compiles

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Revision 4752 - Directory Listing
Modified Mon Mar 17 00:21:08 2014 UTC (8 years, 3 months ago) by jfenwick

Restoring odd error function in case we need it

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Revision 4750 - Directory Listing
Modified Fri Mar 14 06:13:47 2014 UTC (8 years, 3 months ago) by jfenwick

It doesn't actually compile but there are a lot of changes here and I don't
want to loose them.

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Revision 4747 - Directory Listing
Modified Thu Mar 13 22:52:45 2014 UTC (8 years, 3 months ago) by jfenwick

switching begins

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Revision 4746 - Directory Listing
Modified Thu Mar 13 06:23:15 2014 UTC (8 years, 3 months ago) by jfenwick

Code to gather information about exceptions on remote worlds
and rethrow to all ranks in all worlds.

Note: If this exception brings down the world, then some ranks may be
killed by the MPI system before the exception reaches _their_ top level.

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Revision 4745 - Directory Listing
Modified Thu Mar 13 00:00:06 2014 UTC (8 years, 3 months ago) by jfenwick

Suddenly segfaulting and I don\'t know why. Need to add the non-mpi checks so I can debug it.   Also changed the params of the Job constructor so that our extra info is added via kwargs

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Revision 4736 - Directory Listing
Modified Tue Mar 11 05:57:11 2014 UTC (8 years, 3 months ago) by jfenwick

I did some things

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Revision 4734 - Directory Listing
Modified Mon Mar 10 06:38:54 2014 UTC (8 years, 3 months ago) by jfenwick

Run skeleton jobs with no params.

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Revision 4732 - Directory Listing
Modified Mon Mar 10 04:20:03 2014 UTC (8 years, 3 months ago) by jfenwick

File rename

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Revision 4731 - Directory Listing
Modified Mon Mar 10 04:16:07 2014 UTC (8 years, 3 months ago) by jfenwick

Creating empty Jobs

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Revision 4730 - Directory Listing
Modified Mon Mar 10 00:24:45 2014 UTC (8 years, 3 months ago) by jfenwick

Some missing files

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Revision 4725 - Directory Listing
Modified Thu Mar 6 07:31:59 2014 UTC (8 years, 4 months ago) by jfenwick

Manages to build a domain. Doesn't do anything with it yet.

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Revision 4724 - Directory Listing
Modified Thu Mar 6 05:22:12 2014 UTC (8 years, 4 months ago) by jfenwick

Work towards parallel domains

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Revision 4596 - Directory Listing
Modified Thu Dec 12 03:22:21 2013 UTC (8 years, 6 months ago) by sshaw

fixed date format for debian package changelog

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Revision 4595 - Directory Listing
Modified Thu Dec 12 03:16:58 2013 UTC (8 years, 6 months ago) by jfenwick

Updated changelog for release 3.4.1

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Revision 4594 - Directory Listing
Modified Thu Dec 12 03:10:35 2013 UTC (8 years, 6 months ago) by sshaw

minor formatting changes for changelog

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Revision 4593 - Directory Listing
Modified Thu Dec 12 03:09:21 2013 UTC (8 years, 6 months ago) by jfenwick

Updating version number and adding test for random

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Revision 4592 - Directory Listing
Modified Thu Dec 12 01:53:50 2013 UTC (8 years, 6 months ago) by sshaw

fixed location of future imports, added 3.4.1 changelog

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Revision 4591 - Directory Listing
Modified Thu Dec 12 01:40:18 2013 UTC (8 years, 6 months ago) by sshaw

more python2 style prints discovered and fixed (importing print from future)

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Revision 4590 - Directory Listing
Modified Thu Dec 12 00:17:03 2013 UTC (8 years, 6 months ago) by sshaw

more informatively wrapped crashes if obspy not installed

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Revision 4589 - Directory Listing
Modified Wed Dec 11 23:33:37 2013 UTC (8 years, 6 months ago) by sshaw

more uint->unsigned int

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Revision 4588 - Directory Listing
Modified Wed Dec 11 23:29:29 2013 UTC (8 years, 6 months ago) by sshaw

moving 'unused' variables into MPI specific section where they are used

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Revision 4587 - Directory Listing
Modified Wed Dec 11 06:17:09 2013 UTC (8 years, 6 months ago) by jfenwick

Preparation begins

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Revision 4488 - Directory Listing
Modified Thu Jun 27 23:37:26 2013 UTC (9 years ago) by jfenwick

Fix release version in docs

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Revision 4487 - Directory Listing
Modified Thu Jun 27 08:13:46 2013 UTC (9 years ago) by jfenwick

Actually describing raring files

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Revision 4486 - Directory Listing
Modified Thu Jun 27 06:38:38 2013 UTC (9 years ago) by jfenwick

And again

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Revision 4485 - Directory Listing
Modified Thu Jun 27 04:49:16 2013 UTC (9 years ago) by jfenwick

Put back suggests.
Added explicit install step for deps

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Revision 4484 - Directory Listing
Modified Wed Jun 26 02:37:55 2013 UTC (9 years ago) by jfenwick

fix some install doc. Move all suggests to recommends because aptitude doesnt have an auto install suggests

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Revision 4475 - Directory Listing
Modified Wed Jun 19 08:54:55 2013 UTC (9 years ago) by jfenwick

BAH!!!!!!!!!!!!!!

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Revision 4473 - Directory Listing
Modified Wed Jun 19 06:40:28 2013 UTC (9 years ago) by caltinay

Fixed mismatched new[], delete.

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Revision 4472 - Directory Listing
Modified Wed Jun 19 06:39:49 2013 UTC (9 years ago) by jfenwick

forgot to add

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Revision 4471 - Directory Listing
Modified Wed Jun 19 04:53:47 2013 UTC (9 years ago) by jfenwick

Removing some code. Fixing a reference in the rules file which I missed.

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Revision 4470 - Directory Listing
Modified Wed Jun 19 04:34:02 2013 UTC (9 years ago) by caltinay

Do not leak index lists and removed unused type in test.

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Revision 4469 - Directory Listing
Modified Wed Jun 19 02:49:33 2013 UTC (9 years ago) by jfenwick

Moving all the packaging stuff

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Revision 4468 - Directory Listing
Modified Tue Jun 18 09:01:06 2013 UTC (9 years ago) by jfenwick

Making rules file executable and shuffle scons calls

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Revision 4467 - Directory Listing
Modified Tue Jun 18 01:31:19 2013 UTC (9 years ago) by jfenwick

Removing some debug that was there before

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Revision 4466 - Directory Listing
Modified Mon Jun 17 11:38:21 2013 UTC (9 years ago) by jfenwick

Take into account moved options files. Parallel builds now

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Revision 4464 - Directory Listing
Modified Mon Jun 17 06:42:41 2013 UTC (9 years ago) by caltinay

Reverted inversion doc intro part 2 to older revision to reintroduce figure
which is in a new chapter not released yet.
Removed all references to coordinate systems.
No undefined references left in tex output.

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Revision 4460 - Directory Listing
Modified Fri Jun 14 08:06:47 2013 UTC (9 years ago) by caltinay

Mention voxet writer in changes.

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Revision 4459 - Directory Listing
Modified Fri Jun 14 05:20:11 2013 UTC (9 years ago) by jfenwick

Removed index from cookbook. Added changes list

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Revision 4458 - Directory Listing
Modified Fri Jun 14 04:22:32 2013 UTC (9 years ago) by jfenwick

Fixes to install guide

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Revision 4457 - Directory Listing
Modified Fri Jun 14 04:14:42 2013 UTC (9 years ago) by jfenwick

forgot about homebrew

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Revision 4456 - Directory Listing
Modified Thu Jun 13 03:24:36 2013 UTC (9 years ago) by caltinay

Merged doco changes from trunk.

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Revision 4453 - Directory Listing
Modified Thu Jun 13 01:42:53 2013 UTC (9 years ago) by jfenwick

Coz we don't name releases like that

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Revision 4452 - Directory Listing
Modified Thu Jun 13 01:40:40 2013 UTC (9 years ago) by jfenwick

In preparation for release.

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Revision 4427 - Directory Listing
Modified Mon May 27 23:36:36 2013 UTC (9 years, 1 month ago) by jfenwick

testing a branch

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Revision 4413 - Directory Listing
Modified Thu May 16 05:35:29 2013 UTC (9 years, 1 month ago) by jfenwick

fixed

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Revision 4412 - Directory Listing
Modified Wed May 15 10:52:56 2013 UTC (9 years, 1 month ago) by jfenwick

Added missing start.py
This version removes some stray import from esys.escript in escriptcore.
However, it breaks the tests due a problem import in mountains.
It's late 

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Revision 4411 - Directory Listing
Modified Wed May 15 09:20:35 2013 UTC (9 years, 1 month ago) by jfenwick

Now passes all unit tests.  Not sure if * imports have been removed

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Revision 4409 - Directory Listing
Modified Tue May 14 07:14:39 2013 UTC (9 years, 1 month ago) by jfenwick

incomplete experiment

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Revision 4403 - Directory Listing
Modified Fri May 10 06:08:02 2013 UTC (9 years, 1 month ago) by jfenwick

phase1

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Revision 4402 - Directory Listing
Modified Fri May 10 05:34:26 2013 UTC (9 years, 1 month ago) by jfenwick

Different experiment

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Revision 4401 - Directory Listing
Modified Fri May 10 05:14:06 2013 UTC (9 years, 1 month ago) by jfenwick

Trying a directory swap

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Revision 4351 - Directory Listing
Modified Wed Apr 3 22:12:02 2013 UTC (9 years, 3 months ago) by jfenwick

doesnt work yet

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Revision 4350 - Directory Listing
Modified Wed Apr 3 21:56:59 2013 UTC (9 years, 3 months ago) by jfenwick

coz they done broke it

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Revision 4345 - Directory Listing
Modified Fri Mar 29 07:09:41 2013 UTC (9 years, 3 months ago) by jfenwick

Spelling fixes

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Revision 4338 - Directory Listing
Modified Fri Mar 22 02:20:37 2013 UTC (9 years, 3 months ago) by jfenwick

Fix mangling of lapack calls in paso

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Revision 4336 - Directory Listing
Modified Thu Mar 21 08:25:18 2013 UTC (9 years, 3 months ago) by jfenwick

all MEM macros gone except reallocs

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Revision 4335 - Directory Listing
Modified Thu Mar 21 07:35:48 2013 UTC (9 years, 3 months ago) by jfenwick

dudley 

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Revision 4333 - Directory Listing
Modified Thu Mar 21 04:56:29 2013 UTC (9 years, 3 months ago) by jfenwick

....

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Revision 4332 - Directory Listing
Modified Thu Mar 21 04:21:14 2013 UTC (9 years, 3 months ago) by jfenwick

like sand though the hourglass

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Revision 4331 - Directory Listing
Modified Thu Mar 21 03:07:20 2013 UTC (9 years, 3 months ago) by jfenwick

More memory and another string type issue

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Revision 4330 - Directory Listing
Modified Thu Mar 21 00:23:50 2013 UTC (9 years, 3 months ago) by jfenwick

fix string constant mistyping

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Revision 4329 - Directory Listing
Modified Wed Mar 20 07:52:56 2013 UTC (9 years, 3 months ago) by jfenwick

softly softly

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Revision 4328 - Directory Listing
Modified Wed Mar 20 06:17:47 2013 UTC (9 years, 3 months ago) by jfenwick

need to go slow with this bit

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Revision 4327 - Directory Listing
Modified Wed Mar 20 05:09:11 2013 UTC (9 years, 3 months ago) by jfenwick

some finley memory

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Revision 4325 - Directory Listing
Modified Wed Mar 20 02:28:59 2013 UTC (9 years, 3 months ago) by jfenwick

all MEMALLOCs removed from PASO. further restructuring required

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Revision 4324 - Directory Listing
Modified Wed Mar 20 00:55:44 2013 UTC (9 years, 3 months ago) by jfenwick

continues

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Revision 4291 - Directory Listing
Modified Thu Mar 7 08:57:58 2013 UTC (9 years, 4 months ago) by jfenwick

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Revision 4280 - Directory Listing
Modified Wed Mar 6 06:45:32 2013 UTC (9 years, 4 months ago) by jfenwick

some memory management replacement

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Revision 4276 - Directory Listing
Modified Tue Mar 5 22:56:42 2013 UTC (9 years, 4 months ago) by jfenwick

Another experiment

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Revision 4275 - Directory Listing
Modified Tue Mar 5 09:32:52 2013 UTC (9 years, 4 months ago) by jfenwick

some experiments

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Revision 4261 - Directory Listing
Modified Wed Feb 27 06:09:33 2013 UTC (9 years, 4 months ago) by jfenwick

Initial all c++ build.
But ... there are now reinterpret_cast<>'s

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Revision 4257 - Directory Listing
Modified Wed Feb 27 03:42:40 2013 UTC (9 years, 4 months ago) by jfenwick

Some simple experiments for c++ Finley

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Revision 3974 - Directory Listing
Modified Wed Sep 19 06:27:37 2012 UTC (9 years, 9 months ago) by caltinay

Update to latest trunk.

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Revision 3973 - Directory Listing
Modified Wed Sep 19 04:27:49 2012 UTC (9 years, 9 months ago) by caltinay

Tighten the use of the numpy interface in escript.

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Revision 3938 - Directory Listing
Modified Tue Jul 17 04:42:31 2012 UTC (9 years, 11 months ago) by jfenwick

tweak

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Revision 3937 - Directory Listing
Modified Tue Jul 17 04:33:51 2012 UTC (9 years, 11 months ago) by jfenwick

Updating for new release

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Revision 3936 - Directory Listing
Modified Tue Jul 17 03:44:59 2012 UTC (9 years, 11 months ago) by jfenwick

Tweaks to install doco

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Revision 3935 - Directory Listing
Modified Fri Jul 13 09:02:54 2012 UTC (9 years, 11 months ago) by jfenwick

Unit tests from trunk and some doco changes

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Revision 3933 - Directory Listing
Modified Wed Jul 11 06:07:34 2012 UTC (9 years, 11 months ago) by jfenwick

Added option to options file to allow override of the python library
and include locations

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Revision 3932 - Directory Listing
Modified Tue Jul 10 05:34:47 2012 UTC (9 years, 11 months ago) by jfenwick

New options files and a ported fix

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Revision 3930 - Directory Listing
Modified Tue Jul 10 00:38:28 2012 UTC (9 years, 11 months ago) by jfenwick

Fixing spelling

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Revision 3929 - Directory Listing
Modified Mon Jul 9 23:27:17 2012 UTC (9 years, 11 months ago) by jfenwick

Changes to fix setValue on Locator

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Revision 3926 - Directory Listing
Modified Mon Jul 9 09:08:05 2012 UTC (9 years, 11 months ago) by jfenwick

An options file for building on lucid
Removing references to Ripley from weipa

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Revision 3925 - Directory Listing
Modified Mon Jul 9 06:28:11 2012 UTC (9 years, 11 months ago) by jfenwick

Beginning cleanup process for release

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Revision 3924 - Directory Listing
Modified Mon Jul 9 06:15:32 2012 UTC (9 years, 11 months ago) by jfenwick

Release Prep

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Revision 3902 - Directory Listing
Modified Fri Jun 1 03:35:51 2012 UTC (10 years, 1 month ago) by caltinay

Fixed definition of __array__ so it works with newer numpy versions.

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Revision 3900 - Directory Listing
Modified Thu May 17 05:01:04 2012 UTC (10 years, 1 month ago) by jfenwick

getNormal() now works for FaceElements
Made the face_cell structure consistent with _my_ order

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Revision 3899 - Directory Listing
Modified Thu May 17 01:29:08 2012 UTC (10 years, 1 month ago) by jfenwick

Faces are now tagged correctly for FunctionOnBoundary

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Revision 3898 - Directory Listing
Modified Wed May 16 05:17:14 2012 UTC (10 years, 1 month ago) by jfenwick

Trying to get faces right

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Revision 3891 - Directory Listing
Modified Tue Apr 10 04:48:30 2012 UTC (10 years, 2 months ago) by jfenwick

Switched the ripley tests over to using //   (added in py2.3)

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Revision 3890 - Directory Listing
Modified Tue Apr 10 04:20:34 2012 UTC (10 years, 2 months ago) by jfenwick

Fixed some print(), removed some more stray debug.  
Modified dudley factory to take floating point number of elements

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Revision 3889 - Directory Listing
Modified Tue Apr 10 02:37:52 2012 UTC (10 years, 2 months ago) by jfenwick

Clean up some output from SConstruct.
put __div__ back in for py2

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Revision 3888 - Directory Listing
Modified Tue Apr 10 02:13:06 2012 UTC (10 years, 2 months ago) by jfenwick

Can build either python3 or python2 by changing a few option variables

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Revision 3881 - Directory Listing
Modified Wed Mar 21 11:25:56 2012 UTC (10 years, 3 months ago) by jfenwick

Some more fixes

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Revision 3880 - Directory Listing
Modified Wed Mar 21 10:21:26 2012 UTC (10 years, 3 months ago) by jfenwick

Splitting the utils tests.
Fixed more stuff

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Revision 3879 - Directory Listing
Modified Mon Mar 19 04:29:58 2012 UTC (10 years, 3 months ago) by caltinay

Added warning if sympy is not detected at scons time.

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Revision 3878 - Directory Listing
Modified Mon Mar 19 01:20:21 2012 UTC (10 years, 3 months ago) by jfenwick

Some python3 compatability changes

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Revision 3877 - Directory Listing
Modified Mon Mar 19 00:52:00 2012 UTC (10 years, 3 months ago) by gross

underrelaxtion fixed.

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Revision 3876 - Directory Listing
Modified Sun Mar 18 23:30:57 2012 UTC (10 years, 3 months ago) by caltinay

updated gravity_gamma script. Underrelaxation is failing.

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Revision 3875 - Directory Listing
Modified Fri Mar 16 06:48:09 2012 UTC (10 years, 3 months ago) by caltinay

Fixed some tests.

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Revision 3874 - Directory Listing
Modified Fri Mar 16 01:52:05 2012 UTC (10 years, 3 months ago) by gross

gamma version of gravity.

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Revision 3873 - Directory Listing
Modified Fri Mar 16 01:12:26 2012 UTC (10 years, 3 months ago) by gross

a test comparing 2 aproaches for garvity

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Revision 3872 - Directory Listing
Modified Fri Mar 16 00:48:46 2012 UTC (10 years, 3 months ago) by caltinay

Symbols now have undefined dimensionality unless specified.

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Revision 3871 - Directory Listing
Modified Thu Mar 15 07:06:51 2012 UTC (10 years, 3 months ago) by jfenwick

This version builds under py2 and has a problem with sorting.

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Revision 3870 - Directory Listing
Modified Thu Mar 15 06:49:42 2012 UTC (10 years, 3 months ago) by jfenwick

Trying combined build

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Revision 3869 - Directory Listing
Modified Thu Mar 15 06:21:42 2012 UTC (10 years, 3 months ago) by gross

Variational: problem with rank of returned data object fixed, lagrangean multiplier has right rank now

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Revision 3868 - Directory Listing
Modified Thu Mar 15 06:07:08 2012 UTC (10 years, 3 months ago) by caltinay

Update to latest trunk

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Revision 3864 - Directory Listing
Modified Mon Mar 12 05:18:16 2012 UTC (10 years, 3 months ago) by caltinay

Symbols now allow direct operations with Data objects and grad() et al allow
specifying FunctionSpace objects directly, without having to use temporary
symbols :-)

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Revision 3862 - Directory Listing
Modified Fri Mar 9 06:32:35 2012 UTC (10 years, 4 months ago) by caltinay

Symbol's item accessor now returns escript Symbols instead of sympy or numpy.

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Revision 3860 - Directory Listing
Modified Thu Mar 8 07:51:29 2012 UTC (10 years, 4 months ago) by gross

bug in solver fixed

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Revision 3859 - Directory Listing
Modified Thu Mar 8 06:20:48 2012 UTC (10 years, 4 months ago) by caltinay

This should fix the (dis-)assembly of the unknown in the nonlinear PDE.

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Revision 3858 - Directory Listing
Modified Thu Mar 8 04:31:15 2012 UTC (10 years, 4 months ago) by gross

some bugs fixed

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Revision 3857 - Directory Listing
Modified Tue Mar 6 07:28:22 2012 UTC (10 years, 4 months ago) by caltinay

Moved symbolic utility functions into separate file.

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Revision 3856 - Directory Listing
Modified Tue Mar 6 05:17:07 2012 UTC (10 years, 4 months ago) by gross

some work on sensitivity

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Revision 3855 - Directory Listing
Modified Tue Mar 6 03:39:16 2012 UTC (10 years, 4 months ago) by caltinay

Some corrections to VariationalProblem and a first version of concatenateRow
for symbols.

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Revision 3854 - Directory Listing
Modified Fri Mar 2 05:47:09 2012 UTC (10 years, 4 months ago) by caltinay

Implemented getTotalDifferential, except for one case. The function will move
to a different place later.

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Revision 3849 - Directory Listing
Modified Tue Feb 28 02:31:20 2012 UTC (10 years, 4 months ago) by caltinay

Fixed typos.

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Revision 3848 - Directory Listing
Modified Tue Feb 28 01:01:07 2012 UTC (10 years, 4 months ago) by gross

small typy fixed.

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Revision 3847 - Directory Listing
Modified Tue Feb 28 00:56:57 2012 UTC (10 years, 4 months ago) by gross

and one missing

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Revision 3846 - Directory Listing
Modified Tue Feb 28 00:56:24 2012 UTC (10 years, 4 months ago) by gross

three examples using the VariationalProblem class added.

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Revision 3845 - Directory Listing
Modified Tue Feb 28 00:21:30 2012 UTC (10 years, 4 months ago) by gross

vartional problem class modified.

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Revision 3844 - Directory Listing
Modified Mon Feb 27 08:10:44 2012 UTC (10 years, 4 months ago) by gross

first version of the vartional problem

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Revision 3840 - Directory Listing
Modified Sun Feb 26 22:37:39 2012 UTC (10 years, 4 months ago) by gross

some modifications to the problem description

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Revision 3839 - Directory Listing
Modified Fri Feb 24 06:24:28 2012 UTC (10 years, 4 months ago) by gross

robust non-liner pde solver added.

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Revision 3838 - Directory Listing
Modified Fri Feb 24 06:23:45 2012 UTC (10 years, 4 months ago) by gross

some documenatation on newton-raphson scheme and variatonal problems added

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Revision 3832 - Directory Listing
Modified Wed Feb 15 06:00:53 2012 UTC (10 years, 4 months ago) by caltinay

Updated unit tests, some cleanup.

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Revision 3831 - Directory Listing
Modified Wed Feb 15 05:21:47 2012 UTC (10 years, 4 months ago) by caltinay

Checkpoint...

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Revision 3826 - Directory Listing
Modified Tue Feb 14 09:09:21 2012 UTC (10 years, 4 months ago) by lgao

Resovle the conflicts after "svn merge main-stream".

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Revision 3821 - Directory Listing
Modified Mon Feb 13 05:57:49 2012 UTC (10 years, 4 months ago) by lgao

A bit opt using OpenMP.

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Revision 3820 - Directory Listing
Modified Mon Feb 13 04:28:16 2012 UTC (10 years, 4 months ago) by caltinay

Some changes to NonlinearPDE. Returned solution has wrong sign...

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Revision 3819 - Directory Listing
Modified Mon Feb 13 01:20:29 2012 UTC (10 years, 4 months ago) by lgao

Clean up the debugging info.

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Revision 3818 - Directory Listing
Modified Mon Feb 13 01:12:08 2012 UTC (10 years, 4 months ago) by caltinay

-Fixed compatibility with sympy 1.7
-Fixed unit tests (1.0*x != x in sympy)

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Revision 3817 - Directory Listing
Modified Fri Feb 10 03:43:35 2012 UTC (10 years, 4 months ago) by lgao

Now AMG is working. With this working version, a few changes have been
made to the code outside the range of AMG: 
1) in Distribution.c: the way used to generate random seed depends on
the problem size. Sometimes (when the problem size is power of 2), the 
random seed will ends up not working (not diverse). Modification has
been made to fix this.
2) in addAbsRow.c: Paso_SparseMatrix_maxAbsRow_CSR_OFFSET0() modified.

There are still problem with the smoother. The case handler for 
block_size > 3 is not right. 

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Revision 3815 - Directory Listing
Modified Thu Feb 9 00:27:46 2012 UTC (10 years, 4 months ago) by caltinay

Merging trunk 3814 into symbolic to get ripley.

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Revision 3813 - Directory Listing
Modified Wed Feb 8 05:17:50 2012 UTC (10 years, 4 months ago) by gross

test generator

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Revision 3812 - Directory Listing
Modified Wed Feb 8 05:17:06 2012 UTC (10 years, 4 months ago) by gross

first set of tests for NonLinearPDE

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Revision 3811 - Directory Listing
Modified Wed Feb 8 01:13:28 2012 UTC (10 years, 5 months ago) by gross

some methods added to NonLinearPDE

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Revision 3810 - Directory Listing
Modified Wed Feb 8 00:31:12 2012 UTC (10 years, 5 months ago) by caltinay

More optimizations for computing A,B,C,D

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Revision 3809 - Directory Listing
Modified Tue Feb 7 04:15:32 2012 UTC (10 years, 5 months ago) by caltinay

A is computed much more quickly now. Work on B needed.

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Revision 3791 - Directory Listing
Modified Wed Feb 1 05:10:22 2012 UTC (10 years, 5 months ago) by caltinay

Getting ready to merge with trunk.

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Revision 3790 - Directory Listing
Modified Tue Jan 31 05:08:29 2012 UTC (10 years, 5 months ago) by caltinay

Evaluator can now be pickled (sans lambdas which are regenerated after loading).

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Revision 3789 - Directory Listing
Modified Tue Jan 31 04:55:05 2012 UTC (10 years, 5 months ago) by caltinay

Fast forward to latest trunk revision 3788.

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Revision 3785 - Directory Listing
Modified Wed Jan 25 04:00:33 2012 UTC (10 years, 5 months ago) by caltinay

Fixed early deallocation of matrix pattern.

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Revision 3783 - Directory Listing
Modified Tue Jan 24 03:43:21 2012 UTC (10 years, 5 months ago) by caltinay

Merged current trunk

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Revision 3781 - Directory Listing
Modified Mon Jan 23 22:18:49 2012 UTC (10 years, 5 months ago) by caltinay

Since setX() is not supported the constructors now take location and extent.
Python wrapper allows construction the old way with l0,l1 or with
tuples (x0,x1),(y0,y1).

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Revision 3780 - Directory Listing
Modified Mon Jan 23 06:26:40 2012 UTC (10 years, 5 months ago) by caltinay

Removed addPDEToLumpedSystem() as it is handled at python level.
Ensured tests for setX() don't fail if unsupported.

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Revision 3779 - Directory Listing
Modified Fri Jan 20 06:18:09 2012 UTC (10 years, 5 months ago) by lgao

Pass the tests for Classic Interpolation

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Revision 3777 - Directory Listing
Modified Thu Jan 19 06:17:38 2012 UTC (10 years, 5 months ago) by caltinay

3D tests pass, yeah :-)

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Revision 3776 - Directory Listing
Modified Thu Jan 19 03:48:35 2012 UTC (10 years, 5 months ago) by caltinay

Finished 2D - all 2D PDE (non-lumped) tests pass now

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Revision 3773 - Directory Listing
Modified Wed Jan 18 04:27:53 2012 UTC (10 years, 5 months ago) by caltinay

Adjusted interface for boundary conditions.

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Revision 3770 - Directory Listing
Modified Wed Jan 18 01:40:15 2012 UTC (10 years, 5 months ago) by gross

BC added

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Revision 3769 - Directory Listing
Modified Tue Jan 17 04:09:55 2012 UTC (10 years, 5 months ago) by caltinay

Preparations for PDE boundary element assembly.
Removed some code that slipped in before.

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Revision 3768 - Directory Listing
Modified Fri Jan 13 07:17:16 2012 UTC (10 years, 5 months ago) by caltinay

weipa processes ripley 3D boundary elements now.

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Revision 3767 - Directory Listing
Modified Fri Jan 13 01:52:46 2012 UTC (10 years, 5 months ago) by lgao

A version which passed all my small test cases. Ready for the test cases 
in Unittest. 

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Revision 3766 - Directory Listing
Modified Thu Jan 12 08:17:49 2012 UTC (10 years, 5 months ago) by caltinay

Checkpoint. Getting weipa to like ripley again.

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Revision 3765 - Directory Listing
Modified Tue Jan 10 06:32:12 2012 UTC (10 years, 5 months ago) by caltinay

Changed some tests to use assertEquals so that the output makes more sense
on failure.

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Revision 3764 - Directory Listing
Modified Tue Jan 10 06:31:15 2012 UTC (10 years, 5 months ago) by caltinay

Fixed integration now that elements overlap + code cleanup.

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Revision 3763 - Directory Listing
Modified Tue Jan 10 05:10:17 2012 UTC (10 years, 5 months ago) by lgao

Fix a few bugs in building Interpolation Matrix.

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Revision 3762 - Directory Listing
Modified Tue Jan 10 00:01:45 2012 UTC (10 years, 5 months ago) by caltinay

PDE assemblage with reduced order done.

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Revision 3761 - Directory Listing
Modified Mon Jan 9 06:50:33 2012 UTC (10 years, 5 months ago) by caltinay

Can solve full order systems of PDEs in 2D and 3D now.

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Revision 3760 - Directory Listing
Modified Mon Jan 9 05:21:18 2012 UTC (10 years, 5 months ago) by caltinay

-implemented addPDEToRHS() and setToSize()
-added a few missing calls to requireWrite()
-added assemblePDESystem() to Rectangle but haven't tested yet

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Revision 3759 - Directory Listing
Modified Fri Jan 6 06:54:51 2012 UTC (10 years, 6 months ago) by caltinay

Implemented ownSample for face elements.

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Revision 3758 - Directory Listing
Modified Fri Jan 6 06:29:42 2012 UTC (10 years, 6 months ago) by lgao

Now can pass small test cases, but still have problems with my own bigger test cases. 

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Revision 3757 - Directory Listing
Modified Fri Jan 6 04:48:27 2012 UTC (10 years, 6 months ago) by caltinay

Implemented ownSample() for DOF and Elements.

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Revision 3756 - Directory Listing
Modified Fri Jan 6 02:35:19 2012 UTC (10 years, 6 months ago) by caltinay

Fixed interpolation from DOF to nodes and moved common code to the base class.

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Revision 3755 - Directory Listing
Modified Thu Jan 5 06:51:31 2012 UTC (10 years, 6 months ago) by caltinay

Made element IDs globally unique so ownSample can work (to be implemented).
Fixed couple block in 3D so PDEs seem to work now with MPI :-)

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Revision 3754 - Directory Listing
Modified Wed Jan 4 07:07:37 2012 UTC (10 years, 6 months ago) by caltinay

checkpoint. 3D single PDEs almost working

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Revision 3753 - Directory Listing
Modified Tue Jan 3 09:01:49 2012 UTC (10 years, 6 months ago) by caltinay

Took over Node->DOF interpolation to Brick and parallelised some loops.

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Revision 3752 - Directory Listing
Modified Tue Jan 3 08:06:36 2012 UTC (10 years, 6 months ago) by caltinay

can solve PDEs in 2D with MPI now, boundary conditions still missing.

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Revision 3751 - Directory Listing
Modified Fri Dec 23 05:43:58 2011 UTC (10 years, 6 months ago) by lgao

Now generate correct coarse-level matrix.

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Revision 3750 - Directory Listing
Modified Fri Dec 23 01:20:34 2011 UTC (10 years, 6 months ago) by caltinay

Checkpoint - reinstated DOF FS and tried to fix couple blocks...

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Revision 3749 - Directory Listing
Modified Thu Dec 15 07:37:25 2011 UTC (10 years, 6 months ago) by caltinay

Some modifications to generator.

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Revision 3748 - Directory Listing
Modified Thu Dec 15 07:36:19 2011 UTC (10 years, 6 months ago) by caltinay

PDE assembly in serial and 2D seems to be doing what it's supposed to when
boundary elements are not involved.

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Revision 3746 - Directory Listing
Modified Thu Dec 15 00:02:22 2011 UTC (10 years, 6 months ago) by caltinay

In Ripley Solution==ContinuousFunction and ReducedSolution==ReducedCF now.
Removed a test in escript that relied on failure when trying to tag Data on
Solution/ReducedSolution.

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Revision 3745 - Directory Listing
Modified Tue Dec 13 07:14:22 2011 UTC (10 years, 6 months ago) by jfenwick

Fixed missing params

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Revision 3744 - Directory Listing
Modified Tue Dec 13 06:41:54 2011 UTC (10 years, 6 months ago) by caltinay

Implemented (Face)Elements->Reduced(Face)Elements interpolation and started
separating DOF and nodes.
Also, implemented operator==() so that a==b for different domain objects a and
b which are in the same state.

---

Revision 3743 - Directory Listing
Modified Tue Dec 13 05:42:10 2011 UTC (10 years, 6 months ago) by jfenwick

Merging up to trunk r3739

---

Revision 3742 - Directory Listing
Modified Tue Dec 13 05:09:40 2011 UTC (10 years, 6 months ago) by jfenwick

Added some more missing functions and added some python tests

---

Revision 3741 - Directory Listing
Modified Tue Dec 13 02:18:02 2011 UTC (10 years, 6 months ago) by jfenwick

getX() now works for FunctionOnBoundary.
In order to keep things interesting though, I'm not guaranteeing that the quadrature points are in a sensible order.
(I don't have my cube toys at home and had to make do with a lightglobe box).

---

Revision 3740 - Directory Listing
Modified Tue Dec 13 01:37:21 2011 UTC (10 years, 6 months ago) by caltinay

Merged latest trunk and fixed some smaller issues.

---

Revision 3735 - Directory Listing
Modified Fri Dec 9 05:03:08 2011 UTC (10 years, 7 months ago) by caltinay

Set initial node/element/face tags to 0 and updated tests.

---

Revision 3733 - Directory Listing
Modified Fri Dec 9 04:02:56 2011 UTC (10 years, 7 months ago) by caltinay

escript on ripley tests pass. However, returning 0 for number of point elements
and DOF id's are bogus.

---

Revision 3732 - Directory Listing
Modified Fri Dec 9 01:47:28 2011 UTC (10 years, 7 months ago) by caltinay

Implemented probeInterpolationOnDomain().

---

Revision 3731 - Directory Listing
Modified Fri Dec 9 01:22:44 2011 UTC (10 years, 7 months ago) by caltinay

More hand optimization with noticeable runtime reduction for tests.

---

Revision 3730 - Directory Listing
Modified Fri Dec 9 00:24:14 2011 UTC (10 years, 7 months ago) by jfenwick

Some more prep for starting to think about beginning the inital phases of commencing assembly.

---

Revision 3725 - Directory Listing
Modified Thu Dec 8 01:27:18 2011 UTC (10 years, 7 months ago) by jfenwick

With more dodgy hacks making row and column coupling identical we progress.
Next will be working around linearPDE wanting dirac points

---

Revision 3724 - Directory Listing
Modified Wed Dec 7 07:35:21 2011 UTC (10 years, 7 months ago) by caltinay

Edits to generated code in Rectangle (renamed constants & removed duplicates,
more nowait optimizations)

---

Revision 3722 - Directory Listing
Modified Wed Dec 7 05:53:22 2011 UTC (10 years, 7 months ago) by caltinay

All "util on ripley" tests pass now :-)
-added support for node/element/face tags
-implemented setToNormal()
-added a bunch of omp nowait

---

Revision 3721 - Directory Listing
Modified Wed Dec 7 04:33:57 2011 UTC (10 years, 7 months ago) by jfenwick

Made a bunch of placeholders.
Now crashing when creating the system matrix itself. 

---

Revision 3719 - Directory Listing
Modified Wed Dec 7 01:34:03 2011 UTC (10 years, 7 months ago) by jfenwick

Quadrature points are not matched to the places Lutz' code puts them.
Removed a bunch of redundant includes of the MPI header.
Added new Esys_MPI.hpp header  which has the extern "C" in it.

---

Revision 3718 - Directory Listing
Modified Wed Dec 7 00:21:04 2011 UTC (10 years, 7 months ago) by jfenwick

div(domain.getX())  now works using Lutz' setToGradient

---

Revision 3717 - Directory Listing
Modified Tue Dec 6 07:25:06 2011 UTC (10 years, 7 months ago) by jfenwick

Working on adding Lutz' calcs - segfaults at the moment

---

Revision 3716 - Directory Listing
Modified Tue Dec 6 04:48:28 2011 UTC (10 years, 7 months ago) by caltinay

Removed obsolete files.

---

Revision 3715 - Directory Listing
Modified Tue Dec 6 04:46:48 2011 UTC (10 years, 7 months ago) by caltinay

Modified assemblage script for C++ code.

---

Revision 3714 - Directory Listing
Modified Tue Dec 6 04:45:26 2011 UTC (10 years, 7 months ago) by caltinay

util on ripley unit tests. All tests pass except those dealing with
DOF/reduced DOF and tags. Woohoo...

---

Revision 3713 - Directory Listing
Modified Tue Dec 6 04:43:29 2011 UTC (10 years, 7 months ago) by caltinay

Integrals in 2D and 3D for rectangle & brick elements & face elements in
regular and reduced orders.

---

Revision 3712 - Directory Listing
Modified Tue Dec 6 01:37:13 2011 UTC (10 years, 7 months ago) by lgao

Pass the coarsest level (direct) solver. Now rank 0 has the whole coarsest level matrix, solves it and scatters the solution to all other ranks.

---

Revision 3711 - Directory Listing
Modified Tue Dec 6 00:24:43 2011 UTC (10 years, 7 months ago) by caltinay

Interpolation & Gradient for reduced elements & faces.

---

Revision 3710 - Directory Listing
Modified Mon Dec 5 08:05:44 2011 UTC (10 years, 7 months ago) by gross

3D assemblages added

---

Revision 3709 - Directory Listing
Modified Mon Dec 5 07:40:56 2011 UTC (10 years, 7 months ago) by gross

---

Revision 3708 - Directory Listing
Modified Mon Dec 5 07:40:21 2011 UTC (10 years, 7 months ago) by gross

integartion is no cretaed manually.

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Revision 3707 - Directory Listing
Modified Mon Dec 5 05:48:25 2011 UTC (10 years, 7 months ago) by caltinay

Fixes to the face element code.

---

Revision 3706 - Directory Listing
Modified Mon Dec 5 04:43:05 2011 UTC (10 years, 7 months ago) by jfenwick

Midway through constructing patterns for single rank jobs.
Segfaults if you try to construct a system matrix

---

Revision 3705 - Directory Listing
Modified Mon Dec 5 03:16:11 2011 UTC (10 years, 7 months ago) by caltinay

Ripley face elements in weipa.

---

Revision 3704 - Directory Listing
Modified Mon Dec 5 01:59:08 2011 UTC (10 years, 7 months ago) by caltinay

Interpolation on faces.

---

Revision 3703 - Directory Listing
Modified Sun Dec 4 23:42:52 2011 UTC (10 years, 7 months ago) by caltinay

Gradient and interpolation on elements for Brick domain.

---

Revision 3702 - Directory Listing
Modified Fri Dec 2 06:12:32 2011 UTC (10 years, 7 months ago) by caltinay

Gradient for Rectangle elements.

---

Revision 3701 - Directory Listing
Modified Fri Dec 2 02:04:58 2011 UTC (10 years, 7 months ago) by caltinay

Prepared interpolation methods.

---

Revision 3700 - Directory Listing
Modified Thu Dec 1 23:18:13 2011 UTC (10 years, 7 months ago) by caltinay

weipa (saveVTK & saveSilo) support for ripley Elements & Nodes.

---

Revision 3699 - Directory Listing
Modified Thu Dec 1 22:59:42 2011 UTC (10 years, 7 months ago) by caltinay

getPattern() for Rectangle. Couple node numbering is likely to change once
we get to the PDE assembly.

---

Revision 3698 - Directory Listing
Modified Tue Nov 29 00:47:29 2011 UTC (10 years, 7 months ago) by caltinay

[x] Rectangle...
[x] Brick node id's and weipa compatibility

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Revision 3697 - Directory Listing
Modified Mon Nov 28 04:52:00 2011 UTC (10 years, 7 months ago) by caltinay

[x] Rectangle node id's and weipa compatibility
[ ] Brick...

---

Revision 3696 - Directory Listing
Modified Fri Nov 25 05:32:41 2011 UTC (10 years, 7 months ago) by jfenwick

Apparently buckley can now compute div/grad for hanging nodes as well

---

Revision 3695 - Directory Listing
Modified Fri Nov 25 02:00:21 2011 UTC (10 years, 7 months ago) by jfenwick

Buckley can apparently compute _grad and div provided there are no
haning nodes

---

Revision 3694 - Directory Listing
Modified Thu Nov 24 08:17:15 2011 UTC (10 years, 7 months ago) by jfenwick

There is a segfault

---

Revision 3693 - Directory Listing
Modified Wed Nov 23 23:42:24 2011 UTC (10 years, 7 months ago) by jfenwick

Fixed some conditionals that I'd made a mess of

---

Revision 3692 - Directory Listing
Modified Wed Nov 23 23:11:06 2011 UTC (10 years, 7 months ago) by caltinay

Removed unused files.

---

Revision 3691 - Directory Listing
Modified Wed Nov 23 23:07:37 2011 UTC (10 years, 7 months ago) by caltinay

Next iteration

---

Revision 3690 - Directory Listing
Modified Wed Nov 23 03:44:46 2011 UTC (10 years, 7 months ago) by jfenwick

We'll go with both status and generation but I've commented the status caching members from the base class since they weren't used.
Some work towards ::setToGradient() but it is incomplete.

---

Revision 3688 - Directory Listing
Modified Tue Nov 22 06:10:57 2011 UTC (10 years, 7 months ago) by caltinay

Merge current trunk into branch.

---

Revision 3687 - Directory Listing
Modified Tue Nov 22 05:23:37 2011 UTC (10 years, 7 months ago) by jfenwick

Now support Function and have added generation support.
This may duplicate functionality in the status field but we can
work that out later.

---

Revision 3686 - Directory Listing
Modified Tue Nov 22 03:16:29 2011 UTC (10 years, 7 months ago) by jfenwick

Fixed == and !=  exposed collapse to python.
Preparing to add Function to domain

---

Revision 3685 - Directory Listing
Modified Tue Nov 22 01:13:55 2011 UTC (10 years, 7 months ago) by jfenwick

Correctly counts the number of unknowns in my tests

---

Revision 3684 - Directory Listing
Modified Mon Nov 21 05:06:41 2011 UTC (10 years, 7 months ago) by jfenwick

Added refineAll() to BuckleyDomain.
It still assigns too many unknowns though.
Level 1 should have 8 leaves and 27 unknowns not 8 leaves and 64 unknowns.
Considering using a hashtable for this.
Alternatively can follow the neighbour pointers ...

---

Revision 3683 - Directory Listing
Modified Mon Nov 21 04:21:25 2011 UTC (10 years, 7 months ago) by jfenwick

getX() for single cell works

---

Revision 3682 - Directory Listing
Modified Mon Nov 21 01:56:45 2011 UTC (10 years, 7 months ago) by jfenwick

Fixed some cases which allowed domain objects to be created without wrappers

---

Revision 3680 - Directory Listing
Modified Fri Nov 18 04:48:53 2011 UTC (10 years, 7 months ago) by jfenwick

It has memory errors during a getX.

---

Revision 3679 - Directory Listing
Modified Thu Nov 17 06:49:33 2011 UTC (10 years, 7 months ago) by jfenwick

Bringing up to date with trunk r3678

---

Revision 3674 - Directory Listing
Modified Thu Nov 17 00:33:38 2011 UTC (10 years, 7 months ago) by jfenwick

Pass 1 complete on dudley

---

Revision 3673 - Directory Listing
Modified Thu Nov 17 00:06:51 2011 UTC (10 years, 7 months ago) by jfenwick

Phase 1 complete for finley

---

Revision 3672 - Directory Listing
Modified Wed Nov 16 05:43:35 2011 UTC (10 years, 7 months ago) by jfenwick

build hooks for pasowrap

---

Revision 3671 - Directory Listing
Modified Wed Nov 16 04:01:53 2011 UTC (10 years, 7 months ago) by jfenwick

Rename complete

---

Revision 3670 - Directory Listing
Modified Wed Nov 16 02:21:18 2011 UTC (10 years, 7 months ago) by caltinay

First steps...

---

Revision 3669 - Directory Listing
Modified Wed Nov 16 02:07:25 2011 UTC (10 years, 7 months ago) by caltinay

Playground for GMG & ripley domain

---

Revision 3668 - Directory Listing
Modified Wed Nov 16 01:49:46 2011 UTC (10 years, 7 months ago) by jfenwick

Stage 1 rename

---

Revision 3665 - Directory Listing
Modified Tue Nov 15 07:12:49 2011 UTC (10 years, 7 months ago) by jfenwick

We can now compile using a version of python other than the one
scons is running under

---

Revision 3664 - Directory Listing
Modified Tue Nov 15 04:34:11 2011 UTC (10 years, 7 months ago) by jfenwick

Now passes unit tests under python3.

Note:  This does not mean it still passes under python2

---

Revision 3663 - Directory Listing
Modified Tue Nov 15 01:12:13 2011 UTC (10 years, 7 months ago) by jfenwick

2to3's more dirs

---

Revision 3662 - Directory Listing
Modified Tue Nov 15 00:21:26 2011 UTC (10 years, 7 months ago) by jfenwick

Fixed a local variable reference error.
2to3'd another directory

---

Revision 3661 - Directory Listing
Modified Tue Nov 15 00:13:56 2011 UTC (10 years, 7 months ago) by jfenwick

Initial add for moving files

---

Revision 3660 - Directory Listing
Modified Mon Nov 14 23:44:22 2011 UTC (10 years, 7 months ago) by jfenwick

For moving paso stuff out of finley

---

Revision 3659 - Directory Listing
Modified Mon Nov 14 08:08:26 2011 UTC (10 years, 7 months ago) by jfenwick

Fixed some more print statements.
Instances of the following:
  None is now unorderable
  redefining __eq__ means you must redefine __hash__ in some cases
  hardened Brick() and Rectangle() against people passing floats

---

Revision 3658 - Directory Listing
Modified Fri Nov 11 06:55:48 2011 UTC (10 years, 7 months ago) by jfenwick

the refine domain is hooked into scons but doesn't do anything useful yet.

---

Revision 3657 - Directory Listing
Modified Fri Nov 11 04:59:57 2011 UTC (10 years, 7 months ago) by jfenwick

Got the lambda the correct way around

---

Revision 3656 - Directory Listing
Modified Fri Nov 11 04:27:58 2011 UTC (10 years, 7 months ago) by jfenwick

Another pass with the tools

---

Revision 3655 - Directory Listing
Modified Thu Nov 10 07:14:06 2011 UTC (10 years, 7 months ago) by jfenwick

More tweaks, some unit tests are passing but things are hard coded for py3

---

Revision 3654 - Directory Listing
Modified Thu Nov 10 05:47:42 2011 UTC (10 years, 7 months ago) by jfenwick

Experiments continue on py3.
These files have had 2to3 -w run on them 

---

Revision 3653 - Directory Listing
Modified Tue Nov 8 04:24:06 2011 UTC (10 years, 8 months ago) by jfenwick

For messing around with python3

---

Revision 3652 - Directory Listing
Modified Tue Nov 8 02:22:26 2011 UTC (10 years, 8 months ago) by jfenwick

Think code to identify hanging nodes is done.

---

Revision 3651 - Directory Listing
Modified Mon Nov 7 05:16:45 2011 UTC (10 years, 8 months ago) by jfenwick

Arrrggggggg that was hard going

---

Revision 3640 - Directory Listing
Modified Tue Oct 25 02:42:34 2011 UTC (10 years, 8 months ago) by jfenwick

Merging now works but is _really_ inefficient.

---

Revision 3638 - Directory Listing
Modified Tue Oct 25 00:49:33 2011 UTC (10 years, 8 months ago) by jfenwick

Refining now appears to be safe (if a little slow)

---

Revision 3636 - Directory Listing
Modified Fri Oct 21 04:00:40 2011 UTC (10 years, 8 months ago) by jfenwick

Partially works but Is splitting the wrong cells in the committed configuration.
(Look along Z axis)

---

Revision 3634 - Directory Listing
Modified Fri Oct 21 00:05:56 2011 UTC (10 years, 8 months ago) by jfenwick

First attempt at an oct-tree

---

Revision 3632 - Directory Listing
Modified Thu Oct 20 04:27:45 2011 UTC (10 years, 8 months ago) by jfenwick

Experiments with refining meshes

---

Revision 3631 - Directory Listing
Modified Thu Oct 20 03:12:46 2011 UTC (10 years, 8 months ago) by caltinay

Fix compatibility with latest sympy version.

---

Revision 3621 - Directory Listing
Modified Thu Oct 6 01:43:14 2011 UTC (10 years, 9 months ago) by caltinay

Allow single iteration runs.

---

Revision 3617 - Directory Listing
Modified Fri Sep 30 04:00:41 2011 UTC (10 years, 9 months ago) by caltinay

Ensure that functionspace parameter is removed before attempting to find
grad() coefficients in nonlinearPDE.

---

Revision 3615 - Directory Listing
Modified Thu Sep 29 00:29:25 2011 UTC (10 years, 9 months ago) by caltinay

pretty print for grad_n().

---

Revision 3614 - Directory Listing
Modified Wed Sep 28 05:16:08 2011 UTC (10 years, 9 months ago) by caltinay

Added Symbol.subs() and .expand().

---

Revision 3613 - Directory Listing
Modified Wed Sep 28 00:12:08 2011 UTC (10 years, 9 months ago) by jfenwick

Try again

---

Revision 3612 - Directory Listing
Modified Tue Sep 27 23:26:12 2011 UTC (10 years, 9 months ago) by jfenwick

Removing user interaction from package builder

---

Revision 3611 - Directory Listing
Modified Tue Sep 27 03:34:50 2011 UTC (10 years, 9 months ago) by jfenwick

Updating package version numbers

---

Revision 3610 - Directory Listing
Modified Mon Sep 26 05:34:01 2011 UTC (10 years, 9 months ago) by jfenwick

Fixes to account for differing versions of netcdf

---

Revision 3609 - Directory Listing
Modified Wed Sep 21 04:48:06 2011 UTC (10 years, 9 months ago) by caltinay

Merged changes from trunk (up to 3607).

---

Revision 3608 - Directory Listing
Modified Wed Sep 21 04:34:10 2011 UTC (10 years, 9 months ago) by jfenwick

Switched to new suer guide name

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Revision 3593 - Directory Listing
Modified Mon Sep 12 07:14:06 2011 UTC (10 years, 9 months ago) by jfenwick

package version bump

---

Revision 3592 - Directory Listing
Modified Mon Sep 12 06:37:24 2011 UTC (10 years, 9 months ago) by jfenwick

Copying Lutz' changes from trunk

---

Revision 3591 - Directory Listing
Modified Mon Sep 12 06:10:57 2011 UTC (10 years, 9 months ago) by jfenwick

Not releasing ripley.
Added changelist to user guide.
Updated release version related stuff in the user guide.

---

Revision 3590 - Directory Listing
Modified Mon Sep 12 04:57:53 2011 UTC (10 years, 9 months ago) by jfenwick

Updated copyright range.
Updated release versions on doco title pages

---

Revision 3587 - Directory Listing
Modified Fri Sep 9 04:47:43 2011 UTC (10 years, 9 months ago) by jfenwick

Prepare for release 3.2.1

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Revision 3557 - Directory Listing
Modified Fri Aug 26 03:00:32 2011 UTC (10 years, 10 months ago) by jfenwick

Added default args to the c++ side to keep the weipa unit tests happy

---

Revision 3556 - Directory Listing
Modified Fri Aug 26 02:28:51 2011 UTC (10 years, 10 months ago) by jfenwick

About to try a full test

---

Revision 3555 - Directory Listing
Modified Thu Aug 25 08:54:10 2011 UTC (10 years, 10 months ago) by jfenwick

Committing for home transfer

---

Revision 3554 - Directory Listing
Modified Tue Aug 23 00:23:53 2011 UTC (10 years, 10 months ago) by jfenwick

First step towards moving dirac

---

Revision 3553 - Directory Listing
Modified Mon Aug 22 02:37:15 2011 UTC (10 years, 10 months ago) by jfenwick

Branching to Add Dirac points to constructors.

---

Revision 3539 - Directory Listing
Modified Wed Jul 6 23:22:06 2011 UTC (11 years ago) by lgao

Instead of using remote_coupleBlock, extended ST to include 
the intersection of full ST set and set of all cols in 
mainBlock + col_coupleBlock for each row in row_coupleBlock.
The implementation of this is in file 
"SystemMatrix_extendedRows.c"

Also fixed a few bugs in CIJPCoarsening. 

Now the AMG implementation until CIJPCoarsening has passed 
a set of tests. 

---

Revision 3537 - Directory Listing
Modified Fri Jun 24 06:19:02 2011 UTC (11 years ago) by caltinay

PrettyPrinter for escript symbols.

---

Revision 3536 - Directory Listing
Modified Thu Jun 23 04:42:38 2011 UTC (11 years ago) by caltinay

Rewrote Symbol.coeff() and added __array__ attribute so binary operations with
a numpy array work both ways.

---

Revision 3535 - Directory Listing
Modified Thu Jun 23 02:08:18 2011 UTC (11 years ago) by caltinay

Fixed a typo.

---

Revision 3534 - Directory Listing
Modified Thu Jun 23 01:59:47 2011 UTC (11 years ago) by caltinay

New class NonlinearPDE which solves
  Y-div(X)=0
with symbolic coefficients X,Y=f(u,grad(u))
by linearisation and iterative solving of a corresponding linear PDE.

---

Revision 3533 - Directory Listing
Modified Wed Jun 22 04:40:08 2011 UTC (11 years ago) by caltinay

Fixed some constructor issues for Symbol and documented a few of the methods.

---

Revision 3532 - Directory Listing
Modified Mon Jun 20 04:14:42 2011 UTC (11 years ago) by caltinay

Added simplify method to Symbol class.

---

Revision 3531 - Directory Listing
Modified Fri Jun 17 00:17:53 2011 UTC (11 years ago) by lgao

branch for MPI versioned AMG

---

Revision 3530 - Directory Listing
Modified Wed Jun 15 04:48:53 2011 UTC (11 years ago) by caltinay

Added dimensionality to symbols (default: 2).
Fixed differentiation.
Added coeff() method.
Fixed a few special cases where elements are numbers/zero etc.

---

Revision 3518 - Directory Listing
Modified Fri May 20 06:29:31 2011 UTC (11 years, 1 month ago) by caltinay

Some cleanup and added tests for symbolic div and grad.

---

Revision 3517 - Directory Listing
Modified Fri May 20 01:16:41 2011 UTC (11 years, 1 month ago) by caltinay

Merged up to and including revision 3514 from trunk and implemented
symbolic inverse.

---

Revision 3512 - Directory Listing
Modified Wed May 18 06:22:46 2011 UTC (11 years, 1 month ago) by caltinay

Implementation of symbolic grad() and a few fixes.

---

Revision 3509 - Directory Listing
Modified Fri May 13 06:01:52 2011 UTC (11 years, 1 month ago) by caltinay

Some fixes, additions and changes to unit tests

---

Revision 3507 - Directory Listing
Modified Wed May 11 06:04:52 2011 UTC (11 years, 1 month ago) by caltinay

New approach with own Symbol class, symbolic components and looser dependency
on sympy.

---

Revision 3496 - Directory Listing
Modified Wed Apr 6 03:58:42 2011 UTC (11 years, 3 months ago) by caltinay

Added erf(), eigenvectors() and eigenvectors_and_eigenvalues() to the list of
symbolic functions.

---

Revision 3495 - Directory Listing
Modified Tue Apr 5 23:05:18 2011 UTC (11 years, 3 months ago) by caltinay

Removed binary operations add,mult,quotient,power from escript.util and
relevant tests as they are no longer used.

---

Revision 3493 - Directory Listing
Modified Mon Apr 4 04:37:02 2011 UTC (11 years, 3 months ago) by caltinay

Removed escript's legacy Symbol implementation and replaced by a sympy-based
variant. Added more symbolic versions of escript functions and the relevant
unit tests.
This removes nearly 150000 (!) lines of code mainly from the old test suite for
symbols...wow!

---

Revision 3492 - Directory Listing
Modified Mon Apr 4 04:04:03 2011 UTC (11 years, 3 months ago) by caltinay

'scons py_tests' was not reexecuting tests after changes to escript or finley
sources. Fixed.

---

Revision 3491 - Directory Listing
Modified Wed Mar 30 06:13:34 2011 UTC (11 years, 3 months ago) by caltinay

Added basic tests for added symbolic functions.

---

Revision 3488 - Directory Listing
Modified Mon Mar 28 05:18:49 2011 UTC (11 years, 3 months ago) by caltinay

Handle more cases where the argument is a number.

---

Revision 3477 - Directory Listing
Modified Fri Mar 18 00:20:06 2011 UTC (11 years, 3 months ago) by caltinay

New test case for the symbolic module with evluator tests.

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Revision 3476 - Directory Listing
Modified Fri Mar 18 00:19:17 2011 UTC (11 years, 3 months ago) by caltinay

Added __len__ to evaluator.

---

Revision 3474 - Directory Listing
Modified Thu Mar 17 00:19:36 2011 UTC (11 years, 3 months ago) by caltinay

Added a range of other functions that can now be used in symbolic expressions.
Not many simplifications implemented yet.

---

Revision 3473 - Directory Listing
Modified Wed Mar 16 05:54:30 2011 UTC (11 years, 3 months ago) by caltinay

Added where(Non)Negative/Positive symbolic functions.

---

Revision 3472 - Directory Listing
Modified Tue Mar 15 23:52:18 2011 UTC (11 years, 3 months ago) by caltinay

Added sympy-based evaluator that uses lambdify to resolve expressions.

---

Revision 3471 - Directory Listing
Modified Tue Mar 15 04:23:54 2011 UTC (11 years, 3 months ago) by caltinay

Branch to investigate how to incorporate sympy or other symbolic evaluation
libraries into escript.

---

Revision 3258 - Directory Listing
Modified Fri Oct 8 01:41:42 2010 UTC (11 years, 9 months ago) by jfenwick

Fixed lapack path for badger

---

Revision 3257 - Directory Listing
Modified Fri Oct 8 01:25:53 2010 UTC (11 years, 9 months ago) by jfenwick

Fix examples and OMP in wrapper

---

Revision 3256 - Directory Listing
Modified Fri Oct 8 01:24:51 2010 UTC (11 years, 9 months ago) by caltinay

No use dudley trying to run finley tests... fixed.

---

Revision 3255 - Directory Listing
Modified Fri Oct 8 00:13:40 2010 UTC (11 years, 9 months ago) by jfenwick

Switch examples back to finley just in case

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Revision 3254 - Directory Listing
Modified Thu Oct 7 06:33:09 2010 UTC (11 years, 9 months ago) by caltinay

Back to C90 since M$ still won't support mixed code and declarations.
This should be a no-op.

---

Revision 3253 - Directory Listing
Modified Thu Oct 7 05:34:33 2010 UTC (11 years, 9 months ago) by caltinay

Corrected some merge issues, fixed another name clash that caused a segfault
in tests, changed remaining PASO_MPI's to ESYS_MPI and added -std=c99 to
gcc's default options.

---

Revision 3252 - Directory Listing
Modified Thu Oct 7 04:03:13 2010 UTC (11 years, 9 months ago) by jfenwick

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Revision 3251 - Directory Listing
Modified Thu Oct 7 04:02:30 2010 UTC (11 years, 9 months ago) by jfenwick

Merged sconcript changes - weipa doesn't build unit test binary

---

Revision 3249 - Directory Listing
Modified Thu Oct 7 01:30:31 2010 UTC (11 years, 9 months ago) by caltinay

Removed env_mpi since it's more confusing than useful. So the only environments
available to subscripts are now env and dodgy_env.

---

Revision 3248 - Directory Listing
Modified Wed Oct 6 08:17:18 2010 UTC (11 years, 9 months ago) by caltinay

Added dudley support to weipa. Needs test cases but works with escript's
DataManager to save Silo+VTK files.

---

Revision 3247 - Directory Listing
Modified Wed Oct 6 05:53:06 2010 UTC (11 years, 9 months ago) by caltinay

Fixed name clashes between dudley and finley so both can be used
simultaneously.

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Revision 3246 - Directory Listing
Modified Wed Oct 6 01:13:28 2010 UTC (11 years, 9 months ago) by caltinay

Corrections for enabled MPI and took over escriptconvert from trunk.

---

Revision 3244 - Directory Listing
Modified Tue Oct 5 06:48:15 2010 UTC (11 years, 9 months ago) by caltinay

Do not use snprintf which is not available on win.

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Revision 3243 - Directory Listing
Modified Tue Oct 5 06:10:38 2010 UTC (11 years, 9 months ago) by caltinay

part 2 of last fix :-(

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Revision 3242 - Directory Listing
Modified Tue Oct 5 06:08:28 2010 UTC (11 years, 9 months ago) by jfenwick

Remove references to asContinuousDomain

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Revision 3241 - Directory Listing
Modified Tue Oct 5 05:59:37 2010 UTC (11 years, 9 months ago) by caltinay

escriptreader is not available for Windoze.

---

Revision 3240 - Directory Listing
Modified Tue Oct 5 05:51:43 2010 UTC (11 years, 9 months ago) by caltinay

Take over change 3222 from trunk to test Windows build

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Revision 3239 - Directory Listing
Modified Tue Oct 5 05:31:20 2010 UTC (11 years, 9 months ago) by jfenwick

Put the tsunami example back to use finley.
Moved a bunch of method signatures up into the AbstractDomain class

---

Revision 3238 - Directory Listing
Modified Tue Oct 5 03:05:42 2010 UTC (11 years, 9 months ago) by caltinay

Fixed windows cc_flags.

---

Revision 3237 - Directory Listing
Modified Tue Oct 5 01:03:14 2010 UTC (11 years, 9 months ago) by trankine

Updating cgisrv3 options file for testing

---

Revision 3236 - Directory Listing
Modified Mon Oct 4 05:22:56 2010 UTC (11 years, 9 months ago) by jfenwick

Merge diffs for trunk doco

---

Revision 3235 - Directory Listing
Modified Mon Oct 4 05:06:19 2010 UTC (11 years, 9 months ago) by jfenwick

Fixed unit test

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Revision 3234 - Directory Listing
Modified Mon Oct 4 01:46:30 2010 UTC (11 years, 9 months ago) by jfenwick

Some subdirs need to have changes pulled over but all of the unit tests 
except for modellib appear to work

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Revision 3231 - Directory Listing
Modified Fri Oct 1 01:53:46 2010 UTC (11 years, 9 months ago) by jfenwick

Fix MPI and OMP problems not detected in serial

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Revision 3230 - Directory Listing
Modified Fri Oct 1 01:00:11 2010 UTC (11 years, 9 months ago) by caltinay

Actually change permissions of utest.sh

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Revision 3229 - Directory Listing
Modified Thu Sep 30 22:47:02 2010 UTC (11 years, 9 months ago) by caltinay

Second iteration:
- all additional SConscript files reviewed and 'cleaned up'.
- broke compatibility with scons <0.98.1! Why?
   -- 0.98.1 was released April 2008, even Lenny ships 1.0.0
   -- we had a lot of (dirty) workarounds and checks to keep that compatibility
   -- a couple of features in 0.98.1 make life a lot easier (e.g. Glob())
   -- scons is Python-only (no libraries) so very easy to install/update

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Revision 3228 - Directory Listing
Modified Thu Sep 30 06:12:05 2010 UTC (11 years, 9 months ago) by jfenwick

Missing files

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Revision 3227 - Directory Listing
Modified Thu Sep 30 06:07:08 2010 UTC (11 years, 9 months ago) by jfenwick

Pass1 or moving MPI stuff out of paso

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Revision 3226 - Directory Listing
Modified Wed Sep 29 23:10:31 2010 UTC (11 years, 9 months ago) by caltinay

Updated sunzi and removed more obsolete options files.

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Revision 3225 - Directory Listing
Modified Wed Sep 29 07:20:42 2010 UTC (11 years, 9 months ago) by caltinay

Template file for windows and updated cgisrv3 options file, some corrections
to SConstruct for win.

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Revision 3224 - Directory Listing
Modified Wed Sep 29 05:19:37 2010 UTC (11 years, 9 months ago) by jfenwick

indent -linux -nce -i4 -bl -bli0 -l120

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Revision 3223 - Directory Listing
Modified Wed Sep 29 05:02:52 2010 UTC (11 years, 9 months ago) by jfenwick

Remove some - but not all - nasty hacks

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Revision 3221 - Directory Listing
Modified Wed Sep 29 01:00:21 2010 UTC (11 years, 9 months ago) by jfenwick

Comment stripping

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Revision 3220 - Directory Listing
Modified Wed Sep 29 00:33:16 2010 UTC (11 years, 9 months ago) by jfenwick

Removing references to Quadrature.? and ShapeFns

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Revision 3219 - Directory Listing
Modified Tue Sep 28 06:31:22 2010 UTC (11 years, 9 months ago) by caltinay

Do not turn on netCDF by default.

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Revision 3218 - Directory Listing
Modified Tue Sep 28 05:22:35 2010 UTC (11 years, 9 months ago) by caltinay

Changed badger, someone test please...

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Revision 3217 - Directory Listing
Modified Tue Sep 28 05:18:46 2010 UTC (11 years, 9 months ago) by caltinay

Darwin (aka shake24) is happy now too - at least compiling.

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Revision 3216 - Directory Listing
Modified Tue Sep 28 05:13:17 2010 UTC (11 years, 9 months ago) by jfenwick

ElementFile does not use ReferenceElements anymore

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Revision 3215 - Directory Listing
Modified Tue Sep 28 04:14:04 2010 UTC (11 years, 9 months ago) by caltinay

Minor correction - icc does have Werror but it should be disabled for now.

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Revision 3214 - Directory Listing
Modified Tue Sep 28 03:26:24 2010 UTC (11 years, 9 months ago) by caltinay

Builds on savanna now.

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Revision 3213 - Directory Listing
Modified Tue Sep 28 01:11:37 2010 UTC (11 years, 9 months ago) by caltinay

Forgot one file. Also deleted unused/obsolete options files.

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Revision 3212 - Directory Listing
Modified Tue Sep 28 01:06:07 2010 UTC (11 years, 9 months ago) by caltinay

First iteration:
- cleanup of main SConstruct file
- new template options file with commented options
- moved our extensions to the "proper" place according to scons docs
- fixed a regex issue in wrapper script
- this version works on guineapig and shake75

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Revision 3211 - Directory Listing
Modified Tue Sep 28 00:56:06 2010 UTC (11 years, 9 months ago) by caltinay

Branch to rework scons scripts, copy from rev 3210.

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Revision 3210 - Directory Listing
Modified Mon Sep 27 04:13:19 2010 UTC (11 years, 9 months ago) by jfenwick

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Revision 3207 - Directory Listing
Modified Fri Sep 24 03:49:36 2010 UTC (11 years, 9 months ago) by jfenwick

remove BasisFunctions from Jacobeans

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Revision 3206 - Directory Listing
Modified Fri Sep 24 03:20:22 2010 UTC (11 years, 9 months ago) by jfenwick

Remove references to reducedShapeFunction

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Revision 3205 - Directory Listing
Modified Fri Sep 24 00:30:43 2010 UTC (11 years, 9 months ago) by jfenwick

Removing -total from field names

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Revision 3204 - Directory Listing
Modified Thu Sep 23 23:59:39 2010 UTC (11 years, 9 months ago) by jfenwick

More params collapsed

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Revision 3203 - Directory Listing
Modified Thu Sep 23 23:51:26 2010 UTC (11 years, 9 months ago) by jfenwick

Collapsing some col_params

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Revision 3202 - Directory Listing
Modified Thu Sep 23 23:24:09 2010 UTC (11 years, 9 months ago) by jfenwick

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Revision 3199 - Directory Listing
Modified Thu Sep 23 06:08:56 2010 UTC (11 years, 9 months ago) by jfenwick

Some more changed moved over

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Revision 3198 - Directory Listing
Modified Thu Sep 23 05:47:27 2010 UTC (11 years, 9 months ago) by jfenwick

Phew. Moving on.

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Revision 3197 - Directory Listing
Modified Wed Sep 22 05:52:31 2010 UTC (11 years, 9 months ago) by jfenwick

SOme nsaty hacks

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Revision 3196 - Directory Listing
Modified Wed Sep 22 01:18:52 2010 UTC (11 years, 9 months ago) by jfenwick

moving slowly

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Revision 3189 - Directory Listing
Modified Thu Sep 16 05:20:34 2010 UTC (11 years, 9 months ago) by jfenwick

Adding support for selective compiling with loop unroll

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Revision 3187 - Directory Listing
Modified Thu Sep 16 02:57:17 2010 UTC (11 years, 9 months ago) by jfenwick

Enforcing indent -linux -i4 -bl -bli0 -l120

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Revision 3184 - Directory Listing
Modified Wed Sep 15 00:23:42 2010 UTC (11 years, 9 months ago) by jfenwick

Removed volume from ElementFile_Jacobeans

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Revision 3173 - Directory Listing
Modified Fri Sep 10 03:24:38 2010 UTC (11 years, 9 months ago) by jfenwick

Indented Assemble_jacobeans consistantly.
Completed the first pass on the remainder of the functions in Assemble_jacobeans.

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Revision 3172 - Directory Listing
Modified Fri Sep 10 01:38:04 2010 UTC (11 years, 9 months ago) by jfenwick

Jacobeans_3D done first pass

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Revision 3171 - Directory Listing
Modified Fri Sep 10 00:31:11 2010 UTC (11 years, 9 months ago) by jfenwick

Remove some contact jacobean functions.
Assemble_jacobeans_2D_M1D_E2D finished first pass

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Revision 3170 - Directory Listing
Modified Thu Sep 9 05:40:25 2010 UTC (11 years, 9 months ago) by jfenwick

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Revision 3169 - Directory Listing
Modified Thu Sep 9 03:21:35 2010 UTC (11 years, 9 months ago) by jfenwick

Some moving

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Revision 3163 - Directory Listing
Modified Tue Sep 7 05:30:39 2010 UTC (11 years, 10 months ago) by jfenwick

Fixed MPI bug

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Revision 3161 - Directory Listing
Modified Tue Sep 7 04:17:03 2010 UTC (11 years, 10 months ago) by jfenwick

Switch to repository versions of required packages.
Fix some OpenMP problems

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Revision 3157 - Directory Listing
Modified Mon Sep 6 05:10:18 2010 UTC (11 years, 10 months ago) by jfenwick

hacking

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Revision 3156 - Directory Listing
Modified Mon Sep 6 00:50:17 2010 UTC (11 years, 10 months ago) by jfenwick

Removing 1D code

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Revision 3155 - Directory Listing
Modified Mon Sep 6 00:35:43 2010 UTC (11 years, 10 months ago) by jfenwick

More gutting

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Revision 3152 - Directory Listing
Modified Fri Sep 3 05:48:31 2010 UTC (11 years, 10 months ago) by jfenwick

Collapsed duplicate fields

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Revision 3149 - Directory Listing
Modified Fri Sep 3 03:49:32 2010 UTC (11 years, 10 months ago) by jfenwick

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Revision 3145 - Directory Listing
Modified Fri Sep 3 01:25:52 2010 UTC (11 years, 10 months ago) by jfenwick

Removed linearNodes and subElementNodes from ReferenceElementInfo

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Revision 3144 - Directory Listing
Modified Fri Sep 3 00:49:02 2010 UTC (11 years, 10 months ago) by jfenwick

row_node, col_node (Assemble params), node_selection 
removed

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Revision 3141 - Directory Listing
Modified Thu Sep 2 23:52:41 2010 UTC (11 years, 10 months ago) by jfenwick

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Revision 3138 - Directory Listing
Modified Thu Sep 2 05:18:42 2010 UTC (11 years, 10 months ago) by jfenwick

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Revision 3137 - Directory Listing
Modified Thu Sep 2 05:03:17 2010 UTC (11 years, 10 months ago) by jfenwick

Removed numSubQuad

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Revision 3136 - Directory Listing
Modified Thu Sep 2 03:48:29 2010 UTC (11 years, 10 months ago) by jfenwick

Removed numSubElements

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Revision 3134 - Directory Listing
Modified Thu Sep 2 03:01:29 2010 UTC (11 years, 10 months ago) by jfenwick

Removed numSides

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Revision 3130 - Directory Listing
Modified Thu Sep 2 01:40:12 2010 UTC (11 years, 10 months ago) by jfenwick

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Revision 3127 - Directory Listing
Modified Wed Sep 1 01:30:28 2010 UTC (11 years, 10 months ago) by jfenwick

Moving slowly

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Revision 3126 - Directory Listing
Modified Wed Sep 1 00:37:53 2010 UTC (11 years, 10 months ago) by jfenwick

Updated referenceElements and enums

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Revision 3124 - Directory Listing
Modified Tue Aug 31 04:09:25 2010 UTC (11 years, 10 months ago) by jfenwick

Passes tests now.
Time for more slash and burn

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Revision 3123 - Directory Listing
Modified Tue Aug 31 03:43:55 2010 UTC (11 years, 10 months ago) by jfenwick

...

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Revision 3122 - Directory Listing
Modified Tue Aug 31 02:56:34 2010 UTC (11 years, 10 months ago) by jfenwick

Passes some more tests

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Revision 3119 - Directory Listing
Modified Mon Aug 30 05:09:28 2010 UTC (11 years, 10 months ago) by jfenwick

Fixed more problems

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Revision 3118 - Directory Listing
Modified Mon Aug 30 04:26:17 2010 UTC (11 years, 10 months ago) by jfenwick

Passing linearPDEs1. Removing Macro test

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Revision 3117 - Directory Listing
Modified Mon Aug 30 02:10:26 2010 UTC (11 years, 10 months ago) by jfenwick

Face elts fixed

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Revision 3115 - Directory Listing
Modified Sun Aug 29 23:14:35 2010 UTC (11 years, 10 months ago) by jfenwick

Now have cubes facing the correct direction

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Revision 3114 - Directory Listing
Modified Fri Aug 27 05:26:25 2010 UTC (11 years, 10 months ago) by jfenwick

It doesn't pass all tests but this is major progress

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Revision 3090 - Directory Listing
Modified Wed Aug 11 00:51:28 2010 UTC (11 years, 10 months ago) by jfenwick

Removed:
DUDLEY_CONTACT_ELEMENTS_1
DUDLEY_CONTACT_ELEMENTS_2
DUDLEY_REDUCED_CONTACT_ELEMENTS_1
DUDLEY_REDUCED_CONTACT_ELEMENTS_2

escript tests now query if the domain supports contact elements
before trying to use them.

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Revision 3088 - Directory Listing
Modified Mon Aug 9 04:55:03 2010 UTC (11 years, 11 months ago) by jfenwick

final pass on rename

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Revision 3087 - Directory Listing
Modified Fri Aug 6 05:25:59 2010 UTC (11 years, 11 months ago) by jfenwick

Contiuneswq

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Revision 3086 - Directory Listing
Modified Thu Aug 5 05:07:58 2010 UTC (11 years, 11 months ago) by jfenwick

Another pass at removing finley

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Revision 3085 - Directory Listing
Modified Thu Aug 5 00:44:32 2010 UTC (11 years, 11 months ago) by jfenwick

Unit tests working again

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Revision 3082 - Directory Listing
Modified Tue Aug 3 06:04:05 2010 UTC (11 years, 11 months ago) by jfenwick

Builds but does not import properly

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Revision 3080 - Directory Listing
Modified Tue Aug 3 04:28:03 2010 UTC (11 years, 11 months ago) by jfenwick

inital rename

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Revision 3079 - Directory Listing
Modified Tue Aug 3 04:04:51 2010 UTC (11 years, 11 months ago) by jfenwick

Some experiments on finley

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Revision 3049 - Directory Listing
Modified Fri Jun 25 04:20:29 2010 UTC (12 years ago) by lgao

Add direct solver pastix 2995. Currently works for single MPI rank only. For jobs with more than 1 MPI rank, the structure "coupleBlock" in "SystemMatrix" is not ready yet. 

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Revision 3048 - Directory Listing
Modified Fri Jun 25 03:46:37 2010 UTC (12 years ago) by lgao

Creating a branch of trunk r3047 with pastix 2995.

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Revision 2983 - Directory Listing
Modified Thu Mar 11 04:44:03 2010 UTC (12 years, 3 months ago) by jfenwick

Updating cookbook to trunk 2982

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Revision 2981 - Directory Listing
Modified Wed Mar 10 00:28:32 2010 UTC (12 years, 4 months ago) by jfenwick

Bringing release up to trunk2980

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Revision 2947 - Directory Listing
Modified Wed Feb 24 01:20:04 2010 UTC (12 years, 4 months ago) by jfenwick

Remove escript covert from release since it depends on weipa.
Updated SConstruct accordingly

Added a warning to the package builder to explain why guineapig can't
use lsb_release to find which distribution it is running on.
1. lsb_release is written in python [umm]
2. It hardcodes the path to the system python. [fine]
3. system python can't understand the futuristic site packages which are
   also on the path. [Nrrgggg - look for your own version please]

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Revision 2946 - Directory Listing
Modified Wed Feb 24 00:37:43 2010 UTC (12 years, 4 months ago) by jfenwick

Fix a symlink to the old escript man page.
Actually add the doc-base files rather than just the directory

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Revision 2945 - Directory Listing
Modified Wed Feb 24 00:17:46 2010 UTC (12 years, 4 months ago) by jfenwick

Bringing release stage up to trunk version 2944

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Revision 2928 - Directory Listing
Modified Fri Feb 5 04:54:22 2010 UTC (12 years, 5 months ago) by jfenwick

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Revision 2927 - Directory Listing
Modified Fri Feb 5 03:34:39 2010 UTC (12 years, 5 months ago) by jfenwick

Added distro detection and modified the deps for the release_prep target

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Revision 2922 - Directory Listing
Modified Thu Feb 4 04:00:13 2010 UTC (12 years, 5 months ago) by jfenwick

Commit missing control file

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Revision 2921 - Directory Listing
Modified Thu Feb 4 01:42:47 2010 UTC (12 years, 5 months ago) by jfenwick

Bringing the rest of the branch (doh) up to trunk revision 2917

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Revision 2920 - Directory Listing
Modified Thu Feb 4 01:41:19 2010 UTC (12 years, 5 months ago) by jfenwick

Bringing release branch up to trunk revision2917

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Revision 2916 - Directory Listing
Modified Wed Feb 3 06:15:01 2010 UTC (12 years, 5 months ago) by jfenwick

Updated install guide to use new launcher.

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Revision 2909 - Directory Listing
Modified Wed Feb 3 03:08:03 2010 UTC (12 years, 5 months ago) by jfenwick

Rename launcher

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Revision 2908 - Directory Listing
Modified Wed Feb 3 01:43:46 2010 UTC (12 years, 5 months ago) by jfenwick

Added AusPDC reference.
Mentioned rename of launcher.

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Revision 2901 - Directory Listing
Modified Mon Feb 1 06:20:24 2010 UTC (12 years, 5 months ago) by jfenwick

Package will now register its doco with debian.
The dependency on doc-base has been added.

There is now a release_prep target on scons which builds both 
libraries and doco.

Most of the use of chdir= in scons has been removed.
Options files added for generic debian python 2.5 and 2.6

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Revision 2894 - Directory Listing
Modified Fri Jan 29 04:58:03 2010 UTC (12 years, 5 months ago) by jfenwick

builddeb can now build escript-noalias packages

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Revision 2892 - Directory Listing
Modified Fri Jan 29 00:48:14 2010 UTC (12 years, 5 months ago) by jfenwick

Add release notes to user guide and start process of renaming the 
manpage

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Revision 2889 - Directory Listing
Modified Fri Jan 29 00:13:45 2010 UTC (12 years, 5 months ago) by jfenwick

Add release info to the cookbook.
Build cookbook as part of docs target.
Update manpage to reflect new name.

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Revision 2885 - Directory Listing
Modified Thu Jan 28 05:38:10 2010 UTC (12 years, 5 months ago) by jfenwick

Testing putting a symlink in version control

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Revision 2876 - Directory Listing
Modified Wed Jan 27 06:10:15 2010 UTC (12 years, 5 months ago) by jfenwick

Expriment with renaming wrapper

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Revision 2874 - Directory Listing
Modified Wed Jan 27 01:26:04 2010 UTC (12 years, 5 months ago) by jfenwick

Some version numbers updated for next release

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Revision 2871 - Directory Listing
Modified Wed Jan 27 00:28:50 2010 UTC (12 years, 5 months ago) by jfenwick

Creating staging area for release 3.1

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Revision 2823 - Directory Listing
Modified Tue Dec 15 00:16:05 2009 UTC (12 years, 6 months ago) by ahallam

place for cookbook to roam free

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Revision 2741 - Directory Listing
Modified Wed Nov 11 01:06:33 2009 UTC (12 years, 7 months ago) by jfenwick

Adding unit tests for ReadyData forms

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Revision 2740 - Directory Listing
Modified Tue Nov 10 06:48:24 2009 UTC (12 years, 7 months ago) by jfenwick

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Revision 2739 - Directory Listing
Modified Mon Nov 9 06:25:31 2009 UTC (12 years, 7 months ago) by jfenwick

inverse moved to CPP side.
Lapack implementation next.

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Revision 2682 - Directory Listing
Modified Fri Sep 25 01:35:55 2009 UTC (12 years, 9 months ago) by jfenwick

Experimenting with Lapack

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Revision 2624 - Directory Listing
Modified Fri Aug 21 04:54:44 2009 UTC (12 years, 10 months ago) by jfenwick

Done

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Revision 2623 - Directory Listing
Modified Fri Aug 21 04:41:36 2009 UTC (12 years, 10 months ago) by jfenwick

Nearly done

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Revision 2622 - Directory Listing
Modified Fri Aug 21 01:33:16 2009 UTC (12 years, 10 months ago) by jfenwick

escriptcpp done

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Revision 2621 - Directory Listing
Modified Thu Aug 20 23:48:31 2009 UTC (12 years, 10 months ago) by jfenwick

Added some doc to escriptcpp

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Revision 2619 - Directory Listing
Modified Thu Aug 20 05:56:15 2009 UTC (12 years, 10 months ago) by jfenwick

Added Docstrings to FunctionSpace and Data

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Revision 2618 - Directory Listing
Modified Thu Aug 20 00:52:43 2009 UTC (12 years, 10 months ago) by jfenwick

Fixing errors related to pyvisi

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Revision 2617 - Directory Listing
Modified Thu Aug 20 00:15:52 2009 UTC (12 years, 10 months ago) by jfenwick

Fixing errors related to line breaks

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Revision 2616 - Directory Listing
Modified Wed Aug 19 06:33:08 2009 UTC (12 years, 10 months ago) by jfenwick

Changed last M{} markup.
Had some issues working out how to deal with expressions which ended with *
ended up doing X* ->  *(X * )*

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Revision 2615 - Directory Listing
Modified Wed Aug 19 05:44:15 2009 UTC (12 years, 10 months ago) by jfenwick

Replacing M{xyz} where xyz does not contain { } and fixing resulting errors.

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Revision 2614 - Directory Listing
Modified Wed Aug 19 03:50:10 2009 UTC (12 years, 10 months ago) by jfenwick

Replaced C{x} with ``x``

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Revision 2613 - Directory Listing
Modified Wed Aug 19 03:15:33 2009 UTC (12 years, 10 months ago) by jfenwick

Converted L{thing <blah>} to `thing`

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Revision 2612 - Directory Listing
Modified Wed Aug 19 01:48:50 2009 UTC (12 years, 10 months ago) by jfenwick

Coverted annoymous links.
Links with names not done yet

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Revision 2611 - Directory Listing
Modified Wed Aug 19 00:37:43 2009 UTC (12 years, 10 months ago) by jfenwick

Some more tags and some more emails

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Revision 2610 - Directory Listing
Modified Tue Aug 18 06:27:30 2009 UTC (12 years, 10 months ago) by jfenwick

Auto replaced a bunch of tags.
Some still remain.

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Revision 2609 - Directory Listing
Modified Tue Aug 18 01:54:04 2009 UTC (12 years, 10 months ago) by jfenwick

Doing experiments with reStructured text

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Revision 2590 - Directory Listing
Modified Thu Aug 6 00:08:23 2009 UTC (12 years, 11 months ago) by jfenwick

Updated users guide to talk about support bundles.

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Revision 2587 - Directory Listing
Modified Wed Aug 5 05:34:30 2009 UTC (12 years, 11 months ago) by jfenwick

Fixed typo

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Revision 2586 - Directory Listing
Modified Wed Aug 5 05:11:58 2009 UTC (12 years, 11 months ago) by jfenwick

Fix input to griddata

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Revision 2585 - Directory Listing
Modified Wed Aug 5 03:46:14 2009 UTC (12 years, 11 months ago) by jfenwick

Removing install script from Mac instructions.
Removing cookbook.
Removing extraneous options files.
Adding note about options file name coversion

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Revision 2584 - Directory Listing
Modified Wed Aug 5 02:44:51 2009 UTC (12 years, 11 months ago) by jfenwick

Merging Lutz' doco changes to release

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Revision 2582 - Directory Listing
Modified Wed Aug 5 01:46:33 2009 UTC (12 years, 11 months ago) by jfenwick

Adding extra depedencies

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Revision 2579 - Directory Listing
Modified Tue Aug 4 05:49:33 2009 UTC (12 years, 11 months ago) by jfenwick

Telling people they actually need boostpython

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Revision 2577 - Directory Listing
Modified Tue Aug 4 03:44:37 2009 UTC (12 years, 11 months ago) by jfenwick

Fixed missing quote

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Revision 2576 - Directory Listing
Modified Tue Aug 4 03:36:08 2009 UTC (12 years, 11 months ago) by jfenwick

Updating script to allow separate jaunty builds.

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Revision 2572 - Directory Listing
Modified Mon Aug 3 03:16:43 2009 UTC (12 years, 11 months ago) by jfenwick

Fixing the architecture. i386 not i686

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Revision 2571 - Directory Listing
Modified Sun Aug 2 23:44:59 2009 UTC (12 years, 11 months ago) by jfenwick

More cleanup and doco tweaks

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Revision 2570 - Directory Listing
Modified Sun Aug 2 23:39:02 2009 UTC (12 years, 11 months ago) by jfenwick

Removing tools from release staging

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Revision 2569 - Directory Listing
Modified Fri Jul 31 05:39:36 2009 UTC (12 years, 11 months ago) by jfenwick

Staging area for release 3.0

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Revision 2454 - Directory Listing
Modified Tue Jun 2 22:56:49 2009 UTC (13 years, 1 month ago) by jfenwick

Bringing branch up to trunk r2452

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Revision 2453 - Directory Listing
Modified Tue Jun 2 22:54:20 2009 UTC (13 years, 1 month ago) by jfenwick

Removing NONUMARRAY defines

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Revision 2452 - Directory Listing
Modified Tue Jun 2 22:43:53 2009 UTC (13 years, 1 month ago) by jfenwick

Branch of trunk for csiro

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Revision 2451 - Directory Listing
Modified Tue Jun 2 03:30:13 2009 UTC (13 years, 1 month ago) by jfenwick

Bringing changes up to 2449

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Revision 2449 - Directory Listing
Modified Mon Jun 1 01:45:01 2009 UTC (13 years, 1 month ago) by jfenwick

Recording doco changes from trunk.
Some corrections to the install from source section

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Revision 2441 - Directory Listing
Modified Fri May 29 00:22:42 2009 UTC (13 years, 1 month ago) by jfenwick

Branch now current with Trunk revision 2440

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Revision 2437 - Directory Listing
Modified Tue May 26 01:48:35 2009 UTC (13 years, 1 month ago) by jfenwick

Modified WrappedArray to cope with numpy types.
Numpy branch passes utest.sh but has not had the latest trunk changes pulled over yet.

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Revision 2435 - Directory Listing
Modified Mon May 25 03:58:04 2009 UTC (13 years, 1 month ago) by jfenwick

Fixes for the boost-1.39 problem.
It is less efficient than what we were doing previously but it works.

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Revision 2410 - Directory Listing
Modified Wed May 6 06:11:53 2009 UTC (13 years, 2 months ago) by jfenwick

Fixed minor problem with unit tests if ppmtompeg was not available.

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Revision 2408 - Directory Listing
Modified Fri May 1 05:36:51 2009 UTC (13 years, 2 months ago) by jfenwick

renamed some vars in modelframe to reduce the occurance of numarray.
RecTest works
Fixed a numarray reference in tsunami.

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Revision 2407 - Directory Listing
Modified Fri May 1 01:28:06 2009 UTC (13 years, 2 months ago) by jfenwick

Some more removals of numarray (tested on a machine without numarray installed).

I've tested where possible but some files remain in doubt:
tsunami - wasn't working for me before I started meddling - I need an extra datafile from somewhere.
wave_with_pyvisi.py - its still running.
crustal/newcastle.py - wasn't working for me prior to meddling

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Revision 2406 - Directory Listing
Modified Thu Apr 30 04:31:50 2009 UTC (13 years, 2 months ago) by jfenwick

Passes unit tests.
Not sure if I've caught all the numarray uses yet though.
Regardless, I have not attempted to rewrite anything not touched by the unit tests

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Revision 2400 - Directory Listing
Modified Wed Apr 29 01:37:54 2009 UTC (13 years, 2 months ago) by jfenwick

Added directives to comment out numarray code.
This code does not pass unit tests but I need a checkpoint

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Revision 2396 - Directory Listing
Modified Thu Apr 23 23:58:29 2009 UTC (13 years, 2 months ago) by jfenwick

Branching to port escript to use numpy rather than numarray

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Revision 2270 - Directory Listing
Modified Mon Feb 16 04:43:28 2009 UTC (13 years, 4 months ago) by jfenwick

Bringing branch up to 2269

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Revision 2266 - Directory Listing
Modified Thu Feb 12 03:42:56 2009 UTC (13 years, 4 months ago) by jfenwick

Bringing branch up to trunk version 2265.
Passes unit tests for OMP=1 and OMP=8.

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Revision 2233 - Directory Listing
Modified Fri Jan 30 05:27:19 2009 UTC (13 years, 5 months ago) by jfenwick

Changes from trunk to fix unit test builds.

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Revision 2230 - Directory Listing
Modified Thu Jan 29 00:07:19 2009 UTC (13 years, 5 months ago) by jfenwick

Added requireWrite calls to TransportProblemAdapter.
(problem was not picked up by unit tests).

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Revision 2229 - Directory Listing
Modified Wed Jan 28 05:47:23 2009 UTC (13 years, 5 months ago) by jfenwick

Fixed deallocation bug.
This version passes unit tests for OMP_NUM_THREADS=8 with auto lazy on or off.
Haven't tested MPI yet.

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Revision 2228 - Directory Listing
Modified Wed Jan 28 04:27:04 2009 UTC (13 years, 5 months ago) by jfenwick

Fixed a nested parallel section. (My fault).

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Revision 2227 - Directory Listing
Modified Tue Jan 27 04:11:38 2009 UTC (13 years, 5 months ago) by jfenwick

Added BufferGroup, moved alloc/dealloc out of parallel sections.

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Revision 2226 - Directory Listing
Modified Thu Jan 22 05:11:02 2009 UTC (13 years, 5 months ago) by jfenwick

It continues

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Revision 2225 - Directory Listing
Modified Wed Jan 21 05:30:12 2009 UTC (13 years, 5 months ago) by jfenwick

And again.

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Revision 2224 - Directory Listing
Modified Wed Jan 21 03:39:43 2009 UTC (13 years, 5 months ago) by jfenwick

Removed some old comments.
Renaming to RW/RO versions of methods continues.

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Revision 2223 - Directory Listing
Modified Wed Jan 21 01:25:01 2009 UTC (13 years, 5 months ago) by jfenwick

Added getVectorRW() and removed all getVector() calls.

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Revision 2222 - Directory Listing
Modified Tue Jan 20 04:52:39 2009 UTC (13 years, 5 months ago) by jfenwick

Saving work

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Revision 2221 - Directory Listing
Modified Mon Jan 19 06:11:25 2009 UTC (13 years, 5 months ago) by jfenwick

A second attempt at a thread-safe COW

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Revision 2220 - Directory Listing
Modified Wed Jan 14 05:59:25 2009 UTC (13 years, 5 months ago) by jfenwick

Added getVectorRO to DataReady to deal with some shared data execeptions exposed when using AUTOLAZY.

This version appears to pass most unit tests under AUTOLAZY but build/posix/finley/test/python/run_models.passed  seems very slow.

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Revision 2219 - Directory Listing
Modified Wed Jan 14 04:31:34 2009 UTC (13 years, 5 months ago) by jfenwick

Merging changes from trunk 2098:2218

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Revision 2218 - Directory Listing
Modified Wed Jan 14 03:42:44 2009 UTC (13 years, 5 months ago) by jfenwick

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Revision 2217 - Directory Listing
Modified Wed Jan 14 03:41:53 2009 UTC (13 years, 5 months ago) by jfenwick

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Revision 2216 - Directory Listing
Modified Wed Jan 14 03:40:38 2009 UTC (13 years, 5 months ago) by jfenwick

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Revision 2215 - Directory Listing
Modified Wed Jan 14 03:40:20 2009 UTC (13 years, 5 months ago) by jfenwick

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Revision 2214 - Directory Listing
Modified Wed Jan 14 03:39:41 2009 UTC (13 years, 5 months ago) by jfenwick

Accepting some changes which should be ok.

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Revision 2213 - Directory Listing
Modified Wed Jan 14 00:23:39 2009 UTC (13 years, 5 months ago) by jfenwick

In preparation for merging to trunk

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Revision 2212 - Directory Listing
Modified Wed Jan 14 00:15:00 2009 UTC (13 years, 5 months ago) by jfenwick

Executive summary:

This commit adds copy on write checks to operations involving shared data. 

Changes:

new #defines:
~~~~~~~~~~~~~
Data.cpp has ASSIGNMENT_MEANS_DEEPCOPY (defaults to undefined).
Defining this will put the data = operator back to making deep copies instead
of sharing data (now the default.)

Data:
~~~~~
. Added exclusiveWrite method to copy the underlying data if it is shared.
. Some operators which took python objects now call the c++ versions intead of duplicating code.

DataAbstract and offspring:
~~~~~~~~~~~~~~~~~~~~~~~~~~~
. Added method to determine whether the data is currently shared.
. Added getVectorRO to children of DataReady.
. Added getTagRO.

. Operations which modify values in place (or return modifiable pointers) now use
a macro to check for sharing. In the case where a modification attempt is detected, it throws an exception. In the future, I will enable this only for debugging.

. This shold not really have been required but the compiler was not choosing the use the const version as I would have liked. Besides, this makes things explict.

. Moved (and de-inlined) getVector in DataConstant (It was virtual in a parent class).

Unit tests:
~~~~~~~~~~~
Added both python and c++ unit tests to check known cases of sharing and "inplace"
modification operations.

General:
~~~~~~~~
Removed some commented out code.

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Revision 2209 - Directory Listing
Modified Tue Jan 13 00:32:56 2009 UTC (13 years, 5 months ago) by jfenwick

Removing debug jtest function.

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Revision 2207 - Directory Listing
Modified Fri Jan 9 06:21:55 2009 UTC (13 years, 5 months ago) by jfenwick

Use C comment

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Revision 2205 - Directory Listing
Modified Fri Jan 9 01:49:36 2009 UTC (13 years, 5 months ago) by jfenwick

Now compiles.

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Revision 2203 - Directory Listing
Modified Fri Jan 9 01:33:34 2009 UTC (13 years, 5 months ago) by jfenwick

Make sure __const is in system_dep for escript.

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Revision 2202 - Directory Listing
Modified Fri Jan 9 01:28:32 2009 UTC (13 years, 5 months ago) by jfenwick

Branching the array experiments from version 2137.
The idea is to make the changes required for the c++ changes to compile 
on windows without bringing in the later python changes.

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Revision 2145 - Directory Listing
Modified Wed Dec 10 00:48:53 2008 UTC (13 years, 6 months ago) by jfenwick

Branch commit.
This version of the python files passes unit tests compiled with 
usenumarray=no and usenumarray=yes
That is, it does not use any functions returning 
boost::python::numeric::array

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Revision 2143 - Directory Listing
Modified Tue Dec 9 06:28:10 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Added scons option usenumarray (defaults to yes).
This controls the NONUMARRAY define which switches off all explicit 
references to boost::python::numeric::array

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Revision 2140 - Directory Listing
Modified Tue Dec 9 01:21:49 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Passes all* unit tests on badger.
Note I have only changed those parts of the system necessary to get the 
unit tests to pass. There are still references to numarray in some 
files.

* I have disabled the testBoolLists test in run_xml.py.
The issue there is that numarray converts a list of bools into ints.
The test tries to convert items into floats.
numpy leaves a list of bools as bools (which float()) doesn't like.

Somebody needs to decide what the correct behviour is so the code can
be corrected.

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Revision 2139 - Directory Listing
Modified Mon Dec 8 06:01:56 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Passes some but not all unit tests.

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Revision 2137 - Directory Listing
Modified Mon Dec 8 00:26:34 2008 UTC (13 years, 7 months ago) by jfenwick

Added integrate to tuple.

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Revision 2136 - Directory Listing
Modified Fri Dec 5 04:36:13 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit
Merged changes from DataC branch (current head is 2135).
This includes the actsExpanded function as well as getSampleDataRW and getSampleDataRO.

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Revision 2135 - Directory Listing
Modified Fri Dec 5 03:32:21 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
This version passes unit tests.
But integrate still returns a numarray.

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Revision 2134 - Directory Listing
Modified Fri Dec 5 03:02:32 2008 UTC (13 years, 7 months ago) by jfenwick

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Revision 2133 - Directory Listing
Modified Fri Dec 5 00:20:46 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
More stuff.

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Revision 2124 - Directory Listing
Modified Wed Dec 3 03:33:34 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Bypass surgery continues.

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Revision 2119 - Directory Listing
Modified Tue Dec 2 06:06:04 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Threading Wrapped Array through the code.

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Revision 2116 - Directory Listing
Modified Tue Dec 2 01:58:34 2008 UTC (13 years, 7 months ago) by jfenwick

Initial experiments are successful.

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Revision 2111 - Directory Listing
Modified Mon Dec 1 01:16:18 2008 UTC (13 years, 7 months ago) by jfenwick

Doin' some experiments

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Revision 2103 - Directory Listing
Modified Thu Nov 27 01:00:34 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Added a note about mismatched allocs and decallocs.
Added Data::actsExpanded and friends.
Modified DataC::isExpanded to call it instead of Data::isExpanded.

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Revision 2099 - Directory Listing
Modified Wed Nov 26 05:46:01 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Modifed getSampleData to take a buffer.
Added calls to allocate and free buffers.
Passes unit tests on badger but have not tried on savanna yet.

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Revision 2095 - Directory Listing
Modified Tue Nov 25 05:55:00 2008 UTC (13 years, 7 months ago) by jfenwick

Branch commit.
Replace getSampleData with getSampleDataRW and getSampleDataRO

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Revision 2093 - Directory Listing
Modified Tue Nov 25 04:20:56 2008 UTC (13 years, 7 months ago) by jfenwick

Branching to experiment with changes to the DataC interface.
The goal is to separate read and write access to pointers.

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Revision 2004 - Directory Listing
Modified Mon Nov 10 00:38:46 2008 UTC (13 years, 7 months ago) by jfenwick

Merging changes upto 2002 onto branch

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Revision 2003 - Directory Listing
Modified Sun Nov 9 23:57:05 2008 UTC (13 years, 7 months ago) by jfenwick

Merging from trunk again

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Revision 2002 - Directory Listing
Modified Sat Nov 8 11:37:25 2008 UTC (13 years, 8 months ago) by phornby

One step closer to getting openmp going on windows.
All compiles & links, and the run_tests starts OK.

However, it stops after the first set of tests, and complains that libguide.lib is being initialised
when it is already initialised, and this will cause performance degradation.

It says I can set an environment variable to override the error generation, but advises the correct action
is to manage libguide correctly. This may be relevant to the altix?

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Revision 2001 - Directory Listing
Modified Sat Nov 8 10:38:49 2008 UTC (13 years, 8 months ago) by phornby

reorder includes so that the intel compiler math include comes in first.

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Revision 2000 - Directory Listing
Modified Sat Nov 8 09:06:30 2008 UTC (13 years, 8 months ago) by phornby

I know this is a no-no, but I'm tired of this signed/unsigned warning making my head flick around.

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Revision 1999 - Directory Listing
Modified Sat Nov 8 08:53:11 2008 UTC (13 years, 8 months ago) by phornby

Somehow, these changes (getLazy -> getLazyU/B) got lost in the revert.

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Revision 1998 - Directory Listing
Modified Sat Nov 8 08:47:54 2008 UTC (13 years, 8 months ago) by phornby

Please ignore the last checkin. A trick I used in
LazyData (which worked) when applied to THROW() failed horribly.
Why it should work in one case and not the other....... who knows?

I have reverted to the THROW_ANY macro for throw().

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Revision 1997 - Directory Listing
Modified Sat Nov 8 08:14:12 2008 UTC (13 years, 8 months ago) by phornby

Eliminated THROW_ANY macro, and replaced it with the usaage
THROW(/**/).

The issue: Windows preprocessor does not like THROW(). If the macro
is defined to have one argument, then windows expects one argument.

Please read the comments in esysUtils/src/system_dep.h,
They are important, as regards the intel compiler and math.h.

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Revision 1996 - Directory Listing
Modified Sat Nov 8 08:09:53 2008 UTC (13 years, 8 months ago) by phornby

Modified strs[] to be an array of const char *'s rather than char *'s.
It was being initialised by an array of const char *'s which made the gcc compiler
uncomfortable.

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Revision 1995 - Directory Listing
Modified Fri Nov 7 06:02:06 2008 UTC (13 years, 8 months ago) by phornby

replaced a few getLazy calls with getLazyU and getLazyB. It looked like the right thing to do given the arguments.

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Revision 1994 - Directory Listing
Modified Fri Nov 7 05:18:17 2008 UTC (13 years, 8 months ago) by phornby

Revert to assuming template_function<>(arg,....) is allowed calling
syntax when the template arg type is well defined.

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Revision 1993 - Directory Listing
Modified Fri Nov 7 04:52:15 2008 UTC (13 years, 8 months ago) by phornby

Remove duplicate declaration of opToString.

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Revision 1992 - Directory Listing
Modified Fri Nov 7 04:51:04 2008 UTC (13 years, 8 months ago) by phornby

Give opToString global linkage scope, as it is called by tests outside the dll

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Revision 1988 - Directory Listing
Modified Fri Nov 7 03:28:58 2008 UTC (13 years, 8 months ago) by phornby

isLazy symbol needed global scope as it is called from outside the dll

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Revision 1987 - Directory Listing
Modified Fri Nov 7 02:59:02 2008 UTC (13 years, 8 months ago) by phornby

Test checkin to see if other compilers' macro preprocessors can sustain this abuse.

Added a TYPE argument to PROC_OP so that the user can optionally disambiguate the
type of the second argument. Needed for ::pow on windows.

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Revision 1972 - Directory Listing
Modified Thu Nov 6 01:49:39 2008 UTC (13 years, 8 months ago) by jfenwick

Branch commit.
Fixed to help windows determine template params.

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Revision 1951 - Directory Listing
Modified Thu Oct 30 02:42:31 2008 UTC (13 years, 8 months ago) by jfenwick

Branch commit.
My fault.

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Revision 1950 - Directory Listing
Modified Thu Oct 30 00:59:34 2008 UTC (13 years, 8 months ago) by jfenwick

Branch commit
Brought schroedinger merge upto trunk@1946.

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Revision 1949 - Directory Listing
Modified Thu Oct 30 00:10:35 2008 UTC (13 years, 8 months ago) by jfenwick

Branch commit.
Fixed some compile errors.

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Revision 1948 - Directory Listing
Modified Wed Oct 29 23:44:45 2008 UTC (13 years, 8 months ago) by jfenwick

Branch commit.
Merge trunk changes upto 1870 (using the moreshared branchs record) to 
schroedinger.