55a6bec | Eh Tan | 25 April 2007, 20:17:19 UTC | Append timestep to the checkpoint filename. Write/read timing information correctly. | 25 April 2007, 20:17:19 UTC |
6962d60 | Eh Tan | 25 April 2007, 19:30:44 UTC | Clean up the old way of tracers/composition restart. Setting solver.ic.restart=on won't read the *.tracer.* and *.comp_el.* files anymore. Setting solver.tracer.ic_method=2 will read the old *.tracer.* files as before, but the composition field will be calculated according to the tracers, not read from the *.comp_el.* files. The parameter solver.tracer.reset_initial_composition becomes obsolete. | 25 April 2007, 19:30:44 UTC |
12e75b9 | Eh Tan | 25 April 2007, 19:03:00 UTC | Fixed a bug in tracer setup | 25 April 2007, 19:03:00 UTC |
f8acab5 | Eh Tan | 24 April 2007, 22:16:50 UTC | Implemented writing and reading (binary) checkpoints. The checkpoint file is called [datafile].chkpt.[rank] and is outputed with an interval of controller.checkpointFrequency. Before writing the checkpoint file, the previous checkpoint file (if exists) is renamed to [datafile].chkpt.[rank].bak. To read back the checkpoint file, set solver.ic.restart=on. The old checkpoint file, [datafile_old].chkpt.[rank] will be read in. The timestep information is stored in the checkpoint file. There is no need to specify solution_cycles_init, as the old way of restarting. The old way of restarting (read in temperature from the velo files) will still be available through solver.ic.tic_method=-1. (To do.) Several things to do: clean up the old way of restarting tracers/composition, documentation, does mat_control need checkpoints? | 24 April 2007, 22:16:50 UTC |
7867dae | Eh Tan | 16 April 2007, 22:38:30 UTC | Compute adiabatic cooling correctly. Assuming gravity is constant. Slightly modified viscous heating computation to improve the efficiency. | 16 April 2007, 22:38:30 UTC |
1c88d2f | Eh Tan | 16 April 2007, 22:37:27 UTC | Compute Tmass matrix with density (missing heat capacity) | 16 April 2007, 22:37:27 UTC |
17ff14a | Eh Tan | 16 April 2007, 22:36:30 UTC | Fixed a typo | 16 April 2007, 22:36:30 UTC |
fccccc5 | Eh Tan | 16 April 2007, 22:35:39 UTC | Removed some unused variables in global_defs.h | 16 April 2007, 22:35:39 UTC |
93687ef | Eh Tan | 16 April 2007, 22:34:53 UTC | Added indentation and comments to mass_matrix() | 16 April 2007, 22:34:53 UTC |
a34172d | Eh Tan | 10 April 2007, 23:43:47 UTC | Merging r6541-r6542 from trunk | 10 April 2007, 23:43:47 UTC |
de3d198 | Eh Tan | 06 April 2007, 23:07:02 UTC | Merging r6041 to r6510 from trunk | 06 April 2007, 23:07:02 UTC |
0fb9bb0 | Eh Tan | 06 April 2007, 23:00:39 UTC | Merging r6365 from trunk | 06 April 2007, 23:00:39 UTC |
0753462 | Eh Tan | 06 April 2007, 22:57:44 UTC | Merging r6364 from trunk | 06 April 2007, 22:57:44 UTC |
7bc7173 | Eh Tan | 08 February 2007, 00:19:05 UTC | Porting r5956 to r5980 from trunk | 08 February 2007, 00:19:05 UTC |
494622d | Eh Tan | 02 February 2007, 20:32:09 UTC | Porting r5952 from trunk | 02 February 2007, 20:32:09 UTC |
9d9a7dd | Eh Tan | 31 January 2007, 20:58:23 UTC | Fixed two bugs in heating | 31 January 2007, 20:58:23 UTC |
134d38a | Eh Tan | 31 January 2007, 20:50:30 UTC | Porting r5942 from trunk | 31 January 2007, 20:50:30 UTC |
3581735 | Eh Tan | 30 January 2007, 21:32:04 UTC | Porting r5930-5935 from trunk | 30 January 2007, 21:32:04 UTC |
2008acc | Eh Tan | 30 January 2007, 19:10:00 UTC | Porting r5921-5928 from trunk | 30 January 2007, 19:10:00 UTC |
0504ed7 | Eh Tan | 30 January 2007, 02:07:30 UTC | First cut on computing adibatic/viscous/latent heating. Most of the code is copied from CitcomCU r2546 and refactored later. It is not tested yet. | 30 January 2007, 02:07:30 UTC |
60884b1 | Eh Tan | 25 January 2007, 23:41:54 UTC | Renamed the input parameter for dissipation number to be consistent with CitcomCU | 25 January 2007, 23:41:54 UTC |
b5cdfc8 | Eh Tan | 25 January 2007, 23:41:15 UTC | Porting r5896 from trunk | 25 January 2007, 23:41:15 UTC |
5a6a5be | Eh Tan | 25 January 2007, 01:45:20 UTC | Porting r5886-5887 from trunk | 25 January 2007, 01:45:20 UTC |
fa6fd60 | Eh Tan | 24 January 2007, 02:17:10 UTC | Removed unused functions and struct members | 24 January 2007, 02:17:10 UTC |
a8c708a | Eh Tan | 24 January 2007, 01:10:13 UTC | Fixed a bug when computing pressure correction. Using full spherical solver, Di=0, init T perturbation (l,m)=(3,2), and default values for other parameters, the differences in CG and BiCGstab solvers are 0.5% in velocity and stress, 0.2% in pressure. | 24 January 2007, 01:10:13 UTC |
a8b86a8 | Eh Tan | 19 January 2007, 20:14:41 UTC | Porting r5744-5837 from trunk | 19 January 2007, 20:14:41 UTC |
678a6a7 | Eh Tan | 19 January 2007, 00:14:37 UTC | BiCGStab algorithm for TALA Stokes solver Compared with the CG algorithm solver, the velocity differs by ~0.1% but the stress is way wrong. | 19 January 2007, 00:14:37 UTC |
7d3eb44 | Eh Tan | 19 January 2007, 00:10:53 UTC | Refactoring Stokes solver | 19 January 2007, 00:10:53 UTC |
b519e61 | Eh Tan | 12 January 2007, 00:06:11 UTC | Cleaned up, beautified and added some comments | 12 January 2007, 00:06:11 UTC |
d9a2d84 | Eh Tan | 11 January 2007, 21:01:06 UTC | 1. Stored the Gruneisen parameter in its inverse 2. Calculated reference state 3. Removed contribution of ref. temperature from buoyancy | 11 January 2007, 21:01:06 UTC |
e66e0c6 | Eh Tan | 10 January 2007, 22:01:50 UTC | Taking variable density field into the calculation of thermal buoyancy | 10 January 2007, 22:01:50 UTC |
ccd7d8c | Eh Tan | 10 January 2007, 21:59:32 UTC | Minor refactoring | 10 January 2007, 21:59:32 UTC |
419bb1f | Eh Tan | 09 January 2007, 22:20:08 UTC | 1. Added two non-dimensional number: dissipation # and gruneisen parameter 2. Modified stiffness matrix for TALA 3. Modified stress calculation for TALA | 09 January 2007, 22:20:08 UTC |
3f8a9fe | Eh Tan | 09 January 2007, 22:01:20 UTC | Porting r5743 from trunk to branch | 09 January 2007, 22:01:20 UTC |
509fb47 | Eh Tan | 09 January 2007, 20:04:02 UTC | Branch for compressible (Truncated Anelastic Liquid Approximation) convection | 09 January 2007, 20:04:02 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 |