Log of /release/pre3.3.1

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Revision 4171 - Directory Listing
Modified Fri Jan 25 07:34:53 2013 UTC (7 years, 11 months ago) by jfenwick
Copied from: trunk revision 4170

Lets try that again

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Revision 4168 - Directory Listing
Modified Fri Jan 25 07:31:47 2013 UTC (7 years, 11 months ago) by jfenwick
Original Path: trunk

Release title and dep fix

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Revision 4167 - Directory Listing
Modified Fri Jan 25 05:21:30 2013 UTC (7 years, 11 months ago) by jfenwick
Original Path: trunk

fixes for doco for earlier releases

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Revision 4166 - Directory Listing
Modified Fri Jan 25 04:18:45 2013 UTC (7 years, 11 months ago) by azadeh
Original Path: trunk

gravity

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Revision 4165 - Directory Listing
Modified Fri Jan 25 01:07:57 2013 UTC (7 years, 11 months ago) by azadeh
Original Path: trunk

joint

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Revision 4164 - Directory Listing
Modified Thu Jan 24 05:34:13 2013 UTC (8 years ago) by caltinay
Original Path: trunk

netcdf data source description.

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Revision 4163 - Directory Listing
Modified Thu Jan 24 05:03:48 2013 UTC (8 years ago) by azadeh
Original Path: trunk

changing

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Revision 4162 - Directory Listing
Modified Thu Jan 24 03:53:19 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Added missing example file to display netcdf data.

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Revision 4161 - Directory Listing
Modified Thu Jan 24 03:22:38 2013 UTC (8 years ago) by azadeh
Original Path: trunk

modifying 

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Revision 4160 - Directory Listing
Modified Thu Jan 24 00:13:32 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Moved figures to subdir and added more DataSource doco.

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Revision 4159 - Directory Listing
Modified Thu Jan 24 00:05:28 2013 UTC (8 years ago) by azadeh
Original Path: trunk

dding magnetic images

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Revision 4158 - Directory Listing
Modified Wed Jan 23 07:02:21 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Write output even when max iterations reached.

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Revision 4157 - Directory Listing
Modified Wed Jan 23 03:52:07 2013 UTC (8 years ago) by caltinay
Original Path: trunk

added magnetic netcdf example (no data yet).

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Revision 4156 - Directory Listing
Modified Wed Jan 23 03:45:14 2013 UTC (8 years ago) by azadeh
Original Path: trunk

changes in document

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Revision 4155 - Directory Listing
Modified Wed Jan 23 00:05:03 2013 UTC (8 years ago) by jfenwick
Original Path: trunk

Removed some incorrect ACcESS copyright attributions [2010 or later] since ACcESS did not exist at that point. Also added 2013 to a couple of files which I missed.

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Revision 4154 - Directory Listing
Modified Tue Jan 22 09:30:23 2013 UTC (8 years ago) by jfenwick
Original Path: trunk

Round 1 of copyright fixes

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Revision 4153 - Directory Listing
Modified Tue Jan 22 01:57:50 2013 UTC (8 years ago) by gross
Original Path: trunk

no driver example added. Doe not work yet.

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Revision 4152 - Directory Listing
Modified Tue Jan 22 00:29:03 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Moved figures to subdirectory.

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Revision 4151 - Directory Listing
Modified Tue Jan 22 00:23:39 2013 UTC (8 years ago) by azadeh
Original Path: trunk

update joint and magnetic cookbook.

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Revision 4150 - Directory Listing
Modified Mon Jan 21 04:14:24 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Raise an exception if some methods are called after domain creation.

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Revision 4149 - Directory Listing
Modified Mon Jan 21 02:03:31 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Checkpoint - DomainBuilder documented.

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Revision 4148 - Directory Listing
Modified Mon Jan 21 01:04:20 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Updated netcdf gravity inversion example.

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Revision 4147 - Directory Listing
Modified Fri Jan 18 03:35:15 2013 UTC (8 years ago) by gross
Original Path: trunk

added some words in the overview and clean-up of bib.

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Revision 4146 - Directory Listing
Modified Fri Jan 18 01:36:49 2013 UTC (8 years ago) by gross
Original Path: trunk

some remarks on the class dependency added.

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Revision 4145 - Directory Listing
Modified Fri Jan 18 00:51:49 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Checkpoint.

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Revision 4144 - Directory Listing
Modified Fri Jan 18 00:34:21 2013 UTC (8 years ago) by gross
Original Path: trunk

new diagrams

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Revision 4143 - Directory Listing
Modified Thu Jan 17 08:48:47 2013 UTC (8 years ago) by gross
Original Path: trunk

documentation of minimizer update plus clarification of notations on the code

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Revision 4142 - Directory Listing
Modified Tue Jan 15 09:06:06 2013 UTC (8 years ago) by gross
Original Path: trunk

documentation of inversion cost function added

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Revision 4141 - Directory Listing
Modified Tue Jan 15 04:11:12 2013 UTC (8 years ago) by jfenwick
Original Path: trunk

Fixed to scripts to allow doco to build in pbuilder.
Looking for libraries in the place they were built is a good I've found.

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Revision 4140 - Directory Listing
Modified Tue Jan 15 02:34:41 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Updated example inversion files.

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Revision 4139 - Directory Listing
Modified Tue Jan 15 00:13:28 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Added L-BFGS reference and some minor changes.

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Revision 4138 - Directory Listing
Modified Mon Jan 14 23:57:00 2013 UTC (8 years ago) by gross
Original Path: trunk

some rearrangement of part II

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Revision 4137 - Directory Listing
Modified Mon Jan 14 22:59:13 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Disabled another test.

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Revision 4136 - Directory Listing
Modified Mon Jan 14 05:20:34 2013 UTC (8 years ago) by caltinay
Original Path: trunk

clarifications about cartesian domain

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Revision 4135 - Directory Listing
Modified Mon Jan 14 04:54:14 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Fixed test file.

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Revision 4134 - Directory Listing
Modified Sun Jan 13 23:24:35 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Removed failing test.

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Revision 4133 - Directory Listing
Modified Fri Jan 11 06:41:10 2013 UTC (8 years ago) by gross
Original Path: trunk

some documentation on Inversion Cost function added.

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Revision 4132 - Directory Listing
Modified Fri Jan 11 05:46:49 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Range of epydoc fixes.

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Revision 4131 - Directory Listing
Modified Fri Jan 11 03:54:16 2013 UTC (8 years ago) by gross
Original Path: trunk

documentaion of inversion driver API added.

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Revision 4130 - Directory Listing
Modified Thu Jan 10 03:38:17 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Do not end document after chapter :-)

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Revision 4129 - Directory Listing
Modified Thu Jan 10 03:30:45 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Fixed small typo

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Revision 4128 - Directory Listing
Modified Thu Jan 10 02:04:08 2013 UTC (8 years ago) by caltinay
Original Path: trunk

Use fixed low number of iterations for the callback test.

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Revision 4127 - Directory Listing
Modified Thu Jan 10 00:46:56 2013 UTC (8 years ago) by azadeh
Original Path: trunk

add documentation for gravity.

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Revision 4126 - Directory Listing
Modified Tue Jan 8 02:37:48 2013 UTC (8 years ago) by gross
Original Path: trunk

some work on the level set class. no testing yet.

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Revision 4125 - Directory Listing
Modified Wed Jan 2 06:15:00 2013 UTC (8 years ago) by gross
Original Path: trunk

some fixes in the inversion set-up

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Revision 4124 - Directory Listing
Modified Fri Dec 21 01:35:43 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

joint inversion added

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Revision 4123 - Directory Listing
Modified Thu Dec 20 23:47:55 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

small fix

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Revision 4122 - Directory Listing
Modified Thu Dec 20 05:42:35 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

More work towards joint inversion. There is now one class for inversion cost function which can handle all relevant cases 
for a single model inversion, cross gradient case and functional dependence of physical parameters.

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Revision 4121 - Directory Listing
Modified Wed Dec 19 00:24:50 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

changes to the boundary conditions.

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Revision 4120 - Directory Listing
Modified Tue Dec 18 04:49:37 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

some improvements to the robutness of the minimizer:
  a break down in the orthogonalization is hnadles via a restart.
  a restart can now be set manually
  the iteration throughs now an exception in case of failure.

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

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Revision 4119 - Directory Listing
Modified Mon Dec 17 04:53:15 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

some adjustments to the documentation

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Revision 4118 - Directory Listing
Modified Mon Dec 17 00:50:47 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

Some tweaks for auto building - need more though

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Revision 4117 - Directory Listing
Modified Fri Dec 14 07:29:35 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

some adjustments with names

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Revision 4116 - Directory Listing
Modified Fri Dec 14 07:21:14 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

tests for oscillatory data added.

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Revision 4115 - Directory Listing
Modified Fri Dec 14 04:48:48 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

terminolgy for magnetic flux density clarified. clean up on synthetic data

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Revision 4114 - Directory Listing
Modified Fri Dec 14 04:24:46 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Time to remove deprecated saveVTK/DX methods from Data and Domain.

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Revision 4113 - Directory Listing
Modified Fri Dec 14 01:54:53 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

shake29 options file.

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Revision 4112 - Directory Listing
Modified Fri Dec 14 01:51:30 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Added simple gravity inversion example to be included in cookbook.

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Revision 4111 - Directory Listing
Modified Fri Dec 14 01:46:13 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

Fixed the genrst script to be executable

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Revision 4110 - Directory Listing
Modified Fri Dec 14 01:21:33 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

Fixed to use whatever python is leading the path.
Disabled epydoc

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Revision 4109 - Directory Listing
Modified Fri Dec 14 01:08:52 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Fixed tests.

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Revision 4108 - Directory Listing
Modified Thu Dec 13 06:38:11 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Changed methods to add padding areas.

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Revision 4107 - Directory Listing
Modified Thu Dec 13 05:54:03 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

Now building doc using sphinx. Doc builds will fail until I get stuff installed on savanna

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Revision 4106 - Directory Listing
Modified Thu Dec 13 05:08:44 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

some clarification on how to handle back ground magnetic field plus renaming of SyntheticData

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Revision 4105 - Directory Listing
Modified Thu Dec 13 04:11:59 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Updated test to reflect interface changes.

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Revision 4104 - Directory Listing
Modified Thu Dec 13 03:30:23 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

Ensuring we are using new-style classes
This may not be strictly necessary since our code does not depend on the difference.

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Revision 4103 - Directory Listing
Modified Wed Dec 12 07:03:02 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

Got rid of some unwanted sidebar elts. Correctly detect standalone functions exposed by boost

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Revision 4102 - Directory Listing
Modified Wed Dec 12 06:17:03 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

more improvements on rescaling of weights. We now try to balance the gradients rather than the values.

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Revision 4101 - Directory Listing
Modified Wed Dec 12 04:22:58 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

First attempt at a sphinx generated API docs
In the project root:

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

should do

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Revision 4100 - Directory Listing
Modified Tue Dec 11 06:55:20 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

minimizer uses now a relative change to solution to terminate iteration. Gravity still has problems

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Revision 4099 - Directory Listing
Modified Tue Dec 11 04:04:47 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

Clarification of terminology and scaling.
Joint inversion is not working yet.

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Revision 4098 - Directory Listing
Modified Fri Dec 7 03:45:20 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Unbroke my breakage.

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Revision 4097 - Directory Listing
Modified Fri Dec 7 01:18:35 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Minor edits.

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Revision 4096 - Directory Listing
Modified Thu Dec 6 04:05:29 2012 UTC (8 years, 1 month ago) by jfenwick
Original Path: trunk

temporary doc fixes and moving tsunami out of the way

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Revision 4095 - Directory Listing
Modified Wed Dec 5 05:32:22 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

A bit of doco cleanup.

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Revision 4094 - Directory Listing
Modified Mon Dec 3 23:28:38 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Fixed typo.

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Revision 4093 - Directory Listing
Modified Fri Nov 30 04:52:01 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

There is now a coherent implementation of gravity and magnetic forward model including an update of the user's guide.

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Revision 4092 - Directory Listing
Modified Thu Nov 29 10:42:39 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Minor change. Test commit.

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Revision 4091 - Directory Listing
Modified Mon Nov 26 10:27:29 2012 UTC (8 years, 1 month ago) by gross
Original Path: trunk

Some terminology introduced and magnetic inversion corrected.

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Revision 4090 - Directory Listing
Modified Mon Nov 26 03:51:04 2012 UTC (8 years, 1 month ago) by caltinay
Original Path: trunk

Savanna tweaks.

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Revision 4089 - Directory Listing
Modified Fri Nov 23 04:41:54 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Switch to new toolchain on Savanna.

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Revision 4088 - Directory Listing
Modified Thu Nov 22 23:31:37 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Use kronecker, not numpy's identity in wave (why do these issues come up now?)

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Revision 4087 - Directory Listing
Modified Thu Nov 22 22:28:01 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Moved matplotlib imports in test scripts before escript since there is an
import chain which pulls it so the use() function has no effect.

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Revision 4086 - Directory Listing
Modified Wed Nov 21 02:48:12 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Doco for 1D interpolation [resolves #631]

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Revision 4085 - Directory Listing
Modified Tue Nov 20 07:04:11 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

nonuniformInterolate and Slope added.
Doco later

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Revision 4084 - Directory Listing
Modified Tue Nov 20 06:22:07 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Adding some linebreaks

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Revision 4083 - Directory Listing
Modified Mon Nov 19 22:19:42 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

removed manually set weights from scripts.

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Revision 4082 - Directory Listing
Modified Mon Nov 19 06:16:06 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Minor changes to install doco

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Revision 4081 - Directory Listing
Modified Mon Nov 19 02:35:18 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Updated unit test to test LinearMapping instead of old ScalingMapping

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Revision 4080 - Directory Listing
Modified Mon Nov 19 01:45:38 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Epydoc fixes

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Revision 4079 - Directory Listing
Modified Fri Nov 16 07:59:01 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

some modifications to scaling in downunder. still not perfect.

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Revision 4078 - Directory Listing
Modified Fri Nov 16 07:50:49 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Unit tests for binary install with no scons and no source tree.
Script for installing and testing a .deb within a chroot.

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Revision 4077 - Directory Listing
Modified Fri Nov 16 04:31:02 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Minor change.

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Revision 4076 - Directory Listing
Modified Thu Nov 15 03:45:24 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

    def getDirectionalDerivative(self, m, d, grad_m):
        

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Revision 4075 - Directory Listing
Modified Thu Nov 15 03:31:37 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

missing latex files

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Revision 4074 - Directory Listing
Modified Thu Nov 15 03:30:59 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

this will break the downundermodule: major revision of the classes.

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Revision 4073 - Directory Listing
Modified Thu Nov 15 03:28:33 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Fixing doco build error

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Revision 4072 - Directory Listing
Modified Thu Nov 15 01:58:35 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Fix to prevent escript from segfaulting on quantal

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Revision 4071 - Directory Listing
Modified Tue Nov 13 21:43:11 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

small fix

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Revision 4070 - Directory Listing
Modified Tue Nov 13 07:55:22 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

File for quantal. Now to work out why on earth quantal manages to make epydoc segfault

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Revision 4069 - Directory Listing
Modified Tue Nov 13 07:47:16 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

ArithmeticTuple supports empty data object as components now.

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Revision 4068 - Directory Listing
Modified Tue Nov 13 04:42:08 2012 UTC (8 years, 2 months ago) by vboros
Original Path: trunk

Small corrections to the magnetic forward model

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Revision 4067 - Directory Listing
Modified Mon Nov 12 07:35:14 2012 UTC (8 years, 2 months ago) by vboros
Original Path: trunk

Magnetostatics background added

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Revision 4066 - Directory Listing
Modified Mon Nov 12 06:18:47 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

renaming wheezyoptions file

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Revision 4065 - Directory Listing
Modified Mon Nov 12 04:47:32 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Trying without uml

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Revision 4064 - Directory Listing
Modified Fri Nov 9 07:25:14 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Tweaks

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Revision 4063 - Directory Listing
Modified Fri Nov 9 06:15:00 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Fixed a typo in method description.

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Revision 4062 - Directory Listing
Modified Fri Nov 9 04:53:08 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Start of module reference section in inversion guide.

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Revision 4061 - Directory Listing
Modified Fri Nov 9 04:05:28 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Updated data source test cases.

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Revision 4060 - Directory Listing
Modified Fri Nov 9 03:50:19 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

-Overhaul of inversion data sources. Domain is now generated and managed by separate class.
-Removed UBCDataSource which was only used for testing.
-Updated example scripts.

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Revision 4059 - Directory Listing
Modified Fri Nov 9 03:20:23 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Start of substitution for rules

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Revision 4058 - Directory Listing
Modified Fri Nov 2 06:47:06 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

-Ripley now checks for input fs when calling gradient
-interactive mode works again when filename is supplied (typo)
-forward model PDE sets symmetry on now

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Revision 4057 - Directory Listing
Modified Fri Nov 2 04:15:09 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

toc/hyperref fixes for inversion pdf.

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Revision 4056 - Directory Listing
Modified Thu Nov 1 07:20:38 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Allow doxygen to build in another target
Debian build stuff begins

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Revision 4055 - Directory Listing
Modified Thu Nov 1 00:22:01 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

Renaming of filenames

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Revision 4054 - Directory Listing
Modified Wed Oct 31 23:27:57 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

prilimary checkin 

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Revision 4053 - Directory Listing
Modified Wed Oct 31 07:27:35 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Do not fix potential on sides of domain by default.

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Revision 4052 - Directory Listing
Modified Wed Oct 31 05:50:35 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

missing references added (mantis id=683)

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Revision 4051 - Directory Listing
Modified Wed Oct 31 03:40:47 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Split inversion cookbook into two parts...

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Revision 4050 - Directory Listing
Modified Wed Oct 31 01:01:24 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Changed initial Hessian in magnetic test and removed some debug output.

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Revision 4049 - Directory Listing
Modified Wed Oct 31 00:50:50 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Fixed typos.

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Revision 4048 - Directory Listing
Modified Tue Oct 30 21:54:15 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

fixed modification in the DataSource creator

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Revision 4047 - Directory Listing
Modified Tue Oct 30 09:10:07 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

More on magnetic inversion

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Revision 4046 - Directory Listing
Modified Tue Oct 30 04:43:25 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Deprecated saveDX and made sure DeprecationWarnings are shown (py2.7 disabled
those). Also a fix to $BUILD_DIR being non-absolute.

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Revision 4045 - Directory Listing
Modified Tue Oct 30 03:57:22 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Imported inversion cookbook.

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Revision 4044 - Directory Listing
Modified Tue Oct 30 03:35:17 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Some doco fixes for downunder.

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Revision 4043 - Directory Listing
Modified Tue Oct 30 03:34:43 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Compile fixes for install guide.

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Revision 4042 - Directory Listing
Modified Mon Oct 29 05:55:58 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

New SaveSilo tests (only run if Silo module available and MPI size=1).
Tests are somewhat limited due to missing functionality in Silo module (devs
contacted about that).

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Revision 4041 - Directory Listing
Modified Sun Oct 28 23:42:35 2012 UTC (8 years, 2 months ago) by caltinay
Original Path: trunk

Fixed a typo

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Revision 4040 - Directory Listing
Modified Sun Oct 28 22:37:45 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Some py3 changes that didn't get committed for some reason

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Revision 4039 - Directory Listing
Modified Fri Oct 26 07:34:06 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

magnetic inversion added

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Revision 4038 - Directory Listing
Modified Fri Oct 26 04:47:25 2012 UTC (8 years, 2 months ago) by jfenwick
Original Path: trunk

Minor fix to control file

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Revision 4037 - Directory Listing
Modified Fri Oct 26 03:04:30 2012 UTC (8 years, 2 months ago) by gross
Original Path: trunk

some modifictaions to make implementation for magnetic inversion easier

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Revision 4036 - Directory Listing
Modified Thu Oct 25 06:21:03 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Added saveVTK tests for ripley domains.

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Revision 4035 - Directory Listing
Modified Thu Oct 25 03:10:14 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Tweaked scons files so tests work even when specifying non-absolute build_dir.

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Revision 4034 - Directory Listing
Modified Thu Oct 25 02:54:01 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Fixes to inversion. Using resetRightHandSideCoefficients() now.

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Revision 4033 - Directory Listing
Modified Wed Oct 24 08:14:41 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

some typos fixed.

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Revision 4032 - Directory Listing
Modified Wed Oct 24 08:06:15 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

Gravity inversion is disconnect from DataSource objects now in order to allow for more  flexibility
when it comes to the definition of of Mapping and Regulariztion. GravityInversion does not hold a reference to the datasource object anymore.

use   inv=GravityInversion()
      inv.setUp(datasource) 

rather than inv.setDataSource(datasource); inv.setUp()

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Revision 4031 - Directory Listing
Modified Wed Oct 24 03:36:37 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Added option -x to run xterm to run-escript and replaced a few bashims.

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Revision 4030 - Directory Listing
Modified Wed Oct 24 00:57:36 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Silenced the no-visit-in-path warning and fixed not-in-path run-escript in
utest.sh.

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Revision 4029 - Directory Listing
Modified Wed Oct 24 00:29:15 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Reapplied changes from rev. 3853 which got lost in a merge...

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Revision 4028 - Directory Listing
Modified Tue Oct 23 05:16:38 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

changes in pycad to address feature request 0000661

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Revision 4027 - Directory Listing
Modified Tue Oct 23 04:56:33 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

setting a constant value to the initial solution of the Transport problem 
had a problem. initial data object needs to be expanded before copied to the 
paso transport object.

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Revision 4026 - Directory Listing
Modified Tue Oct 23 03:12:50 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

missing file

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Revision 4025 - Directory Listing
Modified Mon Oct 22 08:18:47 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

 linearPDE.resetRightHandSideCoefficients has been implemented and tested.

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Revision 4024 - Directory Listing
Modified Mon Oct 22 06:11:29 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

tag testing for finley and dudley files added.

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Revision 4023 - Directory Listing
Modified Tue Oct 16 04:17:48 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Another fix to the PDE assembly logic in ripley.

---

Revision 4022 - Directory Listing
Modified Mon Oct 15 23:52:24 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Fixed checks in ripley::addPDEToRHS().

---

Revision 4021 - Directory Listing
Modified Mon Oct 15 02:31:00 2012 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk

Doco fixes.
Unit test fix for sys.version_info type change

---

Revision 4020 - Directory Listing
Modified Thu Oct 11 22:27:33 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Removed print() that slipped in in last commit.

---

Revision 4019 - Directory Listing
Modified Thu Oct 11 08:12:55 2012 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk

More tabbing errors,
range/xrange
...

---

Revision 4018 - Directory Listing
Modified Thu Oct 11 04:43:39 2012 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk

Used "new" raise syntax in a few places
Fixed some tabbing
Fixed some funnies involving changes to xrange/range
added a quick and nasty __hash__ function to Symbol
   def __hash__(self):
        return id(self)
This does mean that __hash__ and == do not match exactly.   Not sure if that matters for our purposes

---

Revision 4017 - Directory Listing
Modified Thu Oct 11 03:13:28 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Modified a test so roundoff errors don't cause failures.

---

Revision 4016 - Directory Listing
Modified Tue Oct 9 03:50:27 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Skip data source tests under MPI for now as there is no straightforward way
of comparing the data (saveVTK appears to be the best option).

---

Revision 4015 - Directory Listing
Modified Mon Oct 8 01:19:04 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Updated savanna options file to use latest compiler, mkl

---

Revision 4014 - Directory Listing
Modified Thu Oct 4 03:28:35 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Changed data source to use ripley's netCDF reader,
added tests and changed ERMapper test to have different x and y sizes.

---

Revision 4013 - Directory Listing
Modified Thu Oct 4 03:13:27 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Implemented netCDF grid reader analogous to binary grid reader in ripley.

---

Revision 4012 - Directory Listing
Modified Wed Oct 3 02:25:10 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Initialize X_reduced in forward model to avoid issues later on.

---

Revision 4011 - Directory Listing
Modified Wed Oct 3 00:47:55 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Updated test reference file.

---

Revision 4010 - Directory Listing
Modified Tue Oct 2 06:57:11 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Fixed a potential div by zero in ripley's automatic domain subdivider....

---

Revision 4009 - Directory Listing
Modified Tue Oct 2 05:53:37 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

don't try to flip y-coord in reader. some more fixes and doco.

---

Revision 4008 - Directory Listing
Modified Tue Oct 2 04:33:27 2012 UTC (8 years, 3 months ago) by gross
Original Path: trunk

point coordinates are now written in %.14e rather then %f. This fixes accuracy problems when it comes to geometrically small domains.

---

Revision 4007 - Directory Listing
Modified Tue Oct 2 02:12:01 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Doco updates.
Data source paddings now take x,y not xy,z as Z padding can be done by setting
vertical extents.

---

Revision 4006 - Directory Listing
Modified Fri Sep 28 06:16:46 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Update vm options to use pip-installed numpy.

---

Revision 4005 - Directory Listing
Modified Fri Sep 28 06:09:03 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

test fixes, doco updates, annoyance removals.

---

Revision 4004 - Directory Listing
Modified Fri Sep 28 04:45:25 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

don't use escript.escript.Data...

---

Revision 4003 - Directory Listing
Modified Fri Sep 28 00:20:01 2012 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk

Load balancing on unit tests

---

Revision 4002 - Directory Listing
Modified Fri Sep 28 00:16:56 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Fixed a memory leak (freeing paso coupler) in ripley.

---

Revision 4001 - Directory Listing
Modified Thu Sep 27 01:35:52 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Removed obsolete files.

---

Revision 4000 - Directory Listing
Modified Thu Sep 27 01:32:07 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

s/escript/escore/

---

Revision 3999 - Directory Listing
Modified Thu Sep 27 01:31:07 2012 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk

Splitting tests

---

Revision 3998 - Directory Listing
Modified Thu Sep 27 01:17:28 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Finley now throws in ownSample() for reduced function with mpisize>1.

---

Revision 3997 - Directory Listing
Modified Thu Sep 27 01:09:12 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Add note to documentation that saveDataCSV will not work in all cases.

---

Revision 3996 - Directory Listing
Modified Thu Sep 27 00:54:10 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Don't test saveCSV for cases it does not work with.

---

Revision 3995 - Directory Listing
Modified Wed Sep 26 12:43:17 2012 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk

More module fiddles

---

Revision 3994 - Directory Listing
Modified Wed Sep 26 07:38:38 2012 UTC (8 years, 3 months ago) by jfenwick
Original Path: trunk

Install doco still needs work.
Removing some of the weird:
     esys.finley.finley
type modules

---

Revision 3993 - Directory Listing
Modified Wed Sep 26 07:00:55 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Addressing mantis 651. Test for finley will fail under MPI since there is
sth wrong with the way ReducedContinuousFunction samples are interrogated.

---

Revision 3992 - Directory Listing
Modified Wed Sep 26 02:50:48 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Data.cpp: Removed some namespace ambiguities which fixes doxygen warnings, some
cleanup and reindent.
*: doxygen fixes.

---

Revision 3991 - Directory Listing
Modified Tue Sep 25 23:52:22 2012 UTC (8 years, 3 months ago) by caltinay
Original Path: trunk

Updated doxygen cfg file and made a few first changes to doco.

---

Revision 3990 - Directory Listing
Modified Tue Sep 25 05:03:20 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

First set of assorted epydoc fixes/additions.

---

Revision 3989 - Directory Listing
Modified Tue Sep 25 02:21:54 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

More copyright fixes.
pyvisi traces removed.
Some install doco

---

Revision 3988 - Directory Listing
Modified Mon Sep 24 01:08:19 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Scale coordinates if pyproj is not available

---

Revision 3987 - Directory Listing
Modified Sun Sep 23 23:24:37 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Fix to test which fails when ripley adjusts number of elements (domain decomp.)

---

Revision 3986 - Directory Listing
Modified Sun Sep 23 23:01:10 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Added explicit cast to make osx happy.

---

Revision 3985 - Directory Listing
Modified Fri Sep 21 06:44:17 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Unit test for ER Mapper reader.

---

Revision 3984 - Directory Listing
Modified Fri Sep 21 06:41:54 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

invert Y coordinate in ripley's 3d data reader. This needs to be configurable
and added to 2d as well...

---

Revision 3983 - Directory Listing
Modified Fri Sep 21 06:41:03 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Use ReducedFunction for data sources.

---

Revision 3982 - Directory Listing
Modified Fri Sep 21 03:23:22 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

More edits + removing pyvisi from trunk

---

Revision 3981 - Directory Listing
Modified Fri Sep 21 02:47:54 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

First pass of updating copyright notices

---

Revision 3980 - Directory Listing
Modified Fri Sep 21 01:55:39 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Now using NullCellValue to initialise data object for ERS reader.

---

Revision 3979 - Directory Listing
Modified Thu Sep 20 06:18:49 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Fixed tests under MPI.

---

Revision 3978 - Directory Listing
Modified Thu Sep 20 04:36:17 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Make sympy optional as it was intended initially. Trying to instantiate anything
from symbolic will raise an exception if sympy is not available.

---

Revision 3977 - Directory Listing
Modified Thu Sep 20 04:27:10 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Export KMP_MONITOR_STACKSIZE so tests work on savanna.

---

Revision 3976 - Directory Listing
Modified Thu Sep 20 03:26:47 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

fixed python-2.7'ism.

---

Revision 3975 - Directory Listing
Modified Thu Sep 20 01:54:06 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Merged symbolic branch into trunk. Curious what daniel and spartacus have to
say...

---

Revision 3972 - Directory Listing
Modified Wed Sep 19 03:08:39 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Can now constrain sides of domain.

---

Revision 3971 - Directory Listing
Modified Wed Sep 19 02:55:35 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Implemented binary grid reader in ripley which is now used in ER Mapper source.
Interface/details likely to change but need to get this running now.

---

Revision 3970 - Directory Listing
Modified Wed Sep 19 02:28:27 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

More install doc fixes

---

Revision 3969 - Directory Listing
Modified Tue Sep 18 05:34:38 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

Removing reference to nose

---

Revision 3968 - Directory Listing
Modified Mon Sep 17 06:30:02 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

Starting updates to the install guide

---

Revision 3967 - Directory Listing
Modified Mon Sep 17 04:02:58 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

Changes to SConstruct to allow building with clang

---

Revision 3966 - Directory Listing
Modified Mon Sep 17 00:45:39 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Changed unit scale for ER Mapper files. Fixed an issue with UBC source.

---

Revision 3965 - Directory Listing
Modified Fri Sep 14 01:23:17 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Data sources have to end up in the Function fs or we get into trouble when
interpolating. Now using setValueOfDataPoint() which doesn't seem to slow
things down too much.

---

Revision 3964 - Directory Listing
Modified Thu Sep 13 03:49:55 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Hopefully this will fix the interpolation in data sources.

---

Revision 3963 - Directory Listing
Modified Thu Sep 13 01:39:00 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

Fix to keep the warning-free-build happy

---

Revision 3962 - Directory Listing
Modified Tue Sep 11 09:12:07 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

Fix in brick for ambiguous typing.

Python work around for unit tests.
Passing cpp tests as well.

omp is disabled due to a weird linking error.

---

Revision 3961 - Directory Listing
Modified Tue Sep 11 07:21:41 2012 UTC (8 years, 4 months ago) by jfenwick
Original Path: trunk

Options file for mole.
Work around for python compile errors

---

Revision 3960 - Directory Listing
Modified Mon Sep 10 01:39:40 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Added accessors to fwd model, regularization and cost function plus access
to gravity survey data.

---

Revision 3959 - Directory Listing
Modified Fri Sep 7 04:48:07 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

support for geodetic coordinates in ER Mapper files. Correction to UTM
conversion (now assumes southern hemisphere).

---

Revision 3958 - Directory Listing
Modified Fri Sep 7 02:56:42 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Fixes to netcdf data source and new ERS (ER Mapper) datasource.

---

Revision 3957 - Directory Listing
Modified Wed Sep 5 23:49:23 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Do not require pyproj module-wide. Print a warning if it is not available but
needed instead of raising an exception.

---

Revision 3956 - Directory Listing
Modified Wed Sep 5 04:57:43 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Fixes to netcdf reader for inversions.

---

Revision 3955 - Directory Listing
Modified Tue Sep 4 01:44:41 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Added CentOS 6 vm options file.

---

Revision 3954 - Directory Listing
Modified Tue Sep 4 01:43:58 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Fixed an issue with incompatible nose.

---

Revision 3953 - Directory Listing
Modified Mon Sep 3 00:57:12 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Some test output adjustments.

---

Revision 3952 - Directory Listing
Modified Sun Sep 2 23:42:25 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Made a test slightly more relaxed since roundoff errors caused it to fail on
one system.

---

Revision 3951 - Directory Listing
Modified Tue Aug 28 23:58:08 2012 UTC (8 years, 4 months ago) by caltinay
Original Path: trunk

Fixed tests with python versions <2.7.

---

Revision 3950 - Directory Listing
Modified Fri Aug 24 06:10:02 2012 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk

More tests and corrections in the alternative minimizers.

---

Revision 3949 - Directory Listing
Modified Fri Aug 24 02:37:47 2012 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk

Added tests for mappings.

---

Revision 3948 - Directory Listing
Modified Fri Aug 24 01:01:34 2012 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk

Some interface changes to make the inversion more flexible.

---

Revision 3947 - Directory Listing
Modified Wed Aug 22 23:19:10 2012 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk

Compiling and installing downunder module now. Adjusted import statements
accordingly. Added a gravity test run.

---

Revision 3946 - Directory Listing
Modified Wed Aug 22 02:08:12 2012 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk

Initial import of inversion code from devteam area, rev. 51.
Nothing is scons built/installed/tested yet.

---

Revision 3945 - Directory Listing
Modified Tue Aug 21 04:11:13 2012 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk

Changing utest behaviour for MPI

---

Revision 3944 - Directory Listing
Modified Mon Aug 20 02:11:22 2012 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk

Fixed ordering of Hex's in weipa's ripley writer.
Fixed an issue with auto domain subdivisions in ripley Brick.

---

Revision 3943 - Directory Listing
Modified Thu Aug 9 04:43:24 2012 UTC (8 years, 5 months ago) by caltinay
Original Path: trunk

Added heuristics for number of domain subdivisions to ripley so ripley domains
can now be created without specifying the values manually (but a warning will
be printed).

---

Revision 3942 - Directory Listing
Modified Fri Jul 27 01:04:48 2012 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk

Porting changes back from 3.3 release branch

---

Revision 3941 - Directory Listing
Modified Fri Jul 27 00:38:10 2012 UTC (8 years, 5 months ago) by jfenwick
Original Path: trunk

Some more test disabling

---

Revision 3940 - Directory Listing
Modified Thu Jul 26 05:54:58 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Disabling tests which do not allow MPI
Previously we allowed these if there was only one rank

---

Revision 3939 - Directory Listing
Modified Mon Jul 23 01:50:46 2012 UTC (8 years, 6 months ago) by caltinay
Original Path: trunk

Added return value checks for freopen in mpi redirect code. Ubuntu has a
warn_unused_result attribute set for the function.
Re-indented the file while at it.

---

Revision 3934 - Directory Listing
Modified Fri Jul 13 09:01:16 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Added unit test for tagreader

---

Revision 3931 - Directory Listing
Modified Tue Jul 10 00:39:09 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Fixing spelling

---

Revision 3928 - Directory Listing
Modified Mon Jul 9 23:23:43 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Do not allow attempts to setValue using a Locator which does not match the funcionSpace of the Data

---

Revision 3927 - Directory Listing
Modified Mon Jul 9 11:11:47 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Avoid warning

---

Revision 3923 - Directory Listing
Modified Mon Jul 9 05:12:12 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Fixing build error.

---

Revision 3922 - Directory Listing
Modified Mon Jul 9 02:19:51 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Adds setvalue to locator
Addresses mantis #531

---

Revision 3921 - Directory Listing
Modified Thu Jul 5 05:02:49 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Fix build error

---

Revision 3920 - Directory Listing
Modified Thu Jul 5 03:42:30 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Copied over tagname reading stuff from finley

---

Revision 3919 - Directory Listing
Modified Thu Jul 5 03:12:02 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Don't know what caused this to show as an error.
Compiler update perhaps?

---

Revision 3918 - Directory Listing
Modified Thu Jul 5 02:44:07 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Added unit test which uses the TestDomain to check reduction.
TestDomains can no longer be created directly from python 
(fixes problem I had earlier)

TestDomain can now create testdomains with aribtrarily sized 
coordinate vectors.

---

Revision 3917 - Directory Listing
Modified Thu Jul 5 00:17:50 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Fixing a bug in lazy reduction operations.
Will add extra test to prevent regression once I can find out why the test is crashing

---

Revision 3916 - Directory Listing
Modified Wed Jul 4 06:16:52 2012 UTC (8 years, 6 months ago) by jfenwick
Original Path: trunk

Deal correctly with scalars passed into inplace update operators.
Fixes mantis 669

---

Revision 3915 - Directory Listing
Modified Mon Jun 25 02:17:58 2012 UTC (8 years, 7 months ago) by caltinay
Original Path: trunk

Added declspecs for all ripley classes.

---

Revision 3914 - Directory Listing
Modified Wed Jun 20 04:51:47 2012 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk

Only allow setX from ContinuousFunctions.
This addresses mantis 644.

---

Revision 3913 - Directory Listing
Modified Tue Jun 19 06:21:58 2012 UTC (8 years, 7 months ago) by caltinay
Original Path: trunk

Fixed misuse of getSampleDataRO with lazy data in ripley.

---

Revision 3912 - Directory Listing
Modified Fri Jun 15 05:02:42 2012 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk

GetMeshFromFile wrapper to load .fly or .msh depending on the extension.
Note that this only works on one of the two formats named .msh

Addresses mantis issue 641.

---

Revision 3911 - Directory Listing
Modified Thu Jun 14 01:01:03 2012 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk

Copyright changes

---

Revision 3910 - Directory Listing
Modified Thu Jun 14 00:45:03 2012 UTC (8 years, 7 months ago) by gross
Original Path: trunk

Small bug fixed.

---

Revision 3909 - Directory Listing
Modified Wed Jun 13 07:03:06 2012 UTC (8 years, 7 months ago) by gross
Original Path: trunk

darcy solver removes hydrostatic pressure from problem now

---

Revision 3908 - Directory Listing
Modified Wed Jun 13 05:43:45 2012 UTC (8 years, 7 months ago) by caltinay
Original Path: trunk

Fixed an error in ripley computing shared node id's.
pythonMPIredirect now redirects again.

---

Revision 3907 - Directory Listing
Modified Fri Jun 8 01:20:09 2012 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk

Only switch on useElementsOnFace  by default where we actually support it

---

Revision 3906 - Directory Listing
Modified Thu Jun 7 11:00:50 2012 UTC (8 years, 7 months ago) by jfenwick
Original Path: trunk

Disable AMG on MPI builds

---

Revision 3905 - Directory Listing
Modified Tue Jun 5 08:33:41 2012 UTC (8 years, 7 months ago) by gross
Original Path: trunk

length scale changed

---

Revision 3904 - Directory Listing
Modified Tue Jun 5 08:30:24 2012 UTC (8 years, 7 months ago) by gross
Original Path: trunk

incorrect macro element argument removed

---

Revision 3903 - Directory Listing
Modified Tue Jun 5 08:26:20 2012 UTC (8 years, 7 months ago) by gross
Original Path: trunk

offset removed: not clear why this was there

---

Revision 3901 - Directory Listing
Modified Wed May 23 08:09:45 2012 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk

Rectangle and Brick use rich face element by default. 
This is to address issue #653

Updated unit tests to explicitly not use them where they didn't
specify previoulsy

---

Revision 3897 - Directory Listing
Modified Wed May 16 03:17:26 2012 UTC (8 years, 8 months ago) by jfenwick
Original Path: trunk

correcting example

---

Revision 3896 - Directory Listing
Modified Fri May 11 01:31:29 2012 UTC (8 years, 8 months ago) by caltinay
Original Path: trunk

Re-enable numpy header detection with python 2.

---

Revision 3895 - Directory Listing
Modified Mon Apr 16 00:09:42 2012 UTC (8 years, 9 months ago) by jfenwick
Original Path: trunk

Adding some files which went missing in the merge

---

Revision 3894 - Directory Listing
Modified Wed Apr 11 03:13:15 2012 UTC (8 years, 9 months ago) by jfenwick
Original Path: trunk

Still need to add notes to the install guide about Python3.

---

Revision 3893 - Directory Listing
Modified Wed Apr 11 01:40:10 2012 UTC (8 years, 9 months ago) by jfenwick
Original Path: trunk

Pycad now generates scripts with floating points at 6 decimal places.
Tests have been ammended to match this.

---

Revision 3892 - Directory Listing
Modified Tue Apr 10 08:57:23 2012 UTC (8 years, 9 months ago) by jfenwick
Original Path: trunk

Merged changes across from the attempt2 branch.
This version builds and passes python2 tests.
It also passes most python3 tests.

---

Revision 3887 - Directory Listing
Modified Thu Apr 5 03:14:59 2012 UTC (8 years, 9 months ago) by gross
Original Path: trunk

low level system in AMG is created one only now.

---

Revision 3886 - Directory Listing
Modified Thu Apr 5 00:50:30 2012 UTC (8 years, 9 months ago) by gross
Original Path: trunk

some minor problems with MPI AMG fixed.

---

Revision 3885 - Directory Listing
Modified Wed Apr 4 22:12:26 2012 UTC (8 years, 9 months ago) by gross
Original Path: trunk

some fix in AMG

---

Revision 3884 - Directory Listing
Modified Wed Apr 4 04:55:43 2012 UTC (8 years, 9 months ago) by gross
Original Path: trunk

some fix in AMG

---

Revision 3883 - Directory Listing
Modified Mon Mar 26 03:24:14 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Modified dlopenflags in escript's init module so newer MKL libraries can
successfully load support libraries.

---

Revision 3882 - Directory Listing
Modified Thu Mar 22 02:15:57 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Added another constraint for the numpy optimized array access: endianness.
The scipy netcdf reader gave me big endian data which resulted in garbage.
Can use the astype() method in python to convert.

---

Revision 3867 - Directory Listing
Modified Thu Mar 15 05:45:54 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

weipa treats shapes (1,) and (1,1) as scalars. Fixes bogus output in VTK writer.

---

Revision 3866 - Directory Listing
Modified Wed Mar 14 02:06:13 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Use system silo on guineapig now.

---

Revision 3865 - Directory Listing
Modified Mon Mar 12 23:49:05 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Re-enabled threaded MKL on epic.

---

Revision 3863 - Directory Listing
Modified Mon Mar 12 00:15:40 2012 UTC (8 years, 10 months ago) by gross
Original Path: trunk

some debug prints removed

---

Revision 3861 - Directory Listing
Modified Fri Mar 9 02:06:29 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Added options file that disables openMP and replaces the MKL library for savanna.

---

Revision 3853 - Directory Listing
Modified Thu Mar 1 07:25:03 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Fixed hybrid mode when using OpenMPI by adding --cpus-per-rank argument to
mpirun in the launcher. Updated epic options file accordingly.

---

Revision 3852 - Directory Listing
Modified Thu Mar 1 05:34:52 2012 UTC (8 years, 10 months ago) by jfenwick
Original Path: trunk

Correcting some indent errors

---

Revision 3851 - Directory Listing
Modified Wed Feb 29 05:23:30 2012 UTC (8 years, 10 months ago) by jfenwick
Original Path: trunk

Start of cross-compile build for py3

---

Revision 3850 - Directory Listing
Modified Tue Feb 28 06:04:42 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Support for CSC in ripley.

---

Revision 3843 - Directory Listing
Modified Mon Feb 27 05:50:58 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Updated epic options, disabled OpenMP until problems solved.

---

Revision 3842 - Directory Listing
Modified Mon Feb 27 04:19:16 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Updated savanna libraries and compiler version.

---

Revision 3841 - Directory Listing
Modified Mon Feb 27 04:18:53 2012 UTC (8 years, 10 months ago) by caltinay
Original Path: trunk

Added support for OFFSET1 matrices in ripley.

---

Revision 3837 - Directory Listing
Modified Thu Feb 16 03:58:58 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Test cleanup.

---

Revision 3836 - Directory Listing
Modified Thu Feb 16 03:17:18 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Transport problem support for ripley.

---

Revision 3835 - Directory Listing
Modified Wed Feb 15 23:19:01 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

and another attempt to fix MPI compilation

---

Revision 3834 - Directory Listing
Modified Wed Feb 15 07:09:09 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

some declaration problems fixed 

---

Revision 3833 - Directory Listing
Modified Wed Feb 15 06:19:45 2012 UTC (8 years, 11 months ago) by lgao
Original Path: trunk

Fix the merging problem for this file. 

---

Revision 3830 - Directory Listing
Modified Wed Feb 15 04:27:47 2012 UTC (8 years, 11 months ago) by lgao
Original Path: trunk

Add comments for Smoother 

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Revision 3829 - Directory Listing
Modified Wed Feb 15 03:33:08 2012 UTC (8 years, 11 months ago) by lgao
Original Path: trunk

Fix warnings from another machine. 

---

Revision 3828 - Directory Listing
Modified Wed Feb 15 03:27:58 2012 UTC (8 years, 11 months ago) by lgao
Original Path: trunk

Fix all warnings reported on guineapig.

---

Revision 3827 - Directory Listing
Modified Tue Feb 14 11:42:08 2012 UTC (8 years, 11 months ago) by lgao
Original Path: trunk

 Merge branch "amg_from_3530" back into trunk.

---

Revision 3825 - Directory Listing
Modified Tue Feb 14 06:11:58 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

don't call MPI withing parallel regions

---

Revision 3824 - Directory Listing
Modified Tue Feb 14 01:22:16 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

fix for openmp

---

Revision 3823 - Directory Listing
Modified Mon Feb 13 08:09:32 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

some fixes for openmp/mpi compilation and linearNC can now handel constraints.

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Revision 3822 - Directory Listing
Modified Mon Feb 13 06:22:06 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

Transport solver supports now constraints (except the linear CN)

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Revision 3816 - Directory Listing
Modified Thu Feb 9 05:46:36 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

WrappedArray now honours the 'strides' field in the numpy array interface
and supports more data types. Fixes test failures on savanna which for some
reason did not surface on other machines.

---

Revision 3814 - Directory Listing
Modified Thu Feb 9 00:11:08 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Changes to savanna options file to use intel 12 and numpy 1.6.1.

---

Revision 3808 - Directory Listing
Modified Mon Feb 6 06:17:47 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

some modifications to the test examples

---

Revision 3807 - Directory Listing
Modified Mon Feb 6 06:14:25 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

LINEAR_CRANK_NICOLSON solver added

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Revision 3806 - Directory Listing
Modified Mon Feb 6 02:32:48 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

ripley::getSize() also returns circumcircle now.

---

Revision 3805 - Directory Listing
Modified Mon Feb 6 01:42:20 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

return circumcircle  now.

---

Revision 3804 - Directory Listing
Modified Mon Feb 6 00:48:22 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Fixed utest.sh generator so tests can be run if the installation prefix is
not `pwd`

---

Revision 3803 - Directory Listing
Modified Fri Feb 3 06:16:30 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Fixes to ripley unit test setup

---

Revision 3802 - Directory Listing
Modified Fri Feb 3 06:05:57 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Quick fix for potential invalid memory access in paso.

---

Revision 3801 - Directory Listing
Modified Fri Feb 3 05:21:02 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Fixed OpenMP bug in paso local AMG.

---

Revision 3800 - Directory Listing
Modified Fri Feb 3 01:18:06 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Fixed integration with constant data on ripley.

---

Revision 3799 - Directory Listing
Modified Thu Feb 2 10:41:28 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

test for gradient of constant data added

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Revision 3798 - Directory Listing
Modified Thu Feb 2 09:47:27 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

test for interpolation of constant data added

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Revision 3797 - Directory Listing
Modified Thu Feb 2 09:28:59 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

test for integration of constant data added.

---

Revision 3796 - Directory Listing
Modified Thu Feb 2 06:26:15 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

typo in grad calculation fixed.

---

Revision 3795 - Directory Listing
Modified Thu Feb 2 05:54:34 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Had to remove 'nowait' directive from PDE boundary conditions since all
4 (2D) / 8 (3D) values are updated the way it is implemented. This caused
race conditions when updating RHS.

---

Revision 3794 - Directory Listing
Modified Wed Feb 1 23:02:26 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

uninitialied variable fixed.

---

Revision 3793 - Directory Listing
Modified Wed Feb 1 07:39:43 2012 UTC (8 years, 11 months ago) by gross
Original Path: trunk

new implementation of FCT solver with some modifications to the python interface

---

Revision 3792 - Directory Listing
Modified Wed Feb 1 06:16:25 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Merged ripley rectangular domain into trunk.

---

Revision 3788 - Directory Listing
Modified Mon Jan 30 04:41:33 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Fixed showEscriptParams() which hasn't worked for 2 years or so.

---

Revision 3787 - Directory Listing
Modified Fri Jan 27 01:43:47 2012 UTC (8 years, 11 months ago) by caltinay
Original Path: trunk

Changed test cases from y.interpolateTable(...x...) to x.interpolateTable(...y...)

---

Revision 3786 - Directory Listing
Modified Wed Jan 25 04:46:39 2012 UTC (9 years ago) by jfenwick
Original Path: trunk

Made 2D interpolation call consistant with 1D and 3D.
Doco updates later

---

Revision 3784 - Directory Listing
Modified Wed Jan 25 01:31:42 2012 UTC (9 years ago) by caltinay
Original Path: trunk

Implemented optimized copy from numpy in WrappedArray (#652).

---

Revision 3782 - Directory Listing
Modified Tue Jan 24 01:30:38 2012 UTC (9 years ago) by caltinay
Original Path: trunk

Another attempt to fix #649

---

Revision 3778 - Directory Listing
Modified Fri Jan 20 05:09:52 2012 UTC (9 years ago) by gross
Original Path: trunk

better error reporting from UMFPACK

---

Revision 3775 - Directory Listing
Modified Wed Jan 18 07:26:34 2012 UTC (9 years ago) by jfenwick
Original Path: trunk

Weipa updated

---

Revision 3774 - Directory Listing
Modified Wed Jan 18 06:29:34 2012 UTC (9 years ago) by jfenwick
Original Path: trunk

dudley, pasowrap, pycad

---

Revision 3772 - Directory Listing
Modified Wed Jan 18 04:19:33 2012 UTC (9 years ago) by jfenwick
Original Path: trunk

Converting finley directories

---

Revision 3771 - Directory Listing
Modified Wed Jan 18 02:30:48 2012 UTC (9 years ago) by jfenwick
Original Path: trunk

First stage of 2.6/3 conversion

---

Revision 3747 - Directory Listing
Modified Thu Dec 15 02:13:14 2011 UTC (9 years, 1 month ago) by gross
Original Path: trunk

inconsistent notation fixed.

---

Revision 3739 - Directory Listing
Modified Tue Dec 13 00:48:26 2011 UTC (9 years, 1 month ago) by caltinay
Original Path: trunk

Ok, the python wrappers do use esysUtils for the exception translator.
Anything else?

---

Revision 3738 - Directory Listing
Modified Tue Dec 13 00:37:55 2011 UTC (9 years, 1 month ago) by caltinay
Original Path: trunk

Windoze: Fixed warning and linker error
Don't look for non-existing pasowrap tests.

---

Revision 3737 - Directory Listing
Modified Tue Dec 13 00:04:39 2011 UTC (9 years, 1 month ago) by caltinay
Original Path: trunk

Reordered and removed superfluous libraries from link lines. Hope W32 likes
that.

---

Revision 3736 - Directory Listing
Modified Mon Dec 12 01:26:51 2011 UTC (9 years, 1 month ago) by jfenwick
Original Path: trunk

Fixed apparent multiple instances of Esys

---

Revision 3734 - Directory Listing
Modified Fri Dec 9 04:48:08 2011 UTC (9 years, 1 month ago) by caltinay
Original Path: trunk

pycad kept creating temporary files. This should hopefully fix it.

---

Revision 3729 - Directory Listing
Modified Thu Dec 8 06:46:49 2011 UTC (9 years, 1 month ago) by jfenwick
Original Path: trunk

Fixed mistake in Finley_Assemble_PDE and the dudley equivalent.

Cihan - you might want to look to see if Ripley is affected

---

Revision 3728 - Directory Listing
Modified Thu Dec 8 05:11:19 2011 UTC (9 years, 1 month ago) by jfenwick
Original Path: trunk

Oops

---

Revision 3727 - Directory Listing
Modified Thu Dec 8 04:55:56 2011 UTC (9 years, 1 month ago) by jfenwick
Original Path: trunk

More broken linkage

---

Revision 3726 - Directory Listing
Modified Thu Dec 8 04:35:52 2011 UTC (9 years, 1 month ago) by jfenwick
Original Path: trunk

Fixing some broken linkage on windows

---

Revision 3723 - Directory Listing
Modified Wed Dec 7 05:59:04 2011 UTC (9 years, 1 month ago) by caltinay
Original Path: trunk

Don't eat exceptions when using MPI with one rank.

---

Revision 3720 - Directory Listing
Modified Wed Dec 7 04:32:21 2011 UTC (9 years, 1 month ago) by caltinay
Original Path: trunk

Fixed off-by-one error in FunctionSpace

---

Revision 3689 - Directory Listing
Modified Wed Nov 23 01:39:45 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

integration nodes fixed

---

Revision 3681 - Directory Listing
Modified Fri Nov 18 04:54:15 2011 UTC (9 years, 2 months ago) by caltinay
Original Path: trunk

Moved implementation of getTransportTypeId() and getSystemMatrixTypeId() into
pasowrap.

---

Revision 3678 - Directory Listing
Modified Thu Nov 17 06:32:05 2011 UTC (9 years, 2 months ago) by jfenwick
Original Path: trunk

Reversing other changes which made it in somehow

---

Revision 3677 - Directory Listing
Modified Thu Nov 17 04:01:12 2011 UTC (9 years, 2 months ago) by caltinay
Original Path: trunk

Fixed order of libraries which makes static esysUtils work again.

---

Revision 3676 - Directory Listing
Modified Thu Nov 17 03:52:25 2011 UTC (9 years, 2 months ago) by jfenwick
Original Path: trunk

Removed some debug text
Corrected some dudley where they should not have been.
Set savanna to build shared for now

---

Revision 3675 - Directory Listing
Modified Thu Nov 17 00:53:38 2011 UTC (9 years, 2 months ago) by jfenwick
Original Path: trunk

pasowrap joins the trunk.

---

Revision 3667 - Directory Listing
Modified Tue Nov 15 23:29:23 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

better consistence of script and notation

---

Revision 3666 - Directory Listing
Modified Tue Nov 15 23:10:20 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

fix for https://mantis.esscc.uq.edu.au/view.php?id=647

---

Revision 3650 - Directory Listing
Modified Fri Nov 4 07:02:55 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

ode solver added

---

Revision 3649 - Directory Listing
Modified Fri Nov 4 04:35:15 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

gmsh reader understand name tags now.

---

Revision 3648 - Directory Listing
Modified Thu Nov 3 08:13:31 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

typos fixed

---

Revision 3647 - Directory Listing
Modified Tue Nov 1 23:33:18 2011 UTC (9 years, 2 months ago) by lgao
Original Path: trunk

With this option file, unit tests finished successfully with the following order to load module: 

module load mpi/gcc/openmpi/1.4.3
module load python/2.6.7
module load boost/1.46.1-python-2.6
module load netcdf/4.0.1
module load scons/2.0.1-python-2.6
module load intel-compilers/11.1.075
module load intel-mkl/10.3.5.220
module load python-numpy/1.3.0-python-2.6
module load cppunit/1.12.1
module load python-matplotlib/0.98.5.3-python-2.6
module load hdf5/1.8.6
module load silo/4.7.2
module load hypre/2.0.0

HYPRE is loaded but not used yet since the installed hypre module on epic comes with static library only. 

---

Revision 3646 - Directory Listing
Modified Fri Oct 28 05:20:38 2011 UTC (9 years, 2 months ago) by lgao
Original Path: trunk

working option file on epic

---

Revision 3645 - Directory Listing
Modified Fri Oct 28 00:11:30 2011 UTC (9 years, 2 months ago) by caltinay
Original Path: trunk

Fixed typos.

---

Revision 3644 - Directory Listing
Modified Thu Oct 27 06:42:56 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

hint to add surface items in pycad

---

Revision 3643 - Directory Listing
Modified Thu Oct 27 06:23:16 2011 UTC (9 years, 2 months ago) by caltinay
Original Path: trunk

Updated savanna options file. We're now using silo 4.8, netcdf 4.1.1 and boost 1.42 on savanna.

---

Revision 3642 - Directory Listing
Modified Thu Oct 27 03:41:51 2011 UTC (9 years, 2 months ago) by caltinay
Original Path: trunk

Assorted spelling/comment fixes in paso.

---

Revision 3641 - Directory Listing
Modified Thu Oct 27 02:16:12 2011 UTC (9 years, 2 months ago) by gross
Original Path: trunk

more work on the assemblage

---

Revision 3639 - Directory Listing
Modified Tue Oct 25 02:13:26 2011 UTC (9 years, 3 months ago) by caltinay
Original Path: trunk

Assorted spelling fixes in finley C.

---

Revision 3637 - Directory Listing
Modified Fri Oct 21 04:29:33 2011 UTC (9 years, 3 months ago) by caltinay
Original Path: trunk

Fixed memory leaks in loadMesh() for dudley and finley.

---

Revision 3635 - Directory Listing
Modified Fri Oct 21 00:26:01 2011 UTC (9 years, 3 months ago) by caltinay
Original Path: trunk

Fixed minor issues.

---

Revision 3630 - Directory Listing
Modified Wed Oct 19 03:04:53 2011 UTC (9 years, 3 months ago) by gross
Original Path: trunk

minor fix to dary flux

---

Revision 3629 - Directory Listing
Modified Wed Oct 19 03:04:27 2011 UTC (9 years, 3 months ago) by gross
Original Path: trunk

darcy example added

---

Revision 3628 - Directory Listing
Modified Wed Oct 19 02:09:36 2011 UTC (9 years, 3 months ago) by caltinay
Original Path: trunk

Prepend our libraries instead of appending. This should fix HYPRE link
issue on epic.

---

Revision 3627 - Directory Listing
Modified Fri Oct 14 13:54:49 2011 UTC (9 years, 3 months ago) by caltinay
Original Path: trunk

Reverted some changes that slipped in and caused the Silo writer to not behave.

---

Revision 3626 - Directory Listing
Modified Fri Oct 14 02:34:55 2011 UTC (9 years, 3 months ago) by gross
Original Path: trunk

Silo and cppunit added for epic (there is still a problem with hypre)

---

Revision 3625 - Directory Listing
Modified Thu Oct 13 01:54:27 2011 UTC (9 years, 3 months ago) by gross
Original Path: trunk

missing argument in gmsh reader documentation added

---

Revision 3624 - Directory Listing
Modified Wed Oct 12 07:58:25 2011 UTC (9 years, 3 months ago) by gross
Original Path: trunk

changes for epic.ivec.org

---

Revision 3623 - Directory Listing
Modified Tue Oct 11 03:59:40 2011 UTC (9 years, 3 months ago) by caltinay
Original Path: trunk

Added option to enable/disable saving of mesh data in weipa.
Now defaults to false since it's mainly for debugging.
Fixes #640.

---

Revision 3622 - Directory Listing
Modified Thu Oct 6 08:06:41 2011 UTC (9 years, 3 months ago) by trankine
Original Path: trunk

Epic.ivec.org scons build template

---

Revision 3620 - Directory Listing
Modified Wed Oct 5 06:06:14 2011 UTC (9 years, 3 months ago) by gross
Original Path: trunk

bug fixed

---

Revision 3619 - Directory Listing
Modified Wed Oct 5 03:53:34 2011 UTC (9 years, 3 months ago) by gross
Original Path: trunk

some rescaling of permeability in the darcy solver added

---

Revision 3618 - Directory Listing
Modified Fri Sep 30 04:07:09 2011 UTC (9 years, 3 months ago) by jfenwick
Original Path: trunk

Allowed 'no' as an mpi type.
Allowed SVN_VERSION to be specified from the command line.
TO BE USED ONLY FOR RELEASE PURPOSES where you do not have a .svn checkout

---

Revision 3616 - Directory Listing
Modified Fri Sep 30 00:56:37 2011 UTC (9 years, 3 months ago) by jfenwick
Original Path: trunk

Center a table that I noticed and use upquote package to stop LaTeX from
mucking about with ' in python code.

Fixes #632

---

Revision 3607 - Directory Listing
Modified Mon Sep 19 22:08:24 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Fixed double/float warning.

---

Revision 3606 - Directory Listing
Modified Mon Sep 19 16:26:51 2011 UTC (9 years, 4 months ago) by trankine
Original Path: trunk

Trial nosetests runner tests for better integration

---

Revision 3605 - Directory Listing
Modified Mon Sep 19 07:47:23 2011 UTC (9 years, 4 months ago) by trankine
Original Path: trunk

cppunit actually does do the install step in the msvc project files and does put the build products where scons can find them.

---

Revision 3604 - Directory Listing
Modified Mon Sep 19 04:47:53 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Changed detection of pdflatex since some versions of scons require .ltx or
.latex file extensions when pdflatex is not available.
Also added cleanup of utest.sh and buildvars file.

---

Revision 3603 - Directory Listing
Modified Mon Sep 19 03:42:53 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Fixed some unused var errors in non-mpi build.

---

Revision 3602 - Directory Listing
Modified Mon Sep 19 02:38:11 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Fix scons checks on windows

---

Revision 3601 - Directory Listing
Modified Mon Sep 19 01:21:33 2011 UTC (9 years, 4 months ago) by trankine
Original Path: trunk

Updating cgisrv3 options for external cppunit - because I cant see brackets.

---

Revision 3600 - Directory Listing
Modified Mon Sep 19 00:58:15 2011 UTC (9 years, 4 months ago) by trankine
Original Path: trunk

Updating cgisrv3 options for external cppunit

---

Revision 3599 - Directory Listing
Modified Fri Sep 16 01:34:46 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Updated install guide to mention external CppUnit dependency for unit tests.

---

Revision 3598 - Directory Listing
Modified Fri Sep 16 01:01:17 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

New config option build_shared (which replaces share_paso & share_esysUtils).
Also enabled building escriptreader library on Windows which should now
work in both shared and static mode.

---

Revision 3597 - Directory Listing
Modified Thu Sep 15 06:03:17 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Switching to external cppunit:
-removed tools/CppUnitTest
-updated scons script and files
-updated tests to changed API
-updated readme

Bumped scons options file version to 201. Additions:
-cppunit*
-boomeramg*
-vsl_random

---

Revision 3596 - Directory Listing
Modified Thu Sep 15 05:58:15 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Deleted some obsolete options files.

---

Revision 3595 - Directory Listing
Modified Thu Sep 15 05:56:47 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Skip some more gmsh-dependend tests if gmsh is not available.

---

Revision 3594 - Directory Listing
Modified Thu Sep 15 00:45:04 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Added missing declspecs in paso. Thanks Terry.

---

Revision 3589 - Directory Listing
Modified Mon Sep 12 03:25:25 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

This fixes the bug 616. Problem was that the Coupler used the pattern of original rather than unrolled pattern.

---

Revision 3588 - Directory Listing
Modified Mon Sep 12 01:53:17 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

Typo fixed.

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Revision 3586 - Directory Listing
Modified Fri Sep 9 04:02:29 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

run_domainreaders now passes some parameters to the constructors so
kwargs is tested to be working. Addresses #578.

---

Revision 3585 - Directory Listing
Modified Wed Sep 7 06:16:08 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Fix for #582: Determine if gmsh was compiled with MPI support and use
MPI_Comm_spawn to invoke it if necessary.

---

Revision 3584 - Directory Listing
Modified Tue Sep 6 11:08:34 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Removing Locator.setValue for now

---

Revision 3583 - Directory Listing
Modified Tue Sep 6 04:27:59 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Updated shake75 options file.

---

Revision 3582 - Directory Listing
Modified Tue Sep 6 02:02:17 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

some clarification of the documentation on the Stokes solver.

---

Revision 3581 - Directory Listing
Modified Tue Sep 6 00:52:58 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

Used python 2.7 syntax. Sorry!

---

Revision 3580 - Directory Listing
Modified Tue Sep 6 00:31:35 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

error handeling for python compilation improved.

---

Revision 3579 - Directory Listing
Modified Mon Sep 5 23:25:01 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Stopping unit test from failing until I can get it working

---

Revision 3578 - Directory Listing
Modified Mon Sep 5 23:18:45 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

Missing dependence added (?) and typo in test files fixed.

---

Revision 3577 - Directory Listing
Modified Mon Sep 5 08:22:52 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

getFLux fixed and tests added.

---

Revision 3576 - Directory Listing
Modified Mon Sep 5 06:33:20 2011 UTC (9 years, 4 months ago) by caltinay
Original Path: trunk

Fixed two more instances of macro-dependent unused vars.

---

Revision 3575 - Directory Listing
Modified Fri Sep 2 08:31:08 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Fixing bug I introduced with the last commit

---

Revision 3574 - Directory Listing
Modified Fri Sep 2 07:19:31 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Added setValue to locator.
Some unit tests added but they aren't being triggered for some reason

---

Revision 3573 - Directory Listing
Modified Fri Sep 2 05:51:02 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Added more comprehensible doco about 3D interpolation.
Also fixed a bug but this may break code which previously used 3D interpolation.

This fixes mantis #581

---

Revision 3572 - Directory Listing
Modified Thu Sep 1 07:54:42 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Comment out a non-existant function from the Finley interface and (hopefully)
fix mantis bug #623

---

Revision 3571 - Directory Listing
Modified Thu Sep 1 03:53:23 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

LinearSolver option RILU has been removed from the documentation it is not supported yet.

---

Revision 3570 - Directory Listing
Modified Thu Sep 1 03:11:26 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Fixed some bib entries, changed visit script in guide to use " instead of '.
Reworded a sentence.

---

Revision 3569 - Directory Listing
Modified Thu Sep 1 02:42:36 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

Darcy flow solver and docu reviewed. Coupled solvers have been removed.

---

Revision 3568 - Directory Listing
Modified Tue Aug 30 08:23:24 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

darcy flux documentation updated.

---

Revision 3567 - Directory Listing
Modified Tue Aug 30 07:55:02 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

FIXME and TODO fixed.

---

Revision 3566 - Directory Listing
Modified Tue Aug 30 07:37:55 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

small fix to units

---

Revision 3565 - Directory Listing
Modified Mon Aug 29 10:28:57 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

surely it will accept this one

---

Revision 3564 - Directory Listing
Modified Mon Aug 29 09:09:30 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

In case windows is case sensitive

---

Revision 3563 - Directory Listing
Modified Mon Aug 29 04:26:46 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Another try to fix the windows issue

---

Revision 3562 - Directory Listing
Modified Mon Aug 29 03:31:13 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Removed DLL export from non-exported methods

---

Revision 3561 - Directory Listing
Modified Mon Aug 29 02:51:05 2011 UTC (9 years, 4 months ago) by jfenwick
Original Path: trunk

Attempt to fix windows problem

---

Revision 3560 - Directory Listing
Modified Mon Aug 29 01:10:42 2011 UTC (9 years, 4 months ago) by gross
Original Path: trunk

lf missing in buildvars print

---

Revision 3559 - Directory Listing
Modified Fri Aug 26 07:47:27 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Silence some warnings unused var warnings under gcc.

---

Revision 3558 - Directory Listing
Modified Fri Aug 26 06:09:02 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Merged changes from dirac.
Now the only way to add diracPoints is to use the constructor

---

Revision 3552 - Directory Listing
Modified Mon Aug 22 00:05:17 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Fixed icc problem

---

Revision 3551 - Directory Listing
Modified Fri Aug 19 03:53:41 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Changing unit test calls to use non deprecated forms (python2.7)
fixes bug #568

---

Revision 3550 - Directory Listing
Modified Fri Aug 19 01:51:35 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Switching from rand() to boost::random for non-VSL randoms

---

Revision 3549 - Directory Listing
Modified Tue Aug 9 06:40:06 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Fix for issue #617
A couple of extra tests to make sure it doesn't happen again

---

Revision 3548 - Directory Listing
Modified Tue Aug 9 04:00:27 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Fixing badger options

---

Revision 3547 - Directory Listing
Modified Tue Aug 2 04:24:09 2011 UTC (9 years, 5 months ago) by lgao
Original Path: trunk

Set "lapack" to "mkl" before the mantis bug 0000616 is solved. 

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Revision 3546 - Directory Listing
Modified Thu Jul 28 01:32:20 2011 UTC (9 years, 5 months ago) by jfenwick
Original Path: trunk

Replaced 'and' with && since windows doesn't seem to understand it

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Revision 3545 - Directory Listing
Modified Wed Jul 27 06:29:09 2011 UTC (9 years, 6 months ago) by lgao
Original Path: trunk

Turn off VSL for random data before the MKL library link line problem has been solved. 

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Revision 3544 - Directory Listing
Modified Wed Jul 27 06:19:10 2011 UTC (9 years, 6 months ago) by jfenwick
Original Path: trunk

Temporary fix to get windows to compile

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Revision 3543 - Directory Listing
Modified Fri Jul 22 06:58:03 2011 UTC (9 years, 6 months ago) by gross
Original Path: trunk

and the generator script

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Revision 3542 - Directory Listing
Modified Fri Jul 22 06:57:41 2011 UTC (9 years, 6 months ago) by gross
Original Path: trunk

first attempts toward a multi grid solver

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Revision 3541 - Directory Listing
Modified Fri Jul 22 03:21:06 2011 UTC (9 years, 6 months ago) by trankine
Original Path: trunk

migration to system maintained dependancies (not per build). will allow multi builders

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Revision 3538 - Directory Listing
Modified Mon Jul 4 00:13:02 2011 UTC (9 years, 6 months ago) by jfenwick
Original Path: trunk

Added paper with current dev team to the references section.

---

Revision 3529 - Directory Listing
Modified Thu May 26 00:36:10 2011 UTC (9 years, 8 months ago) by caltinay
Original Path: trunk

Re-enable VisIt and Silo on savanna and use gcc-4.6 on shake75.

---

Revision 3528 - Directory Listing
Modified Tue May 24 07:02:08 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

---

Revision 3527 - Directory Listing
Modified Tue May 24 06:59:20 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

modifications to the coal seam gas 

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Revision 3526 - Directory Listing
Modified Tue May 24 05:01:46 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

coal code uses nodal wells now

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Revision 3525 - Directory Listing
Modified Tue May 24 04:04:58 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

and more typos fixed.

---

Revision 3524 - Directory Listing
Modified Tue May 24 02:23:00 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

typo fixed.

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Revision 3523 - Directory Listing
Modified Tue May 24 02:03:37 2011 UTC (9 years, 8 months ago) by caltinay
Original Path: trunk

Fixed declaration order (register const) for gcc-4.6

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Revision 3522 - Directory Listing
Modified Tue May 24 00:57:58 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

(almost) full support for Point elements

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Revision 3521 - Directory Listing
Modified Mon May 23 07:23:02 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

typo fixed

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Revision 3520 - Directory Listing
Modified Mon May 23 06:24:30 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

some fixes for to point interpolation

---

Revision 3519 - Directory Listing
Modified Mon May 23 05:55:47 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

compiler fixes

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Revision 3516 - Directory Listing
Modified Fri May 20 00:57:41 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

missing file

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Revision 3515 - Directory Listing
Modified Thu May 19 08:20:57 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

some first work for DiracFunctions

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Revision 3514 - Directory Listing
Modified Thu May 19 04:48:34 2011 UTC (9 years, 8 months ago) by caltinay
Original Path: trunk

Fixed __truediv__ and added __rtruediv__ for new python division operator.

---

Revision 3513 - Directory Listing
Modified Thu May 19 04:45:19 2011 UTC (9 years, 8 months ago) by lgao
Original Path: trunk

When "werror" is set to True, scons build will complains about compilation failure of some boost "multi-array" test case. This causes recently unit-tests failures. So I set "werror" back to False before someone who has the knowledge fixes the problem.

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Revision 3511 - Directory Listing
Modified Tue May 17 23:56:13 2011 UTC (9 years, 8 months ago) by lgao
Original Path: trunk

Fixed the scons build problem in case MPI is not in use (this 
is the reason why unit tests failed to execute properly for the
past several days).

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Revision 3510 - Directory Listing
Modified Fri May 13 06:09:49 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

some fixes for the compilation without BOOMERAMG

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Revision 3508 - Directory Listing
Modified Fri May 13 04:15:29 2011 UTC (9 years, 8 months ago) by lgao
Original Path: trunk

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

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

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Revision 3506 - Directory Listing
Modified Wed May 11 01:59:45 2011 UTC (9 years, 8 months ago) by jfenwick
Original Path: trunk

Use VSL if MKLRANDOM is defined.
Use different seeds for different ranks/threads.
Use different seeds for successive calls with no seed given.

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Revision 3505 - Directory Listing
Modified Fri Apr 29 07:09:45 2011 UTC (9 years, 8 months ago) by jfenwick
Original Path: trunk

arithmetic operations now return NotImplemented if they don't know what to do.
Fixes mantis issue #54

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Revision 3504 - Directory Listing
Modified Thu Apr 28 12:55:05 2011 UTC (9 years, 8 months ago) by jfenwick
Original Path: trunk

Move arithmetic ops into explicitly named methods

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Revision 3503 - Directory Listing
Modified Thu Apr 28 06:55:30 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

missing file

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Revision 3502 - Directory Listing
Modified Thu Apr 28 05:06:24 2011 UTC (9 years, 8 months ago) by gross
Original Path: trunk

Darcy flow solver is now supporting 4 solvers

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Revision 3501 - Directory Listing
Modified Wed Apr 13 04:07:53 2011 UTC (9 years, 9 months ago) by gross
Original Path: trunk

---

Revision 3500 - Directory Listing
Modified Mon Apr 11 03:09:06 2011 UTC (9 years, 9 months ago) by gross
Original Path: trunk

GMRES solver for new DarcyFlux solver added

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Revision 3499 - Directory Listing
Modified Fri Apr 8 00:14:35 2011 UTC (9 years, 9 months ago) by gross
Original Path: trunk

---

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

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

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Revision 3497 - Directory Listing
Modified Wed Apr 6 06:11:56 2011 UTC (9 years, 9 months ago) by gross
Original Path: trunk

---

Revision 3494 - Directory Listing
Modified Tue Apr 5 04:12:08 2011 UTC (9 years, 9 months ago) by gross
Original Path: trunk

more coal seam gas

---

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

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

---

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

Fixed a few warnings emitted by gcc-4.6.

---

Revision 3487 - Directory Listing
Modified Mon Mar 28 03:44:22 2011 UTC (9 years, 9 months ago) by gross
Original Path: trunk

some compile fixes

---

Revision 3486 - Directory Listing
Modified Sun Mar 27 22:27:45 2011 UTC (9 years, 9 months ago) by gross
Original Path: trunk

bug in eigenvector calculation fixed (see mantis=594)

---

Revision 3485 - Directory Listing
Modified Thu Mar 24 22:44:40 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

some compile fixes

---

Revision 3484 - Directory Listing
Modified Thu Mar 24 05:42:07 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

some work on coal gas

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Revision 3483 - Directory Listing
Modified Wed Mar 23 04:18:35 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

Ops: AMG MPI chould not be called yet.

---

Revision 3482 - Directory Listing
Modified Wed Mar 23 04:06:52 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

some work on AMG MPI

---

Revision 3481 - Directory Listing
Modified Wed Mar 23 04:05:58 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

---

Revision 3480 - Directory Listing
Modified Wed Mar 23 04:03:39 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

---

Revision 3479 - Directory Listing
Modified Wed Mar 23 04:03:22 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

---

Revision 3478 - Directory Listing
Modified Wed Mar 23 04:02:39 2011 UTC (9 years, 10 months ago) by gross
Original Path: trunk

coal gas stuff

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Revision 3475 - Directory Listing
Modified Thu Mar 17 00:28:08 2011 UTC (9 years, 10 months ago) by caltinay
Original Path: trunk

Removed an obsolete file.

---

Revision 3470 - Directory Listing
Modified Mon Mar 14 03:50:49 2011 UTC (9 years, 10 months ago) by caltinay
Original Path: trunk

Fix for mantis issue 591 (added __truediv__ methods to Data class).

---

Revision 3469 - Directory Listing
Modified Tue Feb 22 06:39:16 2011 UTC (9 years, 11 months ago) by jfenwick
Original Path: trunk

Fix docstring in dudley

---

Revision 3468 - Directory Listing
Modified Tue Feb 22 06:38:57 2011 UTC (9 years, 11 months ago) by jfenwick
Original Path: trunk

Made constructors more efficient.
Only has a very minor affect on performance

---

Revision 3467 - Directory Listing
Modified Tue Feb 8 09:31:46 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Fixed unit test after last change.

---

Revision 3466 - Directory Listing
Modified Tue Feb 8 05:16:21 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Added TEMP and friends to the list of env vars exported by scons.
Modified pycad's gmsh command line since the mesh filename may also contain
spaces.

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Revision 3465 - Directory Listing
Modified Tue Feb 8 00:11:15 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Use the subprocess module within pycad's Triangle.

---

Revision 3464 - Directory Listing
Modified Mon Feb 7 05:17:11 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Use the subprocess module with argument list to run gmsh from pycad to avoid
having to deal with spaces in path names.

---

Revision 3463 - Directory Listing
Modified Mon Feb 7 02:09:57 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Check for gmsh in main SConstruct file and skip tests that depend on it when
the executable is not found.

---

Revision 3462 - Directory Listing
Modified Mon Feb 7 02:01:50 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Removed debug output.

---

Revision 3461 - Directory Listing
Modified Sun Feb 6 23:33:37 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Re-enabled silo on savanna as well.

---

Revision 3460 - Directory Listing
Modified Sun Feb 6 23:24:22 2011 UTC (9 years, 11 months ago) by jfenwick
Original Path: trunk

Re-enabling MPI on savanna

---

Revision 3459 - Directory Listing
Modified Wed Feb 2 01:54:45 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

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

---

Revision 3458 - Directory Listing
Modified Mon Jan 31 07:06:42 2011 UTC (9 years, 11 months ago) by gross
Original Path: trunk

more on AMG under MPI

---

Revision 3457 - Directory Listing
Modified Thu Jan 27 01:38:17 2011 UTC (9 years, 11 months ago) by caltinay
Original Path: trunk

Added missing cookbook figures from Anthony.

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Revision 3456 - Directory Listing
Modified Tue Jan 25 08:20:02 2011 UTC (10 years ago) by gross
Original Path: trunk

segfault fixed

---

Revision 3455 - Directory Listing
Modified Tue Jan 25 04:23:17 2011 UTC (10 years ago) by gross
Original Path: trunk

some compilation fixes

---

Revision 3454 - Directory Listing
Modified Tue Jan 25 04:00:29 2011 UTC (10 years ago) by caltinay
Original Path: trunk

Fixed some minor doxygen issues.

---

Revision 3453 - Directory Listing
Modified Tue Jan 25 03:59:30 2011 UTC (10 years ago) by caltinay
Original Path: trunk

Disabled C99 extensions on guineapig again.

---

Revision 3452 - Directory Listing
Modified Tue Jan 25 01:53:57 2011 UTC (10 years ago) by caltinay
Original Path: trunk

Fixed building cookbook, including toc (scons scans for keywords in the tex
files but not in .cls as it seems).
Also fixed a few epydoc warnings and typos.

---

Revision 3451 - Directory Listing
Modified Sun Jan 23 23:11:01 2011 UTC (10 years ago) by gross
Original Path: trunk

compilation fixes

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Revision 3450 - Directory Listing
Modified Fri Jan 21 06:39:56 2011 UTC (10 years ago) by gross
Original Path: trunk

more compilation fixing

---

Revision 3449 - Directory Listing
Modified Fri Jan 21 05:48:15 2011 UTC (10 years ago) by gross
Original Path: trunk

compile problem in AMG fixed.

---

Revision 3448 - Directory Listing
Modified Fri Jan 21 04:38:54 2011 UTC (10 years ago) by ahallam
Original Path: trunk

Quick final changes to cookbook to accomodate example10c problem. 'So long and thanks for all the fish.'

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Revision 3447 - Directory Listing
Modified Fri Jan 21 04:33:42 2011 UTC (10 years ago) by ahallam
Original Path: trunk

example10c removed from testing as it is not in the cookbook.

---

Revision 3446 - Directory Listing
Modified Thu Jan 20 06:47:07 2011 UTC (10 years ago) by gross
Original Path: trunk

and more work toward AMG MPI

---

Revision 3445 - Directory Listing
Modified Wed Jan 19 06:02:15 2011 UTC (10 years ago) by gross
Original Path: trunk

more work towards MPI AMG

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Revision 3444 - Directory Listing
Modified Tue Jan 18 23:17:27 2011 UTC (10 years ago) by gross
Original Path: trunk

run_domainreaders.py can only be run for MPI ranks = 1 as gmsh does not support MPI yet

---

Revision 3443 - Directory Listing
Modified Tue Jan 18 05:38:48 2011 UTC (10 years ago) by gross
Original Path: trunk

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

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Revision 3442 - Directory Listing
Modified Tue Jan 18 01:47:36 2011 UTC (10 years ago) by gross
Original Path: trunk

 emeregncy

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Revision 3441 - Directory Listing
Modified Fri Jan 14 01:09:09 2011 UTC (10 years ago) by gross
Original Path: trunk

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

---

Revision 3440 - Directory Listing
Modified Fri Jan 14 00:04:53 2011 UTC (10 years ago) by gross
Original Path: trunk

a second AMG interpolation implemented

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Revision 3439 - Directory Listing
Modified Fri Jan 14 00:04:01 2011 UTC (10 years ago) by gross
Original Path: trunk

some modifications to fix the cook examples runs for testing

---

Revision 3438 - Directory Listing
Modified Thu Jan 13 23:24:50 2011 UTC (10 years ago) by gross
Original Path: trunk

mesh size reduced

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Revision 3437 - Directory Listing
Modified Mon Jan 10 05:05:15 2011 UTC (10 years ago) by plaub
Original Path: trunk

Fixed test for new default arguments

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Revision 3436 - Directory Listing
Modified Mon Jan 10 02:06:07 2011 UTC (10 years ago) by plaub
Original Path: trunk

Added/modified AMG tests:

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

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

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

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

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Revision 3435 - Directory Listing
Modified Fri Jan 7 03:40:39 2011 UTC (10 years ago) by gross
Original Path: trunk

initial value changed

---

Revision 3434 - Directory Listing
Modified Fri Jan 7 03:35:58 2011 UTC (10 years ago) by gross
Original Path: trunk

initial value changed

---

Revision 3433 - Directory Listing
Modified Fri Jan 7 02:39:05 2011 UTC (10 years ago) by gross
Original Path: trunk

initial value changed

---

Revision 3432 - Directory Listing
Modified Fri Jan 7 01:32:07 2011 UTC (10 years ago) by jfenwick
Original Path: trunk

Made import statements a bit more specific to clean up the epydoc

---

Revision 3431 - Directory Listing
Modified Fri Jan 7 01:19:21 2011 UTC (10 years ago) by gross
Original Path: trunk

redundant setMinCoarseMatrixSparsity removed.

---

Revision 3430 - Directory Listing
Modified Thu Jan 6 09:09:19 2011 UTC (10 years ago) by gross
Original Path: trunk

import order is critical

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Revision 3429 - Directory Listing
Modified Thu Jan 6 07:40:01 2011 UTC (10 years ago) by gross
Original Path: trunk

SAMESIGN macro added

---

Revision 3428 - Directory Listing
Modified Thu Jan 6 01:12:36 2011 UTC (10 years ago) by jfenwick
Original Path: trunk

Fixed errors (and space/tabs) in geometry.py
Added unit tests

---

Revision 3427 - Directory Listing
Modified Thu Jan 6 00:11:45 2011 UTC (10 years ago) by ahallam
Original Path: trunk

Missing script.

---

Revision 3426 - Directory Listing
Modified Wed Jan 5 02:51:35 2011 UTC (10 years ago) by ahallam
Original Path: trunk

Added new example tests.

---

Revision 3425 - Directory Listing
Modified Wed Jan 5 02:50:38 2011 UTC (10 years ago) by ahallam
Original Path: trunk

Added new example tests.

---

Revision 3424 - Directory Listing
Modified Wed Jan 5 00:24:46 2011 UTC (10 years ago) by gross
Original Path: trunk

memory leak in UMFPACK interface fixed

---

Revision 3423 - Directory Listing
Modified Thu Dec 16 04:24:13 2010 UTC (10 years, 1 month ago) by jfenwick
Original Path: trunk

Fix a typo in geometry.py

---

Revision 3422 - Directory Listing
Modified Mon Dec 13 23:27:47 2010 UTC (10 years, 1 month ago) by caltinay
Original Path: trunk

Updated shake75 options file to use visit 2.2

---

Revision 3421 - Directory Listing
Modified Mon Dec 13 23:15:01 2010 UTC (10 years, 1 month ago) by artak
Original Path: trunk

semi-colon is missing

---

Revision 3417 - Directory Listing
Modified Sun Dec 12 23:40:27 2010 UTC (10 years, 1 month ago) by artak
Original Path: trunk

Treat warnings as errors is disabled.

---

Revision 3412 - Directory Listing
Modified Fri Dec 10 02:03:49 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

some fixes for MKL lapack

---

Revision 3411 - Directory Listing
Modified Thu Dec 9 22:42:02 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

some cleaning

---

Revision 3410 - Directory Listing
Modified Thu Dec 9 07:02:52 2010 UTC (10 years, 1 month ago) by ahallam
Original Path: trunk

Minor changes to cookbook, gravity example.

---

Revision 3409 - Directory Listing
Modified Thu Dec 9 07:01:23 2010 UTC (10 years, 1 month ago) by ahallam
Original Path: trunk

minor changes to examples before holiday.

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Revision 3407 - Directory Listing
Modified Wed Dec 8 05:16:08 2010 UTC (10 years, 1 month ago) by jfenwick
Original Path: trunk

Obsolete

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Revision 3406 - Directory Listing
Modified Wed Dec 8 01:09:37 2010 UTC (10 years, 1 month ago) by ahallam
Original Path: trunk

Updates to cookbook documentation for release.

---

Revision 3405 - Directory Listing
Modified Wed Dec 8 01:09:06 2010 UTC (10 years, 1 month ago) by ahallam
Original Path: trunk

Changes to example09 for memory footprint. One change too help wording in layer_cake function. example09b removed from testing. Not for impending release.

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Revision 3404 - Directory Listing
Modified Tue Dec 7 10:24:32 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

missing file

---

Revision 3403 - Directory Listing
Modified Tue Dec 7 08:13:51 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

some small fixes

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Revision 3402 - Directory Listing
Modified Tue Dec 7 07:36:12 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

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

additional diagnostics for AMG 

---

Revision 3400 - Directory Listing
Modified Mon Dec 6 02:23:07 2010 UTC (10 years, 1 month ago) by caltinay
Original Path: trunk

Moved vtkCellType.h to weipa where it belongs now.

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Revision 3399 - Directory Listing
Modified Mon Dec 6 02:02:16 2010 UTC (10 years, 1 month ago) by caltinay
Original Path: trunk

Updated VTK files to reflect changes to the writer.

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Revision 3398 - Directory Listing
Modified Mon Dec 6 00:02:33 2010 UTC (10 years, 1 month ago) by caltinay
Original Path: trunk

Fixed the quad mask in a very specific case and changed saveVTK to write a
specific value for unused nodes instead of the first one which breaks unit
tests depending on the number of ranks used.
Still need to rebaseline some VTK files so the tests pass.

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Revision 3397 - Directory Listing
Modified Sun Dec 5 22:46:25 2010 UTC (10 years, 1 month ago) by caltinay
Original Path: trunk

Fixed an issue in saveVTK/Silo.

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Revision 3396 - Directory Listing
Modified Fri Dec 3 08:24:16 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

wrong pointer handed

---

Revision 3395 - Directory Listing
Modified Fri Dec 3 06:30:35 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

small correction

---

Revision 3394 - Directory Listing
Modified Fri Dec 3 06:07:08 2010 UTC (10 years, 1 month ago) by jfenwick
Original Path: trunk

Nasty hack to dodge a linking issue for serial builds on savanna

---

Revision 3393 - Directory Listing
Modified Fri Dec 3 04:14:56 2010 UTC (10 years, 1 month ago) by caltinay
Original Path: trunk

shake24 (darwin) needs -L/usr/lib to pull correct gcc library.
The python library path was also not entirely correct - fixed.

---

Revision 3392 - Directory Listing
Modified Thu Dec 2 03:26:29 2010 UTC (10 years, 1 month ago) by ahallam
Original Path: trunk

Updates to cookbook. Includes new section on variable meshing. To be reviewed.

---

Revision 3391 - Directory Listing
Modified Thu Dec 2 02:25:53 2010 UTC (10 years, 1 month ago) by gross
Original Path: trunk

seg fault fixed.

---

Revision 3390 - Directory Listing
Modified Thu Dec 2 00:34:37 2010 UTC (10 years, 1 month ago) by jfenwick
Original Path: trunk

RandomData added

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Revision 3389 - Directory Listing
Modified Wed Dec 1 23:03:35 2010 UTC (10 years, 1 month ago) by ahallam
Original Path: trunk

Some changes to the cookbook examples. Starting Inversion experimentation.

---

Revision 3388 - Directory Listing
Modified Mon Nov 29 06:07:07 2010 UTC (10 years, 1 month ago) by caltinay
Original Path: trunk

Added quotes around some variables to fix running scripts located in a
directory whose name contains spaces.

---

Revision 3387 - Directory Listing
Modified Thu Nov 25 07:09:23 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed some annoying typos.

---

Revision 3386 - Directory Listing
Modified Thu Nov 25 05:05:50 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

scons choked on the newlines within the parameter list. Fixed.

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Revision 3385 - Directory Listing
Modified Thu Nov 25 04:41:33 2010 UTC (10 years, 2 months ago) by ahallam
Original Path: trunk

Updates to cookbook, something is wrong with the sconstruct though

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Revision 3384 - Directory Listing
Modified Thu Nov 25 03:28:01 2010 UTC (10 years, 2 months ago) by ahallam
Original Path: trunk

Cookbook lumping updates.

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Revision 3383 - Directory Listing
Modified Thu Nov 25 02:17:51 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed some typos and added missing symlinks. 

---

Revision 3382 - Directory Listing
Modified Thu Nov 25 00:43:18 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

I've added better credits for dev team.
There is a new page just before the contents page with current dev team 
and a more detailed list in the user guide appendix.

Please check this and let me know if you think there are errors or 
omissions.

Also fixed a typo.
Removed reference to python style files we no longer use from the 
license file.

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Revision 3381 - Directory Listing
Modified Wed Nov 24 23:37:55 2010 UTC (10 years, 2 months ago) by ahallam
Original Path: trunk

Proofing of lumping.tex

---

Revision 3380 - Directory Listing
Modified Wed Nov 24 05:03:25 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

update to change list

---

Revision 3379 - Directory Listing
Modified Wed Nov 24 04:48:49 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

some clarification on lumping

---

Revision 3378 - Directory Listing
Modified Tue Nov 23 05:09:25 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Pass dictionary of data objects to EscriptDataset as kwargs in DataManager.

---

Revision 3377 - Directory Listing
Modified Tue Nov 23 02:01:20 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Removed empty esys, include and lib directories since the install prefix is
variable now. Don't shoot me for this if this hurts.

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Revision 3376 - Directory Listing
Modified Tue Nov 23 01:56:20 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Invoke run-escript instead of escript in runTest.

---

Revision 3375 - Directory Listing
Modified Tue Nov 23 00:37:23 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Fix to unit tests

---

Revision 3374 - Directory Listing
Modified Tue Nov 23 00:30:20 2010 UTC (10 years, 2 months ago) by ahallam
Original Path: trunk

Fixes to example scripts.

---

Revision 3373 - Directory Listing
Modified Tue Nov 23 00:29:07 2010 UTC (10 years, 2 months ago) by ahallam
Original Path: trunk

New figures.

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Revision 3372 - Directory Listing
Modified Mon Nov 22 23:10:03 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Added missing import to fix unit test

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Revision 3371 - Directory Listing
Modified Mon Nov 22 06:13:47 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Sort data objects by name before passing them to the EscriptDataset object.
This addresses #537.

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Revision 3370 - Directory Listing
Modified Sun Nov 21 23:22:25 2010 UTC (10 years, 2 months ago) by ahallam
Original Path: trunk

Rearranged figures for release.

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Revision 3369 - Directory Listing
Modified Fri Nov 19 06:26:11 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

matrix balance introduced in paso

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Revision 3368 - Directory Listing
Modified Fri Nov 19 05:59:46 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

3d interpolateTable support.
New more generic interface for table interpolation.
tests and doco updated

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Revision 3367 - Directory Listing
Modified Fri Nov 19 02:07:25 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

added quick intro to visualization with VisIt and fixed a file reference.

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Revision 3366 - Directory Listing
Modified Thu Nov 18 23:41:42 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

esys.weipa Python interface documentation.

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Revision 3365 - Directory Listing
Modified Thu Nov 18 10:49:40 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed compilation without VisIt.

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Revision 3364 - Directory Listing
Modified Thu Nov 18 05:51:44 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Expose visitInitialize and visitPublishData through the python interface.

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Revision 3363 - Directory Listing
Modified Thu Nov 18 05:49:45 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Catch some corner cases in weipa's VisIt controller to make it more foolproof
and allow reinitialization.

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Revision 3362 - Directory Listing
Modified Thu Nov 18 04:59:44 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Made the VisIt interface less verbose in non-debug mode and removed unused
includes.

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Revision 3361 - Directory Listing
Modified Thu Nov 18 01:56:36 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Minor enhancement.

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Revision 3360 - Directory Listing
Modified Thu Nov 18 00:20:21 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Fix some epydoc errors
Fixed issue 564
removed minimize.py since it hasn't worked in who knows how long

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Revision 3359 - Directory Listing
Modified Wed Nov 17 23:32:36 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Fixing problem with ./utest.sh including full build path

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Revision 3358 - Directory Listing
Modified Wed Nov 17 08:02:32 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

a more flexiblae version of safeDiv

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Revision 3357 - Directory Listing
Modified Wed Nov 17 06:21:37 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed a crash when loading data from netCDF files.

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Revision 3356 - Directory Listing
Modified Wed Nov 17 05:27:47 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Finley type Finley_Tri3Face_Contact is no longer untested within weipa.

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Revision 3355 - Directory Listing
Modified Tue Nov 16 06:35:06 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed building with boost < 1.40 by
- removing the saveVTK method from dudley's MeshAdapter completely
  (no point introducing it now when we are trying to get rid of it soon)
- adding a helper function to weipa's python layer which can be called from C++
  with older boost versions.

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Revision 3354 - Directory Listing
Modified Tue Nov 16 04:48:09 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Fix problem with superclass init

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Revision 3353 - Directory Listing
Modified Tue Nov 16 04:32:40 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

some clarification on AMG in the documentation

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Revision 3352 - Directory Listing
Modified Tue Nov 16 03:58:09 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

exposure of AMG options

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Revision 3351 - Directory Listing
Modified Tue Nov 16 02:39:40 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

modified approach for AMG coarsning using a panel

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Revision 3350 - Directory Listing
Modified Mon Nov 15 05:14:43 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed MSVC90 file as per Gordon's report.

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Revision 3349 - Directory Listing
Modified Mon Nov 15 05:09:56 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

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

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Revision 3348 - Directory Listing
Modified Fri Nov 12 05:55:50 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Added weipa import statements to the relevant parts in user guide and cookbook.
Documented the deprecation of esys.escript.saveVTK in the changes chapter.

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Revision 3347 - Directory Listing
Modified Fri Nov 12 04:58:27 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

-Do not compare mesh variables (like owner, color etc) in the saveVTK tests
since they depend on the number of ranks.
-Fixed a problem where ranks without data samples can't know whether a
reduced mesh is to be used or not.

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Revision 3346 - Directory Listing
Modified Fri Nov 12 01:19:02 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Replaced usage of esys.escript.util.saveVTK by weipa.saveVTK in all python
scripts.

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Revision 3345 - Directory Listing
Modified Thu Nov 11 23:51:45 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Moved dudley saveVTK tests to weipa and removed unneeded files.

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Revision 3344 - Directory Listing
Modified Thu Nov 11 23:26:52 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Phew!
-escript, finley, and dudley now uses weipa's saveVTK implementation
-moved tests from finley to weipa accordingly; dudley still to do
-rebaselined all test files
-fixed a few issues in weipa.saveVTK, e.g. saving metadata without schema
-added a deprecation warning to esys.escript.util.saveVTK
-todo: change doco, tests and other places to use weipa.saveVTK

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Revision 3343 - Directory Listing
Modified Wed Nov 10 02:01:29 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Rename users guide to user.pdf from guide.pdf to match the conventions 
we follow with the other files.

Corrected the description of Einstein convention from "convenient"
to "compact". 

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Revision 3342 - Directory Listing
Modified Tue Nov 9 03:41:58 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed interpolation for Line3Macro elements in weipa.

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Revision 3341 - Directory Listing
Modified Mon Nov 8 21:34:01 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Renamed MS options file.

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Revision 3340 - Directory Listing
Modified Mon Nov 8 01:25:58 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Relax python version check.
Only checks X.Y not X.Y.Z
Fixes mantis #556

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Revision 3339 - Directory Listing
Modified Fri Nov 5 05:30:31 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Fixed more package clashing problems.
Package install.pdf not install.tex
Changed title on most documents to esys-Escript except for the cookbook coz I like ti that way.

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Revision 3338 - Directory Listing
Modified Fri Nov 5 03:50:51 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Remove old name for man page to prevent clash with erlang.
Changed default library to link for boost to boost_python-mt

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Revision 3337 - Directory Listing
Modified Fri Nov 5 03:20:19 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Work around weird scons behaviour

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Revision 3336 - Directory Listing
Modified Fri Nov 5 00:28:44 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Fixed bib entry

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Revision 3335 - Directory Listing
Modified Wed Nov 3 05:02:57 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Fix the launcher so that it can give an environment even if buildvars is not present.
Environment now includes scons for standalone builds.
Fixes and cleanup for the install documentation.
scons TEMPLATES updated to define the optionfile version by default.

...mumble
   finley no longer imports escript into the default namespace
...

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Revision 3334 - Directory Listing
Modified Wed Nov 3 00:46:56 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Added 3.2 to changes page

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Revision 3333 - Directory Listing
Modified Mon Nov 1 06:08:05 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Updated lapack paths on guineapig.

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Revision 3332 - Directory Listing
Modified Mon Nov 1 05:26:55 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Copy run-escript over for a prefix install.
Fixes mantis issue: 551

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Revision 3331 - Directory Listing
Modified Mon Nov 1 05:21:18 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Appendix done. Fixed some overfull hboxes.

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Revision 3330 - Directory Listing
Modified Mon Nov 1 04:29:09 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Finished user's guide chapters up to Appendix.

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Revision 3329 - Directory Listing
Modified Fri Oct 29 05:55:55 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Faultsystems2d. not finished yet.

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Revision 3328 - Directory Listing
Modified Fri Oct 29 02:21:42 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Fixed script filename

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Revision 3327 - Directory Listing
Modified Fri Oct 29 02:08:37 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

missing omp function added.

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Revision 3326 - Directory Listing
Modified Fri Oct 29 00:45:32 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

6.2 Darcy Flux. Note that I commented the gravity flow subsection since it's
not written.

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Revision 3325 - Directory Listing
Modified Fri Oct 29 00:30:51 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Section 6.1.

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Revision 3324 - Directory Listing
Modified Thu Oct 28 23:43:09 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Finished pycad chapter 5, regenerated eps files

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Revision 3323 - Directory Listing
Modified Thu Oct 28 09:53:46 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

some openmp fizes.

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Revision 3322 - Directory Listing
Modified Thu Oct 28 05:26:37 2010 UTC (10 years, 2 months ago) by jfenwick
Original Path: trunk

Adapt install guide to new style.
Simplify package building scripts to autodetect necessary info and build control file automatically.

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Revision 3321 - Directory Listing
Modified Thu Oct 28 05:02:41 2010 UTC (10 years, 2 months ago) by gross
Original Path: trunk

a problem with surface orientation fixed.

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Revision 3320 - Directory Listing
Modified Thu Oct 28 03:29:51 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

This fixes the scons warning about not finding the Intel top dir on Savanna.

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Revision 3319 - Directory Listing
Modified Thu Oct 28 03:14:27 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

export PATH to scons when creating environment so tools in non-default
locations such as latex on savanna are found.

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Revision 3318 - Directory Listing
Modified Thu Oct 28 01:05:36 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

This should fix building paso without OpenMP.

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Revision 3317 - Directory Listing
Modified Thu Oct 28 00:50:41 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Removed bogus mpi.h includes, replaced others by our esysUtils wrapper
and rearranged so that the wrapper always comes before netcdf which fixes
linking problems when disabling mpi on systems with netCDF 4.x.

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Revision 3316 - Directory Listing
Modified Wed Oct 27 01:43:21 2010 UTC (10 years, 2 months ago) by caltinay
Original Path: trunk

Finished Chapter 4, added missing bibliography entries for Trilinos and SuperLU