Log of /trunk/paso/src

---

Revision 3510 - Directory Listing
Modified Fri May 13 06:09:49 2011 UTC (9 years, 9 months ago) by gross

some fixes for the compilation without BOOMERAMG

---

Revision 3508 - Directory Listing
Modified Fri May 13 04:15:29 2011 UTC (9 years, 9 months ago) by lgao

Add Boomer AMG as a new preconditioner 
Can be used by .setPreconditioner(SolverOptions.BOOMERAMG)
and the following parallel coarsening method can be 
used together with Boomer AMG preconditioner: 
  .setCoarsening(SolverOptions.CIJP_FIXED_RANDOM_COARSENING)
  .setCoarsening(SolverOptions.CIJP_COARSENING)
  .setCoarsening(SolverOptions.FALGOUT_COARSENING)
  .setCoarsening(SolverOptions.PMIS_COARSENING)
  .setCoarsening(SolverOptions.HMIS_COARSENING)

Note that Boomer AMG is only available when MPI is enabled.  

---

Revision 3498 - Directory Listing
Modified Thu Apr 7 01:12:59 2011 UTC (9 years, 10 months ago) by lgao

Two modifications to OpenMP versioned AMG: 
(1) in RungeStueben Search: 
    * use a smaller panel to reduce the searching time for an unkown with
      the largest lambda value;
    * fix the mistakes made in this function (Two places where set S is 
      expected, not set S^T).
(2) while construct the coarse level matrix A_C:
      A_C = P^T (A P) where A is the fine level matrix and P is the 
      interpolation operator. Since we've already had the tranpose of P
      when we process "A_temp = A P", the performance of matrix product 
      can be improved when we use P^T for the calculation of A_temp.

---

Revision 3490 - Directory Listing
Modified Wed Mar 30 02:24:33 2011 UTC (9 years, 11 months ago) by caltinay

More gcc-4.6 fixes (mostly initialized-but-unused-var warnings)

---

Revision 3489 - Directory Listing
Modified Wed Mar 30 00:46:04 2011 UTC (9 years, 11 months ago) by caltinay

Fixed a few warnings emitted by gcc-4.6.

---

Revision 3485 - Directory Listing
Modified Thu Mar 24 22:44:40 2011 UTC (9 years, 11 months ago) by gross

some compile fixes

---

Revision 3483 - Directory Listing
Modified Wed Mar 23 04:18:35 2011 UTC (9 years, 11 months ago) by gross

Ops: AMG MPI chould not be called yet.

---

Revision 3482 - Directory Listing
Modified Wed Mar 23 04:06:52 2011 UTC (9 years, 11 months ago) by gross

some work on AMG MPI

---

Revision 3459 - Directory Listing
Modified Wed Feb 2 01:54:45 2011 UTC (10 years, 1 month ago) by caltinay

Patch from Terry to fix compilation on Windows with MKL enabled.

---

Revision 3458 - Directory Listing
Modified Mon Jan 31 07:06:42 2011 UTC (10 years, 1 month ago) by gross

more on AMG under MPI

---

Revision 3456 - Directory Listing
Modified Tue Jan 25 08:20:02 2011 UTC (10 years, 1 month ago) by gross

segfault fixed

---

Revision 3455 - Directory Listing
Modified Tue Jan 25 04:23:17 2011 UTC (10 years, 1 month ago) by gross

some compilation fixes

---

Revision 3451 - Directory Listing
Modified Sun Jan 23 23:11:01 2011 UTC (10 years, 1 month ago) by gross

compilation fixes

---

Revision 3450 - Directory Listing
Modified Fri Jan 21 06:39:56 2011 UTC (10 years, 1 month ago) by gross

more compilation fixing

---

Revision 3449 - Directory Listing
Modified Fri Jan 21 05:48:15 2011 UTC (10 years, 1 month ago) by gross

compile problem in AMG fixed.

---

Revision 3446 - Directory Listing
Modified Thu Jan 20 06:47:07 2011 UTC (10 years, 1 month ago) by gross

and more work toward AMG MPI

---

Revision 3445 - Directory Listing
Modified Wed Jan 19 06:02:15 2011 UTC (10 years, 1 month ago) by gross

more work towards MPI AMG

---

Revision 3443 - Directory Listing
Modified Tue Jan 18 05:38:48 2011 UTC (10 years, 1 month ago) by gross

test for AMG fixed. New test set guarantees SPD stiffness matrix. Previously this was not guaranteed and could lead to singular coarse level matrices (which cause MKL based runs to fail)

---

Revision 3442 - Directory Listing
Modified Tue Jan 18 01:47:36 2011 UTC (10 years, 1 month ago) by gross

 emeregncy

---

Revision 3441 - Directory Listing
Modified Fri Jan 14 01:09:09 2011 UTC (10 years, 1 month ago) by gross

clarifiaction of function names as a first step towards a MPI version of AMG

---

Revision 3440 - Directory Listing
Modified Fri Jan 14 00:04:53 2011 UTC (10 years, 1 month ago) by gross

a second AMG interpolation implemented

---

Revision 3436 - Directory Listing
Modified Mon Jan 10 02:06:07 2011 UTC (10 years, 1 month ago) by plaub

Added/modified AMG tests:

  - "self.failUnless(...)" became "self.assertTrue(...)"
    because fail* is soon to be deprecated,
  - fixed logical error in self.assertTrue argument,
  - added another test, 'testSquare'.

Added some print statements to AMG.c in verbose mode to
identify which of the stopping conditions were fulfilled.

Changed default AMG parameters for 'setNumPreSweeps' and 
'setNumPostSweeps' to 1 (huge speed improvment).

P.S Beware of bugs in the above code; I have only proved 
it correct, not tried it... Jokes!

---

Revision 3424 - Directory Listing
Modified Wed Jan 5 00:24:46 2011 UTC (10 years, 1 month ago) by gross

memory leak in UMFPACK interface fixed

---

Revision 3421 - Directory Listing
Modified Mon Dec 13 23:15:01 2010 UTC (10 years, 2 months ago) by artak

semi-colon is missing

---

Revision 3412 - Directory Listing
Modified Fri Dec 10 02:03:49 2010 UTC (10 years, 2 months ago) by gross

some fixes for MKL lapack

---

Revision 3403 - Directory Listing
Modified Tue Dec 7 08:13:51 2010 UTC (10 years, 2 months ago) by gross

some small fixes

---

Revision 3402 - Directory Listing
Modified Tue Dec 7 07:36:12 2010 UTC (10 years, 2 months ago) by gross

AMG support now block size > 3 (requires clapack or MKL).

additional diagnostics for AMG 

---

Revision 3396 - Directory Listing
Modified Fri Dec 3 08:24:16 2010 UTC (10 years, 3 months ago) by gross

wrong pointer handed

---

Revision 3391 - Directory Listing
Modified Thu Dec 2 02:25:53 2010 UTC (10 years, 3 months ago) by gross

seg fault fixed.

---

Revision 3379 - Directory Listing
Modified Wed Nov 24 04:48:49 2010 UTC (10 years, 3 months ago) by gross

some clarification on lumping

---

Revision 3369 - Directory Listing
Modified Fri Nov 19 06:26:11 2010 UTC (10 years, 3 months ago) by gross

matrix balance introduced in paso

---

Revision 3358 - Directory Listing
Modified Wed Nov 17 08:02:32 2010 UTC (10 years, 3 months ago) by gross

a more flexiblae version of safeDiv

---

Revision 3352 - Directory Listing
Modified Tue Nov 16 03:58:09 2010 UTC (10 years, 3 months ago) by gross

exposure of AMG options

---

Revision 3351 - Directory Listing
Modified Tue Nov 16 02:39:40 2010 UTC (10 years, 3 months ago) by gross

modified approach for AMG coarsning using a panel

---

Revision 3349 - Directory Listing
Modified Mon Nov 15 05:09:56 2010 UTC (10 years, 3 months ago) by caltinay

escript now supports out-of-tree builds.
All build and test files are now created under a user-definable build_dir
directory.
This also fixes issue 291.
Removed most svn:ignore props since they are no longer required.

---

Revision 3327 - Directory Listing
Modified Fri Oct 29 02:08:37 2010 UTC (10 years, 4 months ago) by gross

missing omp function added.

---

Revision 3323 - Directory Listing
Modified Thu Oct 28 09:53:46 2010 UTC (10 years, 4 months ago) by gross

some openmp fizes.

---

Revision 3318 - Directory Listing
Modified Thu Oct 28 01:05:36 2010 UTC (10 years, 4 months ago) by caltinay

This should fix building paso without OpenMP.

---

Revision 3315 - Directory Listing
Modified Wed Oct 27 01:20:27 2010 UTC (10 years, 4 months ago) by gross

bug in sparse matrixmatrix fixed.

---

Revision 3314 - Directory Listing
Modified Tue Oct 26 22:22:20 2010 UTC (10 years, 4 months ago) by gross

output removed/leaned up

---

Revision 3312 - Directory Listing
Modified Tue Oct 26 07:54:58 2010 UTC (10 years, 4 months ago) by gross

last step for a clean up version of the AMG

---

Revision 3303 - Directory Listing
Modified Mon Oct 25 04:33:31 2010 UTC (10 years, 4 months ago) by gross

more clean up work on the AMG

---

Revision 3299 - Directory Listing
Modified Sun Oct 24 23:44:18 2010 UTC (10 years, 4 months ago) by gross

some fixes

---

Revision 3287 - Directory Listing
Modified Tue Oct 19 00:42:22 2010 UTC (10 years, 4 months ago) by gross

complaint from valgrind about an uninitialized value fixed (no impact on result)

---

Revision 3285 - Directory Listing
Modified Tue Oct 19 00:28:00 2010 UTC (10 years, 4 months ago) by gross

bug in initialization step fixed.

---

Revision 3284 - Directory Listing
Modified Mon Oct 18 23:48:04 2010 UTC (10 years, 4 months ago) by gross

old AMLI code collected in a single file. It does not compile and should be merged with RecILU

---

Revision 3283 - Directory Listing
Modified Mon Oct 18 22:39:28 2010 UTC (10 years, 4 months ago) by gross

AMG reengineered, BUG is Smoother fixed.

---

Revision 3260 - Directory Listing
Modified Mon Oct 11 03:41:35 2010 UTC (10 years, 4 months ago) by jfenwick

Removing dead files

---

Revision 3259 - Directory Listing
Modified Mon Oct 11 01:48:14 2010 UTC (10 years, 4 months ago) by jfenwick

Merging dudley and scons updates from branches

---

Revision 3250 - Directory Listing
Modified Thu Oct 7 01:49:18 2010 UTC (10 years, 4 months ago) by caltinay

Fixed a declaration/definition mismatch.

---

Revision 3194 - Directory Listing
Modified Tue Sep 21 09:14:56 2010 UTC (10 years, 5 months ago) by gross

missing files

---

Revision 3193 - Directory Listing
Modified Tue Sep 21 06:56:44 2010 UTC (10 years, 5 months ago) by gross

more clean up in AMG

---

Revision 3180 - Directory Listing
Modified Tue Sep 14 03:39:55 2010 UTC (10 years, 5 months ago) by gross

some fixes for the case that no direc solver is available.

---

Revision 3160 - Directory Listing
Modified Mon Sep 6 09:17:28 2010 UTC (10 years, 5 months ago) by gross

bug fixed in RILU and test modified.

---

Revision 3159 - Directory Listing
Modified Mon Sep 6 06:59:31 2010 UTC (10 years, 5 months ago) by gross

AMG is using now a simpler interface to the Smoothers.

---

Revision 3158 - Directory Listing
Modified Mon Sep 6 06:09:11 2010 UTC (10 years, 5 months ago) by gross

GS and Jacobi are now used through the same interface.

---

Revision 3140 - Directory Listing
Modified Thu Sep 2 07:26:43 2010 UTC (10 years, 6 months ago) by gross

a more robust version of MINRES (really?)

---

Revision 3125 - Directory Listing
Modified Tue Aug 31 05:37:30 2010 UTC (10 years, 6 months ago) by gross

more code cleaning

---

Revision 3121 - Directory Listing
Modified Mon Aug 30 23:12:58 2010 UTC (10 years, 6 months ago) by gross

missing file

---

Revision 3120 - Directory Listing
Modified Mon Aug 30 10:48:00 2010 UTC (10 years, 6 months ago) by gross

first iteration on Paso code clean up

---

Revision 3111 - Directory Listing
Modified Thu Aug 26 06:49:42 2010 UTC (10 years, 6 months ago) by gross

some diagnostics for time step backtracing added

---

Revision 3105 - Directory Listing
Modified Wed Aug 25 04:37:52 2010 UTC (10 years, 6 months ago) by gross

bug fixed in the Gauss Seidel

---

Revision 3100 - Directory Listing
Modified Mon Aug 23 09:31:09 2010 UTC (10 years, 6 months ago) by gross

bug in ILU0 fixed.

---

Revision 3098 - Directory Listing
Modified Fri Aug 20 08:08:27 2010 UTC (10 years, 6 months ago) by gross

fix to the GaussSeidel

---

Revision 3097 - Directory Listing
Modified Fri Aug 20 04:59:12 2010 UTC (10 years, 6 months ago) by gross

some modifications to the GaussSeidel

---

Revision 3094 - Directory Listing
Modified Fri Aug 13 08:38:06 2010 UTC (10 years, 6 months ago) by gross

The MPI and sequational GAUSS_SEIDEL have been merged.
The couring and main diagonal pointer is now manged by the patternm which means that they are calculated once only even if the preconditioner is deleted.

---

Revision 3051 - Directory Listing
Modified Tue Jun 29 00:45:49 2010 UTC (10 years, 8 months ago) by lgao

Hybrid MPI/OpenMP versioned Gauss_Seidel preconditioner is added. 
To use it, use "SolverOptions.GAUSS_SEIDEL_MPI" in python script. 

---

Revision 3044 - Directory Listing
Modified Fri Jun 18 04:48:47 2010 UTC (10 years, 8 months ago) by artak

Put back

---

Revision 3043 - Directory Listing
Modified Fri Jun 18 04:45:14 2010 UTC (10 years, 8 months ago) by artak

Problem with latest MKL should be fixed now. The problem was solving unrolled block matrix with MKL.

---

Revision 3041 - Directory Listing
Modified Fri Jun 18 04:01:40 2010 UTC (10 years, 8 months ago) by artak

Should be faster with openmp. Some ROW-COL conversion.

---

Revision 3033 - Directory Listing
Modified Wed Jun 2 10:17:00 2010 UTC (10 years, 9 months ago) by gross

fix for overflow

---

Revision 3026 - Directory Listing
Modified Mon May 10 06:23:49 2010 UTC (10 years, 9 months ago) by gross

some fix for omp

---

Revision 3022 - Directory Listing
Modified Wed May 5 00:14:45 2010 UTC (10 years, 9 months ago) by gross

typo fixed.

---

Revision 3021 - Directory Listing
Modified Tue May 4 10:14:12 2010 UTC (10 years, 10 months ago) by gross

MPI problem fixed.

---

Revision 3020 - Directory Listing
Modified Tue May 4 09:10:03 2010 UTC (10 years, 10 months ago) by gross

reactive solver added

---

Revision 3018 - Directory Listing
Modified Thu Apr 29 21:35:24 2010 UTC (10 years, 10 months ago) by gross

some stupid lines removed

---

Revision 3017 - Directory Listing
Modified Thu Apr 29 03:40:12 2010 UTC (10 years, 10 months ago) by artak

Some AMLI for systems fixes

---

Revision 3016 - Directory Listing
Modified Wed Apr 28 05:28:44 2010 UTC (10 years, 10 months ago) by artak

firstprivate added for OpenMP

---

Revision 3015 - Directory Listing
Modified Wed Apr 28 05:06:26 2010 UTC (10 years, 10 months ago) by artak

OpenMP commented out for now

---

Revision 3014 - Directory Listing
Modified Wed Apr 28 04:05:21 2010 UTC (10 years, 10 months ago) by gross

a more stable handling of divergence in the CN or BE

---

Revision 3013 - Directory Listing
Modified Wed Apr 28 03:47:51 2010 UTC (10 years, 10 months ago) by artak

Block separation part commented out for AMG preconditioner

---

Revision 3012 - Directory Listing
Modified Wed Apr 28 03:39:22 2010 UTC (10 years, 10 months ago) by lgao

Fix the MPI compilation bug.

---

Revision 3011 - Directory Listing
Modified Wed Apr 28 02:21:23 2010 UTC (10 years, 10 months ago) by artak

New method added for unrolling System matrix. Direct solver now uses unrolled copy of the AMG matrix.

---

Revision 3010 - Directory Listing
Modified Tue Apr 27 05:10:46 2010 UTC (10 years, 10 months ago) by artak

Preparation for AMG on Systems without cut using frobenius norm

---

Revision 3009 - Directory Listing
Modified Thu Apr 22 11:17:42 2010 UTC (10 years, 10 months ago) by gross

another MPI problem fixed

---

Revision 3008 - Directory Listing
Modified Thu Apr 22 10:19:20 2010 UTC (10 years, 10 months ago) by gross

MPI problem fixed

---

Revision 3007 - Directory Listing
Modified Thu Apr 22 09:08:36 2010 UTC (10 years, 10 months ago) by gross

typo for MPI cse fixed

---

Revision 3006 - Directory Listing
Modified Thu Apr 22 08:31:28 2010 UTC (10 years, 10 months ago) by gross

local_norm_w removed

---

Revision 3005 - Directory Listing
Modified Thu Apr 22 05:59:31 2010 UTC (10 years, 10 months ago) by gross

early call of setPreconditioner in FCT solver removed.

---

Revision 3000 - Directory Listing
Modified Tue Mar 30 03:10:13 2010 UTC (10 years, 11 months ago) by lgao

Gauss_Seidel preconditioner is now SPD. 

---

Revision 2998 - Directory Listing
Modified Wed Mar 24 04:00:20 2010 UTC (10 years, 11 months ago) by artak

More openMP corrections

---

Revision 2997 - Directory Listing
Modified Wed Mar 24 01:46:33 2010 UTC (10 years, 11 months ago) by artak

Some openMP corrections

---

Revision 2993 - Directory Listing
Modified Tue Mar 23 04:29:30 2010 UTC (10 years, 11 months ago) by artak

Some optimization on GAUSS_SEIDEL sweeps.

---

Revision 2992 - Directory Listing
Modified Tue Mar 23 04:16:28 2010 UTC (10 years, 11 months ago) by artak

Sweeps bug is fixed and some more comments added about how sweeps computed

---

Revision 2988 - Directory Listing
Modified Tue Mar 16 06:14:30 2010 UTC (10 years, 11 months ago) by gross

C-level lumping switched on

---

Revision 2987 - Directory Listing
Modified Tue Mar 16 01:32:43 2010 UTC (10 years, 11 months ago) by gross

FCT solver rewritten

---

Revision 2970 - Directory Listing
Modified Wed Mar 3 05:23:50 2010 UTC (11 years ago) by jfenwick

Fix out of date comment

---

Revision 2966 - Directory Listing
Modified Wed Mar 3 03:19:39 2010 UTC (11 years ago) by jfenwick

Fixing non-ansi compliant code

---

Revision 2965 - Directory Listing
Modified Wed Mar 3 01:53:41 2010 UTC (11 years ago) by jfenwick

Added MPI aware MIS

---

Revision 2939 - Directory Listing
Modified Thu Feb 18 04:16:59 2010 UTC (11 years ago) by gross

some print statements removed.

---

Revision 2933 - Directory Listing
Modified Tue Feb 9 03:27:37 2010 UTC (11 years ago) by gross

test for positivity of initial solution in transport solver has been switched on again

---

Revision 2932 - Directory Listing
Modified Mon Feb 8 06:48:19 2010 UTC (11 years ago) by gross

printfs removed.

---

Revision 2931 - Directory Listing
Modified Mon Feb 8 06:45:41 2010 UTC (11 years ago) by gross

more changes on the cookbook

---

Revision 2884 - Directory Listing
Modified Thu Jan 28 05:00:59 2010 UTC (11 years, 1 month ago) by jfenwick

Updated various nan checks to consider the windows _isnan

The default compiler flags have changed as well.
+ intel will now take -std=c99 instead of -ansi
+ gcc has -ansi removed which means it defaults to gnu99

We could have set gcc to -std=c99 as well but that gives a 
warning on g++ which gets converted into an error by our
pedantic warning.

Rationale:
We need something more than ansi to get proper nan handling.
- We currently don't have any code which does not comply with ansi
  but the nan checks don't work.

Impact:
If we want our code to still be able to compile on older compilers
(at reduced functionality) we need to be careful not to introduce other
c99-isms.
If we don't care, then it's time for some celebratory // comments.

---

Revision 2881 - Directory Listing
Modified Thu Jan 28 02:03:15 2010 UTC (11 years, 1 month ago) by jfenwick

Don't panic.
Updating copyright stamps

---

Revision 2879 - Directory Listing
Modified Thu Jan 28 01:00:26 2010 UTC (11 years, 1 month ago) by jfenwick

Move definition of build_platform on t.poulet suggestion.
Redefine the IS_NAN macro to replace versions commented as
'This does not work'
If you are not compiling with a c99 compliant compiler you will not 
recognise nulls but this seems to be the best we can do right now 
without checking for explicit bit patterns.

---

Revision 2873 - Directory Listing
Modified Wed Jan 27 01:09:33 2010 UTC (11 years, 1 month ago) by caltinay

Fix for mantis #480 when parmetis is off.

---

Revision 2859 - Directory Listing
Modified Tue Jan 19 05:21:50 2010 UTC (11 years, 1 month ago) by gross

a work around for gcc 4.4 added.

---

Revision 2839 - Directory Listing
Modified Wed Jan 13 23:34:49 2010 UTC (11 years, 1 month ago) by artak

minor compiliation problem under MKL is fixed.

---

Revision 2836 - Directory Listing
Modified Mon Jan 11 01:41:29 2010 UTC (11 years, 1 month ago) by artak

minor adjustments

---

Revision 2833 - Directory Listing
Modified Thu Jan 7 05:44:46 2010 UTC (11 years, 1 month ago) by artak

minor openmp fix

---

Revision 2832 - Directory Listing
Modified Thu Jan 7 05:16:50 2010 UTC (11 years, 1 month ago) by artak

minor

---

Revision 2831 - Directory Listing
Modified Thu Jan 7 05:08:19 2010 UTC (11 years, 1 month ago) by artak

Splitting can be read from file. This is useful for testing.

---

Revision 2828 - Directory Listing
Modified Tue Dec 22 01:24:40 2009 UTC (11 years, 2 months ago) by artak

Smoother for AMG now can be selected from python. Now only Jacobi and Gauss-Seidel are available as smoothers.

---

Revision 2826 - Directory Listing
Modified Fri Dec 18 01:33:35 2009 UTC (11 years, 2 months ago) by artak

MINRES anf TFQMR add initioal guess. Tolerance for both solvers changed. However tolerance computaion needs to be more involved than it is now to avoid unnecessary very small tolerances.

---

Revision 2816 - Directory Listing
Modified Thu Dec 10 02:09:43 2009 UTC (11 years, 2 months ago) by artak

Standard coarsening is added to options list.

---

Revision 2808 - Directory Listing
Modified Mon Dec 7 00:26:45 2009 UTC (11 years, 2 months ago) by artak

default coarseneing is Ruge-Stueben.

---

Revision 2807 - Directory Listing
Modified Mon Dec 7 00:02:55 2009 UTC (11 years, 2 months ago) by artak

Post and pre smoothing parameters are added for AMLI. Little bit reengineering according to Axelson's original AMLI paper.

---

Revision 2805 - Directory Listing
Modified Fri Dec 4 05:21:31 2009 UTC (11 years, 2 months ago) by artak

minor

---

Revision 2804 - Directory Listing
Modified Fri Dec 4 02:06:51 2009 UTC (11 years, 2 months ago) by artak

Some memory and code optimizations in updateWeights method.

---

Revision 2803 - Directory Listing
Modified Thu Dec 3 05:35:20 2009 UTC (11 years, 3 months ago) by artak

Parameters are added for post and pre smoothing. Now user can choose number of pre and post smoothing steps in AMG (e.g. setNumPreSweeps(5)). 

---

Revision 2802 - Directory Listing
Modified Thu Dec 3 01:51:55 2009 UTC (11 years, 3 months ago) by artak

Aggressive coarsening is implemented. Removes more elements but adds more iteration steps.

---

Revision 2784 - Directory Listing
Modified Thu Nov 26 05:09:14 2009 UTC (11 years, 3 months ago) by artak

More performance tunning. Sparsity check is added. If Coarse level matrix is denser than 1% then stop.

---

Revision 2767 - Directory Listing
Modified Mon Nov 23 06:00:37 2009 UTC (11 years, 3 months ago) by artak

More openmp calls are added,escpecialy in arg_max method.

---

Revision 2765 - Directory Listing
Modified Fri Nov 20 01:49:19 2009 UTC (11 years, 3 months ago) by artak

First steps toward efficiency. Coarsening process is improved. Some profiling tools are added.

---

Revision 2764 - Directory Listing
Modified Thu Nov 19 23:48:05 2009 UTC (11 years, 3 months ago) by artak

Some openMP calls are removed.

---

Revision 2761 - Directory Listing
Modified Thu Nov 19 06:11:07 2009 UTC (11 years, 3 months ago) by artak

AMLI preconditioner (previously called  AMG)

---

Revision 2760 - Directory Listing
Modified Thu Nov 19 05:22:45 2009 UTC (11 years, 3 months ago) by artak

The first version of the new AMG preconditioner. It need a lot of polishing for efficiency. Old AMG now called AMLI preconditioner.

---

Revision 2759 - Directory Listing
Modified Thu Nov 19 05:19:47 2009 UTC (11 years, 3 months ago) by artak

methods needed for the new AMG preconditioner

---

Revision 2748 - Directory Listing
Modified Tue Nov 17 07:32:59 2009 UTC (11 years, 3 months ago) by gross

Macro elements are implemented now. VTK writer for macro elements still needs testing.

---

Revision 2728 - Directory Listing
Modified Thu Oct 22 00:13:10 2009 UTC (11 years, 4 months ago) by artak

minor

---

Revision 2726 - Directory Listing
Modified Wed Oct 21 23:50:05 2009 UTC (11 years, 4 months ago) by artak

New diagonal dominancy based algorithm is added. The coarseneng strategy is changed.

---

Revision 2712 - Directory Listing
Modified Wed Oct 7 00:22:43 2009 UTC (11 years, 4 months ago) by artak

MKL made default direct solver for AMG

---

Revision 2711 - Directory Listing
Modified Tue Oct 6 04:43:41 2009 UTC (11 years, 4 months ago) by artak

Little restructuring for solving memory bug in MKL_free process and making sure LDU factorzation done only once.

---

Revision 2709 - Directory Listing
Modified Mon Oct 5 06:11:58 2009 UTC (11 years, 4 months ago) by artak

Paso_MKL1 put back again

---

Revision 2708 - Directory Listing
Modified Mon Oct 5 05:59:08 2009 UTC (11 years, 4 months ago) by artak

The n_F==n condition with potentially uninitialized value is fixed.

---

Revision 2707 - Directory Listing
Modified Fri Oct 2 05:02:59 2009 UTC (11 years, 5 months ago) by artak

some unnecessary lines are removed

---

Revision 2705 - Directory Listing
Modified Thu Oct 1 23:21:10 2009 UTC (11 years, 5 months ago) by artak

Some openMP codes in AMG systems are removed for testing.

---

Revision 2704 - Directory Listing
Modified Thu Oct 1 05:38:33 2009 UTC (11 years, 5 months ago) by artak

some clarity in the notations REMOVED changes IN_SET

---

Revision 2701 - Directory Listing
Modified Wed Sep 30 23:21:08 2009 UTC (11 years, 5 months ago) by artak

MKL test lines are removed 

---

Revision 2699 - Directory Listing
Modified Wed Sep 30 05:43:20 2009 UTC (11 years, 5 months ago) by artak

Direct solver switched to UMFPACK, till problem with MKL solved. When all unknows are eliminated then we switch to Jacobi preconditiner.

---

Revision 2686 - Directory Listing
Modified Tue Sep 29 03:39:36 2009 UTC (11 years, 5 months ago) by artak

 changes the default thresold, bug fixes in RS coupling and extra checks added in Solver 

---

Revision 2670 - Directory Listing
Modified Thu Sep 17 06:17:57 2009 UTC (11 years, 5 months ago) by artak

Bug that made MPI tests to fail is fixed.

---

Revision 2666 - Directory Listing
Modified Thu Sep 17 00:10:00 2009 UTC (11 years, 5 months ago) by artak

OpenMP bug fixed and more openMP code added for cutting blocks.

---

Revision 2664 - Directory Listing
Modified Wed Sep 16 01:06:50 2009 UTC (11 years, 5 months ago) by artak

Extra check is added for AMG levels. If coursening proccess does not eliminate at least 30% from the fine Matrix then it does not make sense to continue to the next level.

---

Revision 2662 - Directory Listing
Modified Tue Sep 15 03:05:23 2009 UTC (11 years, 5 months ago) by artak

Migrating to block_sizes greather than 3 made easy.

---

Revision 2661 - Directory Listing
Modified Fri Sep 11 00:59:59 2009 UTC (11 years, 5 months ago) by artak

Finially unit tests for AMG preconditioner for single equations as well as for systems. Minor bug in AMG is also fixed

---

Revision 2660 - Directory Listing
Modified Thu Sep 10 04:26:39 2009 UTC (11 years, 5 months ago) by artak

minor

---

Revision 2659 - Directory Listing
Modified Thu Sep 10 03:54:50 2009 UTC (11 years, 5 months ago) by artak

first attempt of AMG on blocks

---

Revision 2652 - Directory Listing
Modified Mon Sep 7 05:04:45 2009 UTC (11 years, 5 months ago) by artak

Paso_Pattern_coup changed to Paso_Pattern_YS for making clear that it refers to YAIR-SHAPIRA coarsenenig.

---

Revision 2643 - Directory Listing
Modified Wed Sep 2 00:10:00 2009 UTC (11 years, 6 months ago) by artak

Saving sparse matrix used before for debuging is removed

---

Revision 2625 - Directory Listing
Modified Fri Aug 21 06:30:25 2009 UTC (11 years, 6 months ago) by jfenwick

Merging changes from new doco branch.
All docstrings are now in reStructured text.
A few email addresses have been fixes as well.

---

Revision 2608 - Directory Listing
Modified Tue Aug 18 01:25:18 2009 UTC (11 years, 6 months ago) by jfenwick

Updating Lutz' email

---

Revision 2596 - Directory Listing
Modified Thu Aug 6 03:09:03 2009 UTC (11 years, 6 months ago) by lgao

Add new diagnostic information: "net time" (the execution time of solver, excluding the setup time for solver and the execution time of preconditioner)

---

Revision 2566 - Directory Listing
Modified Wed Jul 29 01:39:16 2009 UTC (11 years, 7 months ago) by artak

AMG on systems not supported yet exeption is added

---

Revision 2565 - Directory Listing
Modified Tue Jul 28 05:50:15 2009 UTC (11 years, 7 months ago) by artak

stopping criteria is slightly changed.

---

Revision 2562 - Directory Listing
Modified Tue Jul 28 01:25:12 2009 UTC (11 years, 7 months ago) by artak

inplace bugs are fixed

---

Revision 2557 - Directory Listing
Modified Mon Jul 27 04:46:37 2009 UTC (11 years, 7 months ago) by artak

minor comments changed

---

Revision 2556 - Directory Listing
Modified Mon Jul 27 02:05:20 2009 UTC (11 years, 7 months ago) by artak

memory leack fixed

---

Revision 2555 - Directory Listing
Modified Mon Jul 27 01:50:16 2009 UTC (11 years, 7 months ago) by artak

Pattern_free for Aggregiation coarsening is added.

---

Revision 2554 - Directory Listing
Modified Fri Jul 24 05:38:54 2009 UTC (11 years, 7 months ago) by gross

bug with MKL call fixed.

---

Revision 2552 - Directory Listing
Modified Fri Jul 24 00:42:10 2009 UTC (11 years, 7 months ago) by artak

openmp change 

---

Revision 2551 - Directory Listing
Modified Thu Jul 23 09:19:15 2009 UTC (11 years, 7 months ago) by gross

a problem with the sparse matrix unrolling fixed.

---

Revision 2550 - Directory Listing
Modified Tue Jul 21 03:36:13 2009 UTC (11 years, 7 months ago) by gross

AMG throws an error now if block size not 1

---

Revision 2548 - Directory Listing
Modified Mon Jul 20 06:20:06 2009 UTC (11 years, 7 months ago) by jfenwick

Updating copyright notices

---

Revision 2539 - Directory Listing
Modified Sat Jul 18 02:47:34 2009 UTC (11 years, 7 months ago) by artak

the line added in RS for symetricity brings factorization failure in heatedblock example 

---

Revision 2527 - Directory Listing
Modified Wed Jul 8 07:04:35 2009 UTC (11 years, 7 months ago) by lgao

endof line added.

---

Revision 2524 - Directory Listing
Modified Wed Jul 8 00:39:26 2009 UTC (11 years, 7 months ago) by artak

Minimum size of the coarsest level matrix option added to solver options

---

Revision 2520 - Directory Listing
Modified Mon Jul 6 03:13:11 2009 UTC (11 years, 7 months ago) by artak

AMG now takes as an input Paso_options for selecting coarsenening algorithm and treshold variable.

---

Revision 2509 - Directory Listing
Modified Thu Jul 2 04:51:51 2009 UTC (11 years, 8 months ago) by artak

Now one can choose coarsening method from python for AMG. Some commented lines are removed.

---

Revision 2507 - Directory Listing
Modified Thu Jul 2 03:14:35 2009 UTC (11 years, 8 months ago) by artak

some profiling tools added

---

Revision 2502 - Directory Listing
Modified Tue Jun 30 05:49:22 2009 UTC (11 years, 8 months ago) by gross

tests for examples added. utest is not working yet.

---

Revision 2489 - Directory Listing
Modified Tue Jun 23 06:00:25 2009 UTC (11 years, 8 months ago) by artak

void *solver; is added to Paso_SpaseMatrix struct. Paso_MKL will need this.

---

Revision 2488 - Directory Listing
Modified Tue Jun 23 05:56:33 2009 UTC (11 years, 8 months ago) by artak

Paso_MKL1 supports Paso_SparseMatrix type with offset1

---

Revision 2484 - Directory Listing
Modified Mon Jun 22 04:22:19 2009 UTC (11 years, 8 months ago) by gross

numarray removed from docu; Locator revised.

---

Revision 2479 - Directory Listing
Modified Thu Jun 18 06:50:37 2009 UTC (11 years, 8 months ago) by gross

paso returns now some diagnostics. SCSL has been removed.

---

Revision 2475 - Directory Listing
Modified Wed Jun 17 01:48:46 2009 UTC (11 years, 8 months ago) by artak

AMG now takes into account new SolverOptions class, namely one can select coarsening algorithms from python. Not all options are included into AMG, this will be implemented later on.

---

Revision 2474 - Directory Listing
Modified Tue Jun 16 06:32:15 2009 UTC (11 years, 8 months ago) by gross

linearPDEs has is now using the SolverOptions class to talk to PASO

---

Revision 2450 - Directory Listing
Modified Tue Jun 2 01:22:11 2009 UTC (11 years, 9 months ago) by artak

First version of 'greedy' algorithm for Ruge Stuben and Aggregiation.

---

Revision 2447 - Directory Listing
Modified Fri May 29 04:32:53 2009 UTC (11 years, 9 months ago) by artak

minor

---

Revision 2446 - Directory Listing
Modified Fri May 29 04:24:01 2009 UTC (11 years, 9 months ago) by gross

same adjustment of nameing

---

Revision 2442 - Directory Listing
Modified Fri May 29 00:39:44 2009 UTC (11 years, 9 months ago) by artak

Some bugs are fixed.

---

Revision 2439 - Directory Listing
Modified Tue May 26 04:34:21 2009 UTC (11 years, 9 months ago) by artak

AMG now works with blocksize 3. Logical block sizes replaced with real block size before starting AMG. But this happens only when we use AMG as a preconditioner.

---

Revision 2413 - Directory Listing
Modified Tue May 12 01:26:20 2009 UTC (11 years, 9 months ago) by artak

There was a bug in computing logical_block_size. It was always returning 0.

---

Revision 2385 - Directory Listing
Modified Wed Apr 15 03:52:38 2009 UTC (11 years, 10 months ago) by gross

two fixes dealing with zero samples under MPI

---

Revision 2381 - Directory Listing
Modified Tue Apr 14 03:46:59 2009 UTC (11 years, 10 months ago) by artak

Ruge Stuben and Aggregiation is added for testing performance of AMG solver.

---

Revision 2380 - Directory Listing
Modified Tue Apr 14 03:23:29 2009 UTC (11 years, 10 months ago) by artak

minor typo

---

Revision 2368 - Directory Listing
Modified Mon Apr 6 05:05:35 2009 UTC (11 years, 10 months ago) by gross

some fixes for MKL and Mpisize>1

---

Revision 2360 - Directory Listing
Modified Thu Apr 2 04:12:12 2009 UTC (11 years, 11 months ago) by artak

AMG now checks how many elemens left. if n_F<500, then it does not coursen further.

---

Revision 2358 - Directory Listing
Modified Wed Apr 1 22:25:24 2009 UTC (11 years, 11 months ago) by gross

mpi is not really ready yet.

---

Revision 2353 - Directory Listing
Modified Wed Apr 1 01:49:47 2009 UTC (11 years, 11 months ago) by artak

AMG levels parameter moved to options file. Now one can set how many levels AMG will go in SetDefauls. Default value is 3.

---

Revision 2351 - Directory Listing
Modified Tue Mar 31 08:26:41 2009 UTC (11 years, 11 months ago) by gross

some fixes in the transport solver

---

Revision 2315 - Directory Listing
Modified Wed Mar 18 00:38:48 2009 UTC (11 years, 11 months ago) by gross

fixes for MPI

---

Revision 2309 - Directory Listing
Modified Mon Mar 16 02:42:13 2009 UTC (11 years, 11 months ago) by caltinay

Fixed a typo affecting OpenMP usage.

---

Revision 2307 - Directory Listing
Modified Mon Mar 16 00:38:09 2009 UTC (11 years, 11 months ago) by artak

some clean up. RS and Aggregiation are removed.

---

Revision 2281 - Directory Listing
Modified Thu Feb 19 05:36:38 2009 UTC (12 years ago) by artak

minor comments are added

---

Revision 2280 - Directory Listing
Modified Thu Feb 19 03:34:35 2009 UTC (12 years ago) by artak

Some statistics changed in solver.c. In AMG stopping criteria now depend on levels specified. In loadMM conditions on pivot and lval reformulated to avoid numerical overflow.

---

Revision 2274 - Directory Listing
Modified Tue Feb 17 04:20:29 2009 UTC (12 years ago) by artak

Bug fixed with type overflowing, namely in q_sort pivot and rval variables now unsigned long instead of int. Extra check is added to avoid this in the future.

---

Revision 2247 - Directory Listing
Modified Thu Feb 5 07:39:20 2009 UTC (12 years ago) by gross

output control fixed.

---

Revision 2244 - Directory Listing
Modified Wed Feb 4 06:27:34 2009 UTC (12 years ago) by gross

fix for openmp

---

Revision 2240 - Directory Listing
Modified Wed Feb 4 01:17:06 2009 UTC (12 years ago) by artak

Some statistical print outs are added in solver and loadMM to Paso_SparseMatrix method is added

---

Revision 2198 - Directory Listing
Modified Thu Jan 8 05:59:21 2009 UTC (12 years, 1 month ago) by gross

bug with OPENMP fixed.

---

Revision 2197 - Directory Listing
Modified Thu Jan 8 05:49:16 2009 UTC (12 years, 1 month ago) by gross

modifications to the way cosntraints are handeled in the Transport problem

---

Revision 2178 - Directory Listing
Modified Thu Dec 18 00:08:58 2008 UTC (12 years, 2 months ago) by artak

AMG coupling parameter added to options file.

---

Revision 2168 - Directory Listing
Modified Wed Dec 17 00:50:37 2008 UTC (12 years, 2 months ago) by artak

methods are added for loading right-hand-side from MM format

---

Revision 2159 - Directory Listing
Modified Tue Dec 16 03:27:16 2008 UTC (12 years, 2 months ago) by artak

Numerous bags are fixed for loading MatrixMarket files.

---

Revision 2156 - Directory Listing
Modified Mon Dec 15 05:09:02 2008 UTC (12 years, 2 months ago) by gross

some modifications to the iterative solver to make them easier to use. 
There are also improved versions of the Darcy flux solver and the incompressible solver.

---

Revision 2144 - Directory Listing
Modified Wed Dec 10 00:31:03 2008 UTC (12 years, 2 months ago) by artak

Some bugs are fixed: FSCANF_CHECK is returned NULL does not matter what. There are still some issues with ..._loadMM.

---

Revision 2131 - Directory Listing
Modified Thu Dec 4 06:09:50 2008 UTC (12 years, 2 months ago) by artak

Openmp bug is fixed in Paso_cum_sum and some printouts removed from Solver_AMG

---

Revision 2126 - Directory Listing
Modified Thu Dec 4 00:13:03 2008 UTC (12 years, 2 months ago) by ksteube

fixed a logic mess I had made in Paso_MPIInfo_noError()

---

Revision 2122 - Directory Listing
Modified Wed Dec 3 02:52:28 2008 UTC (12 years, 3 months ago) by artak

Codition is added in the corsening process to avoid rows with very small row sum.

---

Revision 2113 - Directory Listing
Modified Mon Dec 1 06:27:14 2008 UTC (12 years, 3 months ago) by artak

Temporary solution for nusty rows: a condition added 

---

Revision 2112 - Directory Listing
Modified Mon Dec 1 02:53:58 2008 UTC (12 years, 3 months ago) by artak

Uses Jacobi as a smoother and beats any preconditioner in 2D(for some problems) where number of elemens in one direction is more that 200

---

Revision 2108 - Directory Listing
Modified Fri Nov 28 05:09:23 2008 UTC (12 years, 3 months ago) by gross

some minor changes to PCG and some extra suspicious characters.

---

Revision 2107 - Directory Listing
Modified Fri Nov 28 04:39:07 2008 UTC (12 years, 3 months ago) by artak

Current version of AMG uses ILU for relaxation, however it is not stable when schur matrix becames more denser. For example it is not stable for -e paramenter is more 400 in 2D for convection problem 

---

Revision 2100 - Directory Listing
Modified Wed Nov 26 08:13:00 2008 UTC (12 years, 3 months ago) by gross

This commit cleans up the incompressible solver and adds a DarcyFlux solver in model module. 
Some documentation for both classes has been added.
The convection code is only linear at the moment.

---

Revision 2080 - Directory Listing
Modified Fri Nov 21 01:20:14 2008 UTC (12 years, 3 months ago) by caltinay

paso/SchurComplement: Fixed variable initialization for OpenMP parallelization.

---

Revision 2078 - Directory Listing
Modified Thu Nov 20 16:10:10 2008 UTC (12 years, 3 months ago) by phornby

Two changes.

1. Move blocktimer from escript to esysUtils.
2. Make it possible to link to paso as a DLL or .so.

Should have no effect on 'nix's

In respect of 1., blocktimer had begun to spring up everywhere, so
for the moment I thought it best to move it to the only other library that
pops up all over the place.

In respect of 2., paso needed to be a DLL in order to use the windows intelc /fast
option, which does aggressive multi-file optimisations. Even in its current form, it either
vectorises or parallelises  hundreds more loops in the esys system than appear in the pragmas.

In achieving 2. I have not been too delicate in adding

PASO_DLL_API

declarations to the .h files in paso/src. Only toward the end of the process of
the conversion, when the number of linker errors dropped below 20, say, did I choosy about what
functions in a header I declared PASO_DLL_API. As a result, there are likely to be many routines
declared as external functions symbols that are in fact internal to the paso DLL. 
Why is this an issue?  It prevents the intelc compiler from getting aggressive on the paso module.
With pain there is sometimes gain. At least all the DLL rules in windows give good
(non-microsoft) compiler writers a chance to really shine.

So, if you should see a PASO_DLL_API on a function in a paso header file,
and think to yourself, "that function is only called in paso, why export it?", then feel free to
delete the PASO_DLL_API export declaration.

Here's hoping for no breakage.....

---

Revision 2074 - Directory Listing
Modified Thu Nov 20 11:02:07 2008 UTC (12 years, 3 months ago) by phornby

Nearly there with dll'ing paso.

---

Revision 2073 - Directory Listing
Modified Thu Nov 20 10:51:41 2008 UTC (12 years, 3 months ago) by phornby

Still working away at makeing paso sharable on windows.

---

Revision 2072 - Directory Listing
Modified Thu Nov 20 10:40:19 2008 UTC (12 years, 3 months ago) by phornby

More PASO_DLL_API declarations for externally called routines.

---

Revision 2071 - Directory Listing
Modified Thu Nov 20 10:29:56 2008 UTC (12 years, 3 months ago) by phornby

More preparation for making paso a dll.

---

Revision 2070 - Directory Listing
Modified Thu Nov 20 10:11:13 2008 UTC (12 years, 3 months ago) by phornby

Further preparation for sharable paso.

---

Revision 2068 - Directory Listing
Modified Thu Nov 20 09:11:01 2008 UTC (12 years, 3 months ago) by phornby

Interim commit getting paso ready for becoming a shared library.

---

Revision 2057 - Directory Listing
Modified Mon Nov 17 13:30:46 2008 UTC (12 years, 3 months ago) by phornby

Prepare this file for the possibility of dynamic linkage.

SVN is doing something weird to me... I'm sure I committed this change already...

---

Revision 2056 - Directory Listing
Modified Mon Nov 17 13:27:55 2008 UTC (12 years, 3 months ago) by phornby

Prepare this file for the possibility of dynamic linkage.

---

Revision 2039 - Directory Listing
Modified Sat Nov 15 09:15:46 2008 UTC (12 years, 3 months ago) by phornby

Remove the "const from the alpha argument of 
Paso_SystemMatrix_MatrixVector_CSR_OFFSET0()
in order to match it's declaration.

This is C, and the double is passed by value, so alpha is
by nature const. This is C code, not C++. The const keyword has no place in C.

---

Revision 2028 - Directory Listing
Modified Tue Nov 11 03:07:59 2008 UTC (12 years, 3 months ago) by phornby

add the test for __const definition because recent changes
have broken the windows compile of paso.

Fingers crossed this does not break anything else.

---

Revision 2025 - Directory Listing
Modified Tue Nov 11 00:18:33 2008 UTC (12 years, 3 months ago) by jfenwick

__const on some strings

---

Revision 2019 - Directory Listing
Modified Mon Nov 10 13:49:00 2008 UTC (12 years, 3 months ago) by phornby

Yet another concerted effort to handle missing macro arguments
in a portable way.

---

Revision 1986 - Directory Listing
Modified Thu Nov 6 23:33:14 2008 UTC (12 years, 3 months ago) by jfenwick

Warning removal

---

Revision 1983 - Directory Listing
Modified Thu Nov 6 22:00:18 2008 UTC (12 years, 3 months ago) by caltinay

Paso: Fixed compilation with OpenMPI

---

Revision 1981 - Directory Listing
Modified Thu Nov 6 05:27:33 2008 UTC (12 years, 3 months ago) by jfenwick

More warning removal.

---

Revision 1980 - Directory Listing
Modified Thu Nov 6 04:45:08 2008 UTC (12 years, 3 months ago) by artak

sum variable is removed from #pragma

---

Revision 1979 - Directory Listing
Modified Thu Nov 6 04:29:58 2008 UTC (12 years, 3 months ago) by artak

warning removal

---

Revision 1976 - Directory Listing
Modified Thu Nov 6 03:14:52 2008 UTC (12 years, 3 months ago) by artak

unused variables are removed to get rid of compiler warnings

---

Revision 1975 - Directory Listing
Modified Thu Nov 6 03:07:02 2008 UTC (12 years, 3 months ago) by artak

Some variables are initialized to get rid of compiler warnings

---

Revision 1974 - Directory Listing
Modified Thu Nov 6 02:40:10 2008 UTC (12 years, 3 months ago) by jfenwick

Changing ZERO and ONE in Solver.h to PASO_ZERO and PASO_ONE.
Changed three static vars to #defines

---

Revision 1960 - Directory Listing
Modified Tue Nov 4 05:50:41 2008 UTC (12 years, 3 months ago) by artak

some unsed variables are removed

---

Revision 1954 - Directory Listing
Modified Fri Oct 31 03:22:34 2008 UTC (12 years, 4 months ago) by artak

condition is added to check wheter row sum is ZERO and some new coarsening algorithm is also added

---

Revision 1952 - Directory Listing
Modified Thu Oct 30 06:16:00 2008 UTC (12 years, 4 months ago) by jfenwick

Fixed /* in a comment.
The rank of a datapoint is now an unsigned int.

---

Revision 1940 - Directory Listing
Modified Tue Oct 28 03:50:01 2008 UTC (12 years, 4 months ago) by artak

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

---

Revision 1939 - Directory Listing
Modified Tue Oct 28 03:47:08 2008 UTC (12 years, 4 months ago) by artak

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

---

Revision 1936 - Directory Listing
Modified Mon Oct 27 23:30:57 2008 UTC (12 years, 4 months ago) by artak

checks openMP for proper break usage

---

Revision 1934 - Directory Listing
Modified Mon Oct 27 05:03:12 2008 UTC (12 years, 4 months ago) by artak

some typos

---

Revision 1933 - Directory Listing
Modified Mon Oct 27 04:58:59 2008 UTC (12 years, 4 months ago) by artak

Gauss-Seidel which takes into acound initianl x

---

Revision 1932 - Directory Listing
Modified Mon Oct 27 04:15:00 2008 UTC (12 years, 4 months ago) by artak

one input parameter is added

---

Revision 1931 - Directory Listing
Modified Mon Oct 27 01:31:28 2008 UTC (12 years, 4 months ago) by artak

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

---

Revision 1923 - Directory Listing
Modified Thu Oct 23 12:53:39 2008 UTC (12 years, 4 months ago) by phornby

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

---

Revision 1917 - Directory Listing
Modified Thu Oct 23 09:09:31 2008 UTC (12 years, 4 months ago) by phornby

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

---

Revision 1916 - Directory Listing
Modified Thu Oct 23 08:51:36 2008 UTC (12 years, 4 months ago) by phornby

This is a fake commit, to note that

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

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

---

Revision 1915 - Directory Listing
Modified Thu Oct 23 08:40:09 2008 UTC (12 years, 4 months ago) by phornby

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

---

Revision 1914 - Directory Listing
Modified Thu Oct 23 08:31:22 2008 UTC (12 years, 4 months ago) by phornby

Adding include files back to keep Altix happy.

---

Revision 1913 - Directory Listing
Modified Thu Oct 23 08:27:33 2008 UTC (12 years, 4 months ago) by phornby

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

---

Revision 1907 - Directory Listing
Modified Wed Oct 22 11:41:18 2008 UTC (12 years, 4 months ago) by phornby

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

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

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

---

Revision 1906 - Directory Listing
Modified Wed Oct 22 08:48:32 2008 UTC (12 years, 4 months ago) by phornby

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

---

Revision 1902 - Directory Listing
Modified Wed Oct 22 03:54:14 2008 UTC (12 years, 4 months ago) by artak

some bugs fixed in coresening methods

---

Revision 1892 - Directory Listing
Modified Fri Oct 17 00:55:59 2008 UTC (12 years, 4 months ago) by artak

memory leak is fixed

---

Revision 1891 - Directory Listing
Modified Fri Oct 17 00:15:17 2008 UTC (12 years, 4 months ago) by artak

minor

---

Revision 1890 - Directory Listing
Modified Fri Oct 17 00:14:22 2008 UTC (12 years, 4 months ago) by artak

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

---

Revision 1887 - Directory Listing
Modified Wed Oct 15 03:26:25 2008 UTC (12 years, 4 months ago) by ksteube

Fixed two typos that stopped the test suite from running.

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

---

Revision 1883 - Directory Listing
Modified Tue Oct 14 04:46:27 2008 UTC (12 years, 4 months ago) by artak

< changed to >=

---

Revision 1882 - Directory Listing
Modified Tue Oct 14 04:39:02 2008 UTC (12 years, 4 months ago) by artak

minor

---

Revision 1881 - Directory Listing
Modified Tue Oct 14 04:34:09 2008 UTC (12 years, 4 months ago) by artak

pattern multiply, binary operation are added

---

Revision 1875 - Directory Listing
Modified Mon Oct 13 10:15:04 2008 UTC (12 years, 4 months ago) by phornby

Add a TMPMEMREALLOC macro

---

Revision 1872 - Directory Listing
Modified Mon Oct 13 00:18:55 2008 UTC (12 years, 4 months ago) by jfenwick

Closing the moreshared branch

---

Revision 1862 - Directory Listing
Modified Wed Oct 8 06:30:50 2008 UTC (12 years, 4 months ago) by artak

Should work now

---

Revision 1860 - Directory Listing
Modified Wed Oct 8 04:07:10 2008 UTC (12 years, 4 months ago) by artak

minor bug is fixed

---

Revision 1859 - Directory Listing
Modified Wed Oct 8 03:03:37 2008 UTC (12 years, 4 months ago) by gross

first version of testing for transport solver.

---

Revision 1844 - Directory Listing
Modified Fri Oct 3 05:19:23 2008 UTC (12 years, 5 months ago) by artak

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

---

Revision 1843 - Directory Listing
Modified Fri Oct 3 04:21:29 2008 UTC (12 years, 5 months ago) by artak

forgot this one

---

Revision 1842 - Directory Listing
Modified Fri Oct 3 04:18:26 2008 UTC (12 years, 5 months ago) by artak

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

---

Revision 1841 - Directory Listing
Modified Fri Oct 3 03:57:52 2008 UTC (12 years, 5 months ago) by gross

modification on LinearPDE class and a first version of Transport class

---

Revision 1823 - Directory Listing
Modified Wed Oct 1 05:56:05 2008 UTC (12 years, 5 months ago) by artak

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

---

Revision 1819 - Directory Listing
Modified Tue Sep 30 05:58:06 2008 UTC (12 years, 5 months ago) by artak

Firs version of symmetric Gauss-Seidel preconditioner with coloring

---

Revision 1812 - Directory Listing
Modified Fri Sep 26 00:19:18 2008 UTC (12 years, 5 months ago) by ksteube

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

---

Revision 1811 - Directory Listing
Modified Thu Sep 25 23:11:13 2008 UTC (12 years, 5 months ago) by ksteube

Copyright updated in all files

---

Revision 1804 - Directory Listing
Modified Wed Sep 24 07:52:19 2008 UTC (12 years, 5 months ago) by gross

a robister version of the upwinding scheme

---

Revision 1801 - Directory Listing
Modified Fri Sep 19 01:37:09 2008 UTC (12 years, 5 months ago) by ksteube

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

---

Revision 1798 - Directory Listing
Modified Wed Sep 17 06:21:12 2008 UTC (12 years, 5 months ago) by gross

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

---

Revision 1797 - Directory Listing
Modified Wed Sep 17 03:39:34 2008 UTC (12 years, 5 months ago) by jfenwick

Putting MINRES.c back after it went missing.

---

Revision 1796 - Directory Listing
Modified Wed Sep 17 01:45:46 2008 UTC (12 years, 5 months ago) by jfenwick

Merged noarrayview branch onto trunk.

---

Revision 1792 - Directory Listing
Modified Tue Sep 16 08:28:25 2008 UTC (12 years, 5 months ago) by gross

bug fixed: obviously in rather than NULL should be returned

---

Revision 1787 - Directory Listing
Modified Mon Sep 15 01:36:34 2008 UTC (12 years, 5 months ago) by artak

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

---

Revision 1780 - Directory Listing
Modified Thu Sep 11 04:42:15 2008 UTC (12 years, 5 months ago) by artak

Now works with block size 2 and 3 as well

---

Revision 1778 - Directory Listing
Modified Tue Sep 9 07:46:02 2008 UTC (12 years, 5 months ago) by gross

memry leak fixed

---

Revision 1767 - Directory Listing
Modified Mon Sep 8 02:53:50 2008 UTC (12 years, 5 months ago) by gross

print statements removed

---

Revision 1759 - Directory Listing
Modified Mon Sep 8 02:31:22 2008 UTC (12 years, 5 months ago) by gross

MPI version plus some openmp optimization

---

Revision 1758 - Directory Listing
Modified Mon Sep 8 02:29:33 2008 UTC (12 years, 5 months ago) by gross

uses now memcpy rather than for loop

---

Revision 1738 - Directory Listing
Modified Fri Aug 29 05:06:45 2008 UTC (12 years, 6 months ago) by gross

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

---

Revision 1736 - Directory Listing
Modified Fri Aug 29 02:23:16 2008 UTC (12 years, 6 months ago) by gross

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

---

Revision 1716 - Directory Listing
Modified Thu Aug 21 05:03:49 2008 UTC (12 years, 6 months ago) by gross

getListOfTags method added to FunctionSpace class

---

Revision 1711 - Directory Listing
Modified Tue Aug 19 03:37:25 2008 UTC (12 years, 6 months ago) by artak

minor

---

Revision 1708 - Directory Listing
Modified Thu Aug 14 22:42:24 2008 UTC (12 years, 6 months ago) by ksteube

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

---

Revision 1707 - Directory Listing
Modified Thu Aug 14 06:38:14 2008 UTC (12 years, 6 months ago) by ksteube

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

---

Revision 1706 - Directory Listing
Modified Thu Aug 14 06:09:50 2008 UTC (12 years, 6 months ago) by artak

some problems with C90 compiler fixed

---

Revision 1705 - Directory Listing
Modified Thu Aug 14 05:56:40 2008 UTC (12 years, 6 months ago) by ksteube

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

---

Revision 1703 - Directory Listing
Modified Thu Aug 14 05:34:25 2008 UTC (12 years, 6 months ago) by artak

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

---

Revision 1670 - Directory Listing
Modified Thu Jul 24 04:30:43 2008 UTC (12 years, 7 months ago) by ksteube

Fix variable declaration to compile under MPI

---

Revision 1669 - Directory Listing
Modified Thu Jul 24 01:10:04 2008 UTC (12 years, 7 months ago) by gross

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

---

Revision 1662 - Directory Listing
Modified Tue Jul 22 01:49:21 2008 UTC (12 years, 7 months ago) by ksteube

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

---

Revision 1661 - Directory Listing
Modified Mon Jul 21 22:08:27 2008 UTC (12 years, 7 months ago) by gross

some improvements on level set

---

Revision 1660 - Directory Listing
Modified Mon Jul 21 03:23:46 2008 UTC (12 years, 7 months ago) by ksteube

Some variables were not declared as a result of recent cleanup

---

Revision 1651 - Directory Listing
Modified Tue Jul 15 09:33:48 2008 UTC (12 years, 7 months ago) by phornby

Altix:

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

---

Revision 1643 - Directory Listing
Modified Tue Jul 15 05:24:14 2008 UTC (12 years, 7 months ago) by phornby

Missing include file. A

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

---

Revision 1642 - Directory Listing
Modified Tue Jul 15 05:21:57 2008 UTC (12 years, 7 months ago) by phornby

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

---

Revision 1639 - Directory Listing
Modified Mon Jul 14 08:55:25 2008 UTC (12 years, 7 months ago) by gross

---

Revision 1637 - Directory Listing
Modified Mon Jul 14 05:34:59 2008 UTC (12 years, 7 months ago) by ksteube

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

---

Revision 1636 - Directory Listing
Modified Mon Jul 14 03:40:22 2008 UTC (12 years, 7 months ago) by trankine

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

---

Revision 1630 - Directory Listing
Modified Sat Jul 12 07:15:32 2008 UTC (12 years, 7 months ago) by trankine

Merge resulted in double declaration.

---

Revision 1628 - Directory Listing
Modified Fri Jul 11 13:12:46 2008 UTC (12 years, 7 months ago) by phornby

Merge in /branches/windows_from_1456_trunk_1620_merged_in branch.

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

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


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

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

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

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

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

May the God of doughnuts have mercy on my soul.

---

Revision 1579 - Directory Listing
Modified Mon Jun 2 08:48:36 2008 UTC (12 years, 9 months ago) by ksteube

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

---

Revision 1572 - Directory Listing
Modified Mon May 26 12:50:56 2008 UTC (12 years, 9 months ago) by gross

some openmp problems in PCG fixed.

---

Revision 1571 - Directory Listing
Modified Sat May 24 22:28:33 2008 UTC (12 years, 9 months ago) by gross

fixes for OPenmp but PCG still does not work under openmp

---

Revision 1570 - Directory Listing
Modified Sat May 24 21:31:04 2008 UTC (12 years, 9 months ago) by gross

modifications to PCG to support dynamic scheduling

---

Revision 1565 - Directory Listing
Modified Thu May 22 10:19:47 2008 UTC (12 years, 9 months ago) by gross

some small fixes for openmp

---

Revision 1564 - Directory Listing
Modified Thu May 22 09:31:33 2008 UTC (12 years, 9 months ago) by gross

some openmp dynamic scheduling for MVM.

---

Revision 1563 - Directory Listing
Modified Wed May 21 15:27:34 2008 UTC (12 years, 9 months ago) by gross

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

---

Revision 1562 - Directory Listing
Modified Wed May 21 13:04:40 2008 UTC (12 years, 9 months ago) by gross

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

---

Revision 1556 - Directory Listing
Modified Mon May 12 00:54:58 2008 UTC (12 years, 9 months ago) by gross

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

---

Revision 1553 - Directory Listing
Modified Thu May 8 09:38:07 2008 UTC (12 years, 9 months ago) by gross

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

---

Revision 1552 - Directory Listing
Modified Thu May 8 08:52:41 2008 UTC (12 years, 9 months ago) by gross

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

---

Revision 1524 - Directory Listing
Modified Wed Apr 23 05:31:54 2008 UTC (12 years, 10 months ago) by phornby

replace

abs -> fabs.

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

---

Revision 1513 - Directory Listing
Modified Tue Apr 15 08:47:57 2008 UTC (12 years, 10 months ago) by gross

pragma ivdep removed. icc produced wrong code.

---

Revision 1512 - Directory Listing
Modified Tue Apr 15 00:54:25 2008 UTC (12 years, 10 months ago) by ksteube

Some typos

---

Revision 1511 - Directory Listing
Modified Mon Apr 14 23:09:38 2008 UTC (12 years, 10 months ago) by gross

some fixes of compiler complains under windows

---

Revision 1485 - Directory Listing
Modified Wed Apr 9 04:13:09 2008 UTC (12 years, 10 months ago) by ksteube

Removed semicolons from #pragma omp

---

Revision 1480 - Directory Listing
Modified Tue Apr 8 02:02:48 2008 UTC (12 years, 10 months ago) by artak

Unil.h header is added

---

Revision 1479 - Directory Listing
Modified Tue Apr 8 02:02:25 2008 UTC (12 years, 10 months ago) by artak

Unil.h header is added

---

Revision 1478 - Directory Listing
Modified Tue Apr 8 01:53:33 2008 UTC (12 years, 10 months ago) by gross

some more header file fixing

---

Revision 1477 - Directory Listing
Modified Tue Apr 8 01:50:17 2008 UTC (12 years, 10 months ago) by gross

missing header file included

---

Revision 1476 - Directory Listing
Modified Mon Apr 7 23:38:50 2008 UTC (12 years, 10 months ago) by gross

Jacobian-free Newton method added to Paso

---

Revision 1425 - Directory Listing
Modified Wed Feb 27 06:12:04 2008 UTC (13 years ago) by artak

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

---

Revision 1417 - Directory Listing
Modified Mon Feb 25 04:45:48 2008 UTC (13 years ago) by gross

some more work on the transport solver.

---

Revision 1415 - Directory Listing
Modified Thu Feb 21 04:57:17 2008 UTC (13 years ago) by ksteube

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

---

Revision 1413 - Directory Listing
Modified Sun Feb 10 08:45:37 2008 UTC (13 years ago) by gross

bug effecting MPI fixed found while compiling with windows.

---

Revision 1410 - Directory Listing
Modified Thu Feb 7 04:24:00 2008 UTC (13 years ago) by gross

a new version of the algebric upwinding a. flux limiter

---

Revision 1408 - Directory Listing
Modified Mon Feb 4 07:19:50 2008 UTC (13 years ago) by gross

some problems with openmp fixed.

---

Revision 1407 - Directory Listing
Modified Mon Feb 4 06:45:48 2008 UTC (13 years ago) by gross

new upwinding algorithm (still fails)

---

Revision 1401 - Directory Listing
Modified Fri Jan 25 04:31:18 2008 UTC (13 years, 1 month ago) by gross

rewrite antidiffusion calculation to avoid coloring for OPENMP parallelization

---

Revision 1400 - Directory Listing
Modified Thu Jan 24 06:04:31 2008 UTC (13 years, 1 month ago) by gross

better test example for upwinding added

---

Revision 1388 - Directory Listing
Modified Fri Jan 11 07:45:58 2008 UTC (13 years, 1 month ago) by trankine

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

---

Revision 1387 - Directory Listing
Modified Fri Jan 11 07:45:26 2008 UTC (13 years, 1 month ago) by trankine
Original Path: temp/paso/src

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

---

Revision 1384 - Directory Listing
Modified Fri Jan 11 02:29:38 2008 UTC (13 years, 1 month ago) by phornby
Original Path: temp_trunk_copy/paso/src

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

---

Revision 1375 - Directory Listing
Modified Wed Jan 9 00:15:05 2008 UTC (13 years, 1 month ago) by gross

bug in interpolation at reduced face elements fixed.

---

Revision 1374 - Directory Listing
Modified Tue Jan 8 09:37:55 2008 UTC (13 years, 1 month ago) by gross

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

---

Revision 1372 - Directory Listing
Modified Thu Jan 3 06:30:47 2008 UTC (13 years, 2 months ago) by gross

some OMP related compile problems fixed.

---

Revision 1371 - Directory Listing
Modified Thu Jan 3 06:11:21 2008 UTC (13 years, 2 months ago) by gross

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

---

Revision 1370 - Directory Listing
Modified Wed Jan 2 09:21:43 2008 UTC (13 years, 2 months ago) by gross

explicit upwinding scheme added.

---

Revision 1369 - Directory Listing
Modified Fri Dec 21 05:51:44 2007 UTC (13 years, 2 months ago) by gross

does something now!

---

Revision 1367 - Directory Listing
Modified Wed Dec 19 02:45:07 2007 UTC (13 years, 2 months ago) by gross

finley can now assemble a transport problem.

---

Revision 1366 - Directory Listing
Modified Tue Dec 18 05:49:17 2007 UTC (13 years, 2 months ago) by gross

finley can create a TransportProblem now

---

Revision 1364 - Directory Listing
Modified Mon Dec 17 07:22:45 2007 UTC (13 years, 2 months ago) by gross

finley interface to paso's transport solver added.

---

Revision 1363 - Directory Listing
Modified Mon Dec 17 03:42:03 2007 UTC (13 years, 2 months ago) by gross

initialization for FCT solver added.

---

Revision 1362 - Directory Listing
Modified Mon Dec 17 02:28:16 2007 UTC (13 years, 2 months ago) by gross

and more on FCT solver

---

Revision 1361 - Directory Listing
Modified Fri Dec 14 09:26:51 2007 UTC (13 years, 2 months ago) by gross

first steps towards a flux controlled transport solver.

---

Revision 1347 - Directory Listing
Modified Fri Nov 16 05:37:07 2007 UTC (13 years, 3 months ago) by ksteube

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

---

Revision 1343 - Directory Listing
Modified Wed Nov 14 02:48:02 2007 UTC (13 years, 3 months ago) by ksteube

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

---

Revision 1322 - Directory Listing
Modified Thu Sep 27 04:40:43 2007 UTC (13 years, 5 months ago) by ksteube

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

---

Revision 1315 - Directory Listing
Modified Tue Sep 25 02:41:13 2007 UTC (13 years, 5 months ago) by ksteube

Copied more files from MPI branch to trunk

---

Revision 1313 - Directory Listing
Modified Tue Sep 25 01:44:26 2007 UTC (13 years, 5 months ago) by ksteube

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

---

Revision 1312 - Directory Listing
Modified Mon Sep 24 06:18:44 2007 UTC (13 years, 5 months ago) by ksteube

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

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

---

Revision 1310 - Directory Listing
Modified Mon Sep 24 04:00:47 2007 UTC (13 years, 5 months ago) by ksteube

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

---

Revision 1149 - Directory Listing
Modified Thu May 17 00:30:15 2007 UTC (13 years, 9 months ago) by gross

some fixes from the windows version

---

Revision 1133 - Directory Listing
Modified Tue May 8 07:19:33 2007 UTC (13 years, 9 months ago) by gross

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

 

---

Revision 1119 - Directory Listing
Modified Tue Apr 24 08:58:05 2007 UTC (13 years, 10 months ago) by gross

debug print removed.

---

Revision 1118 - Directory Listing
Modified Tue Apr 24 08:55:04 2007 UTC (13 years, 10 months ago) by gross

problem with reset of faulty PDE rhs fixed.

---

Revision 1098 - Directory Listing
Modified Mon Apr 16 23:15:23 2007 UTC (13 years, 10 months ago) by gross

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

---

Revision 1055 - Directory Listing
Modified Thu Mar 22 04:49:23 2007 UTC (13 years, 11 months ago) by gross

a bit of work towards the bandwidth optimizer

---

Revision 1050 - Directory Listing
Modified Tue Mar 20 09:39:11 2007 UTC (13 years, 11 months ago) by gross

rename so compilation does not fail

---

Revision 1049 - Directory Listing
Modified Tue Mar 20 03:00:18 2007 UTC (13 years, 11 months ago) by gross

bandwidth optimizer has been moved back (Lutz: switch on your brain.
)

---

Revision 1048 - Directory Listing
Modified Tue Mar 20 02:59:14 2007 UTC (13 years, 11 months ago) by gross

bandwidth optimizer has been moved.

---

Revision 1028 - Directory Listing
Modified Wed Mar 14 00:15:24 2007 UTC (13 years, 11 months ago) by gross

modifications to be compliant with _WIN32. The substitutes for asinh, acosh, atanh are still missing (erf will through an exception)

---

Revision 971 - Directory Listing
Modified Wed Feb 14 04:40:49 2007 UTC (14 years ago) by ksteube

Had to undo commit to new MPI branch. The changes went into the original and
not the branch. The files committed here are exactly the same as revision 969.

---

Revision 969 - Directory Listing
Modified Tue Feb 13 23:02:23 2007 UTC (14 years ago) by ksteube

Parallelization using MPI for solution of implicit problems.

Parallelization for explicit problems has already been accomplished in
the main SVN branch.

This is incomplete and is not ready for use.

---

Revision 940 - Directory Listing
Modified Mon Jan 29 00:09:08 2007 UTC (14 years, 1 month ago) by gross

ivdep removed as it produces wrong results with OPenMP

---

Revision 929 - Directory Listing
Modified Wed Jan 17 07:41:13 2007 UTC (14 years, 1 month ago) by gross

reverse orientation added but does not work for 2D yet.

---

Revision 817 - Directory Listing
Modified Sat Aug 26 03:08:52 2006 UTC (14 years, 6 months ago) by ksteube

Can now compile and run with MPI on shake71

---

Revision 806 - Directory Listing
Modified Thu Aug 10 11:58:52 2006 UTC (14 years, 6 months ago) by gross

Interface to the direct solver library UMLPACK is no implemented.

---

Revision 805 - Directory Listing
Modified Thu Aug 10 06:09:02 2006 UTC (14 years, 6 months ago) by gross

first steps toward UMFPACK

---

Revision 790 - Directory Listing
Modified Wed Jul 26 23:12:34 2006 UTC (14 years, 7 months ago) by bcumming

changes to escript/py_src/pdetools.py and /escript/src/Data.h/.cpp to
make the Locator work in MPI. escript::Data::mindp now returns a 3 tuple,
with the MPI rank of the process on which the minimum value occurs
included. escript::Data::convertToNumArrayFromDPNo also takes the ProcNo
to perform the MPI reduction.

This had to be implemented in both the MPI and non-MPI versions to allow
the necesary changes to the Python code in pdetools.py. In the non-MPI
version ProcNo is set to 0. This works for the explicit scripts tested
thus far, however if it causes problems in your scripts contact Ben or
Lutz, or revert the three files (pdetools.py, Data.h and Data.cpp) to
the previous version.  

---

Revision 782 - Directory Listing
Modified Tue Jul 18 00:47:47 2006 UTC (14 years, 7 months ago) by bcumming

Large number of changes to Finley for meshing in MPI.

- optimisation and neatening up of rectcanglular mesh generation code
- first and second order 1D, 2D and 3D rectangular meshes are now
  available in finley and escript using MPI.
- reduced meshes now generated in MPI, and interpolation to and from 
  reduced data types now supported.  

---

Revision 779 - Directory Listing
Modified Fri Jul 14 07:41:31 2006 UTC (14 years, 7 months ago) by woo409

+ Updated compilation options for Cognac to squeeze out a bit more performance
+ Now compiles using the Intel Math headers (mathimf.h) rather than plain math.h on both Win32 and Linux platforms when using the Intel compiler. Gives a small boost to performance on Altix and is essential on Windows

---

Revision 764 - Directory Listing
Modified Fri Jun 30 06:33:37 2006 UTC (14 years, 8 months ago) by gross

The statement '#ifdef MACRO1 && MACRO2' is not supported by the
gnu processor. This has been modified.

---

Revision 757 - Directory Listing
Modified Mon Jun 26 13:12:56 2006 UTC (14 years, 8 months ago) by woo409

+ Merge of intelc_win32 branch (revision 741:755) with trunk. Tested on iVEC altix (run_tests and py_tests all pass)

---

Revision 751 - Directory Listing
Modified Mon Jun 26 01:46:34 2006 UTC (14 years, 8 months ago) by bcumming

Changes relating to the MPI version of escript
The standard OpenMP version of escript is unchanged

- updated data types (Finley_Mesh, Finley_NodeFile, etc) to store meshes
  over multiple MPI processes.
- added CommBuffer code in Paso for communication of Data associated
  with distributed meshes
- updates in Finley and Escript to support distributed data and operations
  on distributed data (such as interpolation).
- construction of RHS in MPI, so that simple explicit schemes (such as
  /docs/examples/wave.py without IO and the Locator) can run in MPI.
- updated mesh generation for first order line, rectangle and brick
  meshes and second order line meshes in MPI.        
- small changes to trunk/SConstruct and trunk/scons/ess_options.py to
  build the MPI version, these changes are turned off by default.

---

Revision 731 - Directory Listing
Modified Mon May 15 04:09:52 2006 UTC (14 years, 9 months ago) by bcumming

---

Revision 730 - Directory Listing
Modified Mon May 15 04:03:49 2006 UTC (14 years, 9 months ago) by bcumming

---

Revision 727 - Directory Listing
Modified Fri May 12 06:31:06 2006 UTC (14 years, 9 months ago) by gross

In case of an error in paso a seg fault occured. this was caused by
inproper deallocation of memory in this case. this problem is fixed now.

---

Revision 700 - Directory Listing
Modified Thu Apr 6 00:13:40 2006 UTC (14 years, 10 months ago) by gross

A few changes in the build mechanism and the file structure so scons can build release tar files:

  * paso/src/Solver has been moved to paso/src 
  * all test_.py are now run_.py files and are assumed to be passing python tests. they can run by 
    scons py_tests and are part of the release test set
  * escript/py_src/test_ are moved to escript/test/python and are installed in to the build directory 
    (rather then the PYTHONPATH).
  * all py files in test/python which don't start with run_ or test_ are now 'local_py_tests'. they are installed i
    by not run automatically.
  * CppUnitTest is now treated as a escript module (against previous decisions).
  * scons realse builds nor tar/zip files with relvant source code (src and tests in seperate files)

the python tests don't pass yet due to path problems.

---

Revision 686 - Directory Listing
Modified Mon Mar 27 22:17:16 2006 UTC (14 years, 11 months ago) by gross

small fixes

---

Revision 682 - Directory Listing
Modified Mon Mar 27 02:43:09 2006 UTC (14 years, 11 months ago) by robwdcock

+ NEW BUILD SYSTEM

This commit contains the new build system with cross-platform support.
Most things work are before though you can have more control.

ENVIRONMENT settings have changed:
+ You no longer require LD_LIBRARY_PATH or PYTHONPATH to point to the
esysroot for building and testing performed via scons
+ ACcESS altix users: It is recommended you change your modules to load
the latest intel compiler and other libraries required by boost to match
the setup in svn (you can override). The correct modules are as follows

module load intel_cc.9.0.026
export
MODULEPATH=${MODULEPATH}:/data/raid2/toolspp4/modulefiles/gcc-3.3.6
module load boost/1.33.0/python-2.4.1
module load python/2.4.1
module load numarray/1.3.3

---

Revision 633 - Directory Listing
Modified Thu Mar 23 05:37:00 2006 UTC (14 years, 11 months ago) by dhawcroft

---

Revision 631 - Directory Listing
Modified Thu Mar 23 04:27:32 2006 UTC (14 years, 11 months ago) by dhawcroft

Prepended all paso source files with new Copyright notice

---

Revision 618 - Directory Listing
Modified Wed Mar 22 04:02:38 2006 UTC (14 years, 11 months ago) by gross

mmio moced to paso

---

Revision 584 - Directory Listing
Modified Thu Mar 9 23:03:38 2006 UTC (14 years, 11 months ago) by gross

eigenvalues: compiles and passes tests on altix now

---

Revision 512 - Directory Listing
Modified Fri Feb 10 07:04:14 2006 UTC (15 years ago) by gross

bug in parallelization fixed

---

Revision 505 - Directory Listing
Modified Wed Feb 8 23:27:16 2006 UTC (15 years ago) by gross

bandwidth optimizer but it does not really work.

---

Revision 495 - Directory Listing
Modified Mon Feb 6 06:32:06 2006 UTC (15 years ago) by gross

performance monitoring added. complies without PAPI.

---

Revision 494 - Directory Listing
Modified Fri Feb 3 07:35:49 2006 UTC (15 years, 1 month ago) by gross

draft for performance monitor tool in paso (well, not really)

---

Revision 483 - Directory Listing
Modified Thu Feb 2 02:10:15 2006 UTC (15 years, 1 month ago) by jgs

change includes to use PasoUtil.h, and add remainder
of includes to SConscript include install

---

Revision 482 - Directory Listing
Modified Thu Feb 2 02:00:30 2006 UTC (15 years, 1 month ago) by jgs

move Util -> PasoUtil to prevent clash with finley/Util

---

Revision 481 - Directory Listing
Modified Wed Feb 1 05:57:50 2006 UTC (15 years, 1 month ago) by jgs

add mechanism to install .h files to inc directories
(still need to specify full lists of .h files to install)

---

Revision 466 - Directory Listing
Modified Wed Jan 25 01:25:18 2006 UTC (15 years, 1 month ago) by jgs

remove redundant inc dir from paso src tree

---

Revision 432 - Directory Listing
Modified Fri Jan 13 07:38:54 2006 UTC (15 years, 1 month ago) by gross

some fixes for openmp

---

Revision 431 - Directory Listing
Modified Fri Jan 13 05:07:10 2006 UTC (15 years, 1 month ago) by gross

new implementation of ILU0

---

Revision 430 - Directory Listing
Modified Wed Jan 11 06:40:50 2006 UTC (15 years, 1 month ago) by gross

ILU has been replicated is called RILU (recursive ILU) now. ILU will now be reimplemented.

---

Revision 425 - Directory Listing
Modified Tue Jan 10 04:10:39 2006 UTC (15 years, 1 month ago) by gross

The sparse solver can be called by paso now. 

the building has been change to reduce some code redundancy:
now all scons SCscripts are importing scons/esys_options.py which
imports platform specific settings. 

---

Revision 415 - Directory Listing
Modified Wed Jan 4 05:37:33 2006 UTC (15 years, 1 month ago) by gross

a better way of representing the matrix format type is introduced. this is needed for the Paradiso and UMFPACK interface

---

Revision 412 - Directory Listing
Modified Tue Jan 3 00:41:56 2006 UTC (15 years, 2 months ago) by gross

nicer wahy of representing the natrix format is introduced

---

Revision 411 - Directory Listing
Modified Tue Jan 3 00:23:48 2006 UTC (15 years, 2 months ago) by gross

SCSL interface has moved

---

Revision 405 - Directory Listing
Modified Thu Dec 22 23:05:31 2005 UTC (15 years, 2 months ago) by gross

small bug fixed

---

Revision 403 - Directory Listing
Modified Thu Dec 22 22:54:32 2005 UTC (15 years, 2 months ago) by gross

solver method is now selcted by matrix format

---

Revision 394 - Directory Listing
Modified Tue Dec 20 07:20:32 2005 UTC (15 years, 2 months ago) by gross

symmetric matrix in SCSL switched off

---

Revision 352 - Directory Listing
Modified Wed Dec 14 02:21:37 2005 UTC (15 years, 2 months ago) by jgs

turns out Install() targets should also be made Default()
targets if you want them to actually reliably work!

---

Revision 288 - Directory Listing
Modified Fri Dec 2 01:55:04 2005 UTC (15 years, 3 months ago) by jgs

now automatically build unit tests as required based on dependencies
between unit tests and libraries

---

Revision 223 - Directory Listing
Modified Thu Nov 24 23:12:13 2005 UTC (15 years, 3 months ago) by jgs

pass in cc/cxx settings from config file

---

Revision 199 - Directory Listing
Modified Tue Nov 22 04:57:00 2005 UTC (15 years, 3 months ago) by jgs

pass in static archiver flags 

---

Revision 192 - Directory Listing
Modified Mon Nov 21 04:52:14 2005 UTC (15 years, 3 months ago) by jgs

pass in top level install directory for finley/escript/bruce/paso
libraries when building via top level scons script

---

Revision 191 - Directory Listing
Modified Mon Nov 21 04:10:12 2005 UTC (15 years, 3 months ago) by jgs

push platform dependent compiler flags and include directories up to library level scons files - these will eventually be brought in from external config files

---

Revision 190 - Directory Listing
Modified Mon Nov 21 03:27:42 2005 UTC (15 years, 3 months ago) by jgs

pass in value for esysroot and use this to determine include file locations

---

Revision 187 - Directory Listing
Modified Mon Nov 21 01:15:26 2005 UTC (15 years, 3 months ago) by jgs

added first draft of scons construct/config scripts for paso library

---

Revision 155 - Directory Listing
Modified Wed Nov 9 02:02:19 2005 UTC (15 years, 3 months ago) by jgs

move all directories from trunk/esys2 into trunk and remove esys2

---

Revision 154 - Directory Listing
Modified Mon Nov 7 05:51:17 2005 UTC (15 years, 3 months ago) by jgs
Original Path: trunk/esys2/paso/src

Merge of development branch dev-02 back to main trunk on 2005-11-07

---

Revision 153 - Directory Listing
Modified Tue Oct 25 01:51:20 2005 UTC (15 years, 4 months ago) by jgs
Original Path: trunk/esys2/paso/src

Merge of development branch dev-02 back to main trunk on 2005-10-25

---

Revision 150 - Directory Listing
Added Thu Sep 15 03:44:45 2005 UTC (15 years, 5 months ago) by jgs
Original Path: trunk/esys2/paso/src

Merge of development branch dev-02 back to main trunk on 2005-09-15