a60c042 | Michael Gurnis | 29 January 2007, 20:46:28 UTC | Changed the seequence placement in the time step when the age grids are assimilated into the temperature field. Previously, going back to the original code contributed by CC, the assimilation occurred avery time the temperature BCs were set (meaning multiple times in a PC loop). Now assimilation happens only once at the end of the time step. This is placed at the end of the routine PG_time_step_solve. Once we have worked with this some more, we will want to expose this code at a higher level so that assimulation will work properly from either plain C code or the Pyre version. Currently only tested with Full. | 29 January 2007, 20:46:28 UTC |
d9e66bf | Michael Gurnis | 29 January 2007, 20:37:00 UTC | A minor change so that restart now works properly when lith_age=1. Now restart from old temperature fields appear to work without any obvious corruption of the Temp field. Only tested with Full. | 29 January 2007, 20:37:00 UTC |
55cca22 | Michael Gurnis | 29 January 2007, 20:32:27 UTC | Small change for rheol=5 to use harmonic mean when element materials are read in. Also, this involved a minor conflict resolution with Eh s recent change to this file | 29 January 2007, 20:32:27 UTC |
fe3fb9f | Eh Tan | 26 January 2007, 21:32:04 UTC | Write controller inventory to pid file. This is a heck! | 26 January 2007, 21:32:04 UTC |
38bdaf9 | Eh Tan | 25 January 2007, 23:30:49 UTC | Compute the velocity in Cartesian coord on the fly. The previous code computed and stored the Cartesian velocity in E->temp in v_from_vector() and accessed E->temp in velo_from_element. This is bug prone. E->temp is a temporary array and should be used for storage. Also, in previous code, if E->sphere.cap[m].V is modified, one has to recompute E->temp. Otherwise, the Cartesian velocity will be incorrect. | 25 January 2007, 23:30:49 UTC |
8734680 | Eh Tan | 25 January 2007, 01:38:10 UTC | Get rid of static variables | 25 January 2007, 01:38:10 UTC |
3cf8bd1 | Eh Tan | 25 January 2007, 00:57:21 UTC | Refactoring various functions to simplify their pyre counterpart | 25 January 2007, 00:57:21 UTC |
f727da9 | Eh Tan | 17 January 2007, 20:02:37 UTC | Fixed a bug in locating elements right above tracers | 17 January 2007, 20:02:37 UTC |
495961c | Eh Tan | 17 January 2007, 01:54:39 UTC | Replaced 'exit(0)' with correct MPI exit, related to issue69 | 17 January 2007, 01:54:39 UTC |
ccfc46d | Eh Tan | 16 January 2007, 20:37:14 UTC | Fixed issue77 - velocity b.c not scaled correctly when age becomes negative | 16 January 2007, 20:37:14 UTC |
2ca42ed | Eh Tan | 16 January 2007, 19:49:51 UTC | Read input parameter 'half_space_age' when tic_method=1 | 16 January 2007, 19:49:51 UTC |
efe5b97 | Eh Tan | 16 January 2007, 18:50:16 UTC | Fixed incorrect prototype | 16 January 2007, 18:50:16 UTC |
cada3c8 | Eh Tan | 16 January 2007, 18:43:28 UTC | When "tic_method=1", the temperature is isothermal (== bottom b.c.) with a uniformly cold plate (thickness specified by 'half_space_age') | 16 January 2007, 18:43:28 UTC |
02def5d | Eh Tan | 16 January 2007, 17:41:55 UTC | Tracer-defined rheology -- low viscosity channel/wedge | 16 January 2007, 17:41:55 UTC |
3aef1cf | Eh Tan | 15 January 2007, 21:42:04 UTC | Added regional (passive) tracers | 15 January 2007, 21:42:04 UTC |
e7950e5 | Eh Tan | 09 January 2007, 21:11:58 UTC | Fix for time-invariant velocity boundary conditions, issue75 | 09 January 2007, 21:11:58 UTC |
1be8307 | Eh Tan | 08 January 2007, 23:09:47 UTC | Another document fix for issue75, related to "how to specify time-invariant velocity boundary conditions?" | 08 January 2007, 23:09:47 UTC |
0bfa938 | Eh Tan | 08 January 2007, 22:19:35 UTC | 1. Fixed a reference error, "Section 1.6" should be "Equation 1.6" 2. Velocity BC input and geoid output are dimensional. The units were undocumented in previous release. This fix the issue75. 3. More information about geoid output: the meaning of each column and how to compute the geoid field. | 08 January 2007, 22:19:35 UTC |
8fb120b | Eh Tan | 08 January 2007, 22:19:14 UTC | Truncate the temperature grd file at specified min/max Sometimes the temperature field has overshoot/undershoot, which would be leave a blank area in the contour plot. This is a simple workaround. | 08 January 2007, 22:19:14 UTC |
bf5e730 | Eh Tan | 05 January 2007, 22:33:03 UTC | Fix for issue73 "problems with autocombine.py in single workstation mode" $HOSTNAME is not defined in the non-interactive shell in Ubuntu 6.10. Need to put a quote around it. | 05 January 2007, 22:33:03 UTC |
7d3ef92 | Leif Strand | 05 January 2007, 00:06:11 UTC | Fix for issue72: "'make install' broken for non-pyred CitcomS". | 05 January 2007, 00:06:11 UTC |
9b67fc5 | Sue Kientz | 20 December 2006, 22:13:44 UTC | added note about updating to 2.10.3 | 20 December 2006, 22:13:44 UTC |
0b9c4d2 | Eh Tan | 09 December 2006, 00:26:38 UTC | Regenerated ChangeLog upto r5565 | 09 December 2006, 00:26:38 UTC |
545c4df | Sue Kientz | 09 December 2006, 00:22:28 UTC | gurnis final changes; image resize; ready for release | 09 December 2006, 00:22:28 UTC |
47bdc2d | Sue Kientz | 08 December 2006, 23:50:10 UTC | small text changes; image resize | 08 December 2006, 23:50:10 UTC |
7da60aa | Eh Tan | 08 December 2006, 23:45:26 UTC | Added "created by OpenDX" on several figure captions | 08 December 2006, 23:45:26 UTC |
03df21a | Eh Tan | 08 December 2006, 23:36:57 UTC | Updated MayaVi2 section | 08 December 2006, 23:36:57 UTC |
8f5c823 | Eh Tan | 08 December 2006, 23:30:39 UTC | Renamed the MayaVi launching script and move it to visual/ | 08 December 2006, 23:30:39 UTC |
dd70690 | Eh Tan | 08 December 2006, 23:26:02 UTC | Added executable bit to file permission | 08 December 2006, 23:26:02 UTC |
742ed51 | Luis Armendariz | 08 December 2006, 22:44:00 UTC | Add plugins for MayaVi2 to installation | 08 December 2006, 22:44:00 UTC |
92235c0 | Luis Armendariz | 08 December 2006, 22:27:26 UTC | Added README files | 08 December 2006, 22:27:26 UTC |
c60971f | Sue Kientz | 08 December 2006, 22:00:21 UTC | fixed image size, text size and other small text changes | 08 December 2006, 22:00:21 UTC |
8c92de8 | Luis Armendariz | 08 December 2006, 21:16:47 UTC | Removing reduce filter from comments, as it is currently obsolete. | 08 December 2006, 21:16:47 UTC |
4511a3d | Luis Armendariz | 08 December 2006, 21:15:17 UTC | Added MayaVi screenshot to manual, along with a couple of other fixes. | 08 December 2006, 21:15:17 UTC |
13061f6 | Luis Armendariz | 08 December 2006, 20:03:11 UTC | Last set of patches to citcoms_plugins * Display filename in mayavi pipeline * Changed glob pattern so that only HDF5 timestep files can be selected | 08 December 2006, 20:03:11 UTC |
af17846 | Luis Armendariz | 08 December 2006, 19:47:43 UTC | Forgot to rename data filters. | 08 December 2006, 19:47:43 UTC |
de6f70d | Luis Armendariz | 08 December 2006, 17:53:20 UTC | Added MayaVi2 screenshot for the manual. | 08 December 2006, 17:53:20 UTC |
75bb12b | Luis Armendariz | 08 December 2006, 17:44:47 UTC | Various patches. | 08 December 2006, 17:44:47 UTC |
b3423fa | Luis Armendariz | 08 December 2006, 17:40:08 UTC | Forking original plugins | 08 December 2006, 17:40:08 UTC |
9c83a26 | Luis Armendariz | 08 December 2006, 17:32:25 UTC | Archiving original plugins. | 08 December 2006, 17:32:25 UTC |
42b3b3e | Luis Armendariz | 08 December 2006, 17:31:25 UTC | Modify plugins directory | 08 December 2006, 17:31:25 UTC |
3c488f3 | Luis Armendariz | 08 December 2006, 17:29:46 UTC | Explain contents of each directory. | 08 December 2006, 17:29:46 UTC |
849cea5 | Leif Strand | 08 December 2006, 02:29:09 UTC | Made 'install_deps' actually do what 'configure' says it's doing (*missing* deps, not *all*). | 08 December 2006, 02:29:09 UTC |
8465d3f | Sue Kientz | 07 December 2006, 23:26:14 UTC | reinstated a few lost changes; changed caption position on fig 5.3 on request; enlarged fig 5.4; regen pdf | 07 December 2006, 23:26:14 UTC |
79a8733 | Eh Tan | 07 December 2006, 22:34:26 UTC | chapter 5 * Added MayaVi2 in the introduction * Added links to MayaVi2 installation | 07 December 2006, 22:34:26 UTC |
6e256a7 | Sue Kientz | 07 December 2006, 22:19:37 UTC | fixed image size; regen pdf | 07 December 2006, 22:19:37 UTC |
e7c2ea3 | Sue Kientz | 07 December 2006, 22:09:17 UTC | text fixes to recent additions | 07 December 2006, 22:09:17 UTC |
b7662aa | Eh Tan | 07 December 2006, 21:30:53 UTC | * Put back the HDFView sections * Added a screenshot of HDFView * Added a warning on "-O3" compiler flag | 07 December 2006, 21:30:53 UTC |
7bf8a4b | Sue Kientz | 07 December 2006, 05:03:23 UTC | text edits to appendices and bib | 07 December 2006, 05:03:23 UTC |
cf68821 | Sue Kientz | 07 December 2006, 00:12:17 UTC | small changes to chapt 6; standardized cross refference style; sstandardized code spacing | 07 December 2006, 00:12:17 UTC |
8910ace | Sue Kientz | 06 December 2006, 23:31:57 UTC | enumerating several sections of the instructions in chap 5 for clarity, and a few minor text fixes | 06 December 2006, 23:31:57 UTC |
cd4ffb9 | Sue Kientz | 06 December 2006, 20:59:49 UTC | a few text fixes in chapter 3 | 06 December 2006, 20:59:49 UTC |
bb3c41c | Sue Kientz | 06 December 2006, 20:33:12 UTC | a few text fixes, preface to end of chapt 2 | 06 December 2006, 20:33:12 UTC |
6f35a8c | Sue Kientz | 06 December 2006, 18:59:56 UTC | gurnis corrections and some other fixes | 06 December 2006, 18:59:56 UTC |
8cee12e | Luis Armendariz | 06 December 2006, 08:52:50 UTC | Temporarily removing Mayavi2 files from Makefile.am | 06 December 2006, 08:52:50 UTC |
3c51bb9 | Luis Armendariz | 06 December 2006, 08:23:54 UTC | Archive files created during Martin Weier's internship | 06 December 2006, 08:23:54 UTC |
bb9bfc7 | Luis Armendariz | 06 December 2006, 08:16:37 UTC | Reorganized structure of the Mayavi2 plugin modules | 06 December 2006, 08:16:37 UTC |
0dce83c | Luis Armendariz | 06 December 2006, 08:13:00 UTC | Simplified the file that will be be copied to user's ~/.mayavi2 directory. | 06 December 2006, 08:13:00 UTC |
845881d | Luis Armendariz | 06 December 2006, 06:55:03 UTC | Group all CitcomS options under a single menu group. | 06 December 2006, 06:55:03 UTC |
d7337ee | Luis Armendariz | 06 December 2006, 05:58:52 UTC | Quick fixes to manual. | 06 December 2006, 05:58:52 UTC |
1797b61 | Leif Strand | 06 December 2006, 01:08:58 UTC | Adding missing files to tarball ("make dist"), including the 'Mayavi2' directory, which is now installed under share/CitcomS. Also deleted 'Regionalmodule.c', which is no longer used. | 06 December 2006, 01:08:58 UTC |
57aeaf3 | Sue Kientz | 06 December 2006, 00:49:49 UTC | small changes in one image caption and in citation | 06 December 2006, 00:49:49 UTC |
f0944ca | Leif Strand | 06 December 2006, 00:42:34 UTC | Fix for eggs not being installed by "make install" when builddir == srcdir. This change also re-fixes the setup.py infinite regress in a cleaner way. | 06 December 2006, 00:42:34 UTC |
ab08284 | Luis Armendariz | 06 December 2006, 00:18:47 UTC | Added actions for ReduceFilter and ShowCapsFilter | 06 December 2006, 00:18:47 UTC |
59f42cb | Leif Strand | 05 December 2006, 23:13:27 UTC | Require final release version of Pythia. Include egg-related files in release tarball ("make dist"). | 05 December 2006, 23:13:27 UTC |
f17e43c | Sue Kientz | 05 December 2006, 20:46:57 UTC | edited text and images placement in 5.8 | 05 December 2006, 20:46:57 UTC |
770fe7c | Sue Kientz | 05 December 2006, 20:34:19 UTC | slghtly widened l. col in appendix a tables as using typewriter widened lines; fixed other formatting issues in appendices | 05 December 2006, 20:34:19 UTC |
9e69630 | Sue Kientz | 05 December 2006, 20:11:44 UTC | changing font style to typewriter small in appendix a tablesi and a few typos | 05 December 2006, 20:11:44 UTC |
8b31f43 | Sue Kientz | 05 December 2006, 19:19:02 UTC | small fixes to chap 4, text and table placement | 05 December 2006, 19:19:02 UTC |
e8ab235 | Sue Kientz | 05 December 2006, 18:04:11 UTC | making use of typewriter font and quotes consistent in appendix a | 05 December 2006, 18:04:11 UTC |
8ea8984 | Eh Tan | 05 December 2006, 07:09:01 UTC | Updated Chapter 4 | 05 December 2006, 07:09:01 UTC |
ea21745 | Eh Tan | 05 December 2006, 06:17:15 UTC | Example h5 files including all optional output | 05 December 2006, 06:17:15 UTC |
66962d1 | Eh Tan | 05 December 2006, 06:14:50 UTC | Forgot to update the makefile | 05 December 2006, 06:14:50 UTC |
35521dd | Eh Tan | 05 December 2006, 05:04:14 UTC | Removed sections about HDFView. HDFView by default displays the dataset in a 2D table, which can be very confusing when working on multidimensional dataset. "h5ls -r" is a better tool for discovering the group structure and dataset dimension. | 05 December 2006, 05:04:14 UTC |
e8a02da | Eh Tan | 05 December 2006, 04:19:42 UTC | * Renamed estimate.py to estimate_size.py * Added license text * Update for new HDF5 layout | 05 December 2006, 04:19:42 UTC |
318477c | Luis Armendariz | 05 December 2006, 00:46:40 UTC | Changed code in A.1.1 and A.1.2 to use small font with typewriter style. | 05 December 2006, 00:46:40 UTC |
ee84bec | Eh Tan | 05 December 2006, 00:40:12 UTC | Mentioned change of naming scheme for capfiles in NEWS | 05 December 2006, 00:40:12 UTC |
ad9f299 | Sue Kientz | 05 December 2006, 00:31:25 UTC | fixed quotes; added degree symbols as requested | 05 December 2006, 00:31:25 UTC |
0c3e62b | Eh Tan | 05 December 2006, 00:14:58 UTC | Finished the GMT script section | 05 December 2006, 00:14:58 UTC |
c4f1afa | Eh Tan | 04 December 2006, 23:47:57 UTC | Renamed "center" to "starting point" | 04 December 2006, 23:47:57 UTC |
90487f5 | Sue Kientz | 04 December 2006, 22:42:59 UTC | minor sentence/word form changes in 5.1 and 5.2 | 04 December 2006, 22:42:59 UTC |
b3365ac | Sue Kientz | 04 December 2006, 22:33:47 UTC | reformatted column names in c.4.9 | 04 December 2006, 22:33:47 UTC |
f4f3bca | Eh Tan | 04 December 2006, 22:19:15 UTC | Revised Chapter 5 and Appendix A * Minor revision of post-processing * Update OpenDX section for new HDF5 layout * Briefly mentioned GMT scripts (unfinished) * Described new viscosity laws * Using Greek letter eta in the viscosity equations | 04 December 2006, 22:19:15 UTC |
2457cf3 | Sue Kientz | 04 December 2006, 20:33:20 UTC | fixed more quotes, fixed table breaks, lines in table missing, other minor format problems | 04 December 2006, 20:33:20 UTC |
1daa462 | Luis Armendariz | 04 December 2006, 19:48:19 UTC | Added OpenHDF5 and OpenVTK actions for mayavi2 | 04 December 2006, 19:48:19 UTC |
a7c9af3 | Luis Armendariz | 04 December 2006, 17:24:39 UTC | Fixes to manual | 04 December 2006, 17:24:39 UTC |
d0d65c0 | Luis Armendariz | 04 December 2006, 17:24:24 UTC | Fixed typos | 04 December 2006, 17:24:24 UTC |
192f787 | Luis Armendariz | 04 December 2006, 16:54:12 UTC | Added vim modeline | 04 December 2006, 16:54:12 UTC |
02556dd | Luis Armendariz | 04 December 2006, 14:21:20 UTC | Mayavi2 UI customizations | 04 December 2006, 14:21:20 UTC |
7fcb642 | Luis Armendariz | 04 December 2006, 14:11:12 UTC | Added python module namespace for the citcoms mayavi2 plugins | 04 December 2006, 14:11:12 UTC |
586ea34 | Luis Armendariz | 04 December 2006, 13:43:01 UTC | Removed executable permissions | 04 December 2006, 13:43:01 UTC |
33b38bf | Eh Tan | 02 December 2006, 07:41:50 UTC | Update for new HDF5 layout | 02 December 2006, 07:41:50 UTC |
a822c42 | Eh Tan | 02 December 2006, 07:14:16 UTC | * Removed obsolete parameters * Added new parameters * Only one "parameter=value" per line | 02 December 2006, 07:14:16 UTC |
59540cb | Eh Tan | 02 December 2006, 06:04:50 UTC | Updated for new HDF5 layout | 02 December 2006, 06:04:50 UTC |
409e719 | Eh Tan | 02 December 2006, 06:04:05 UTC | Minor tweaks | 02 December 2006, 06:04:05 UTC |
737d6d7 | Eh Tan | 02 December 2006, 04:43:50 UTC | Moved utility functions to h5util.c | 02 December 2006, 04:43:50 UTC |
c9f5f73 | Eh Tan | 02 December 2006, 04:15:26 UTC | Fixed a bug of counting argc | 02 December 2006, 04:15:26 UTC |
95de6c6 | Eh Tan | 02 December 2006, 00:57:22 UTC | Added more rheology options, which is required for benchmarks rheol=1: visc = visc0 * exp(viscE * (viscT - T)) rheol=2: visc = visc0 * exp(-T / viscT) | 02 December 2006, 00:57:22 UTC |
9dc129b | Eh Tan | 02 December 2006, 00:38:50 UTC | Updated h5tocap.py for new layout of HDF5 files | 02 December 2006, 00:38:50 UTC |
d5da530 | Eh Tan | 02 December 2006, 00:03:01 UTC | Added a program to convert h5 file to velo files for restart | 02 December 2006, 00:03:01 UTC |