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https://github.com/geodynamics/citcoms
03 June 2022, 13:19:55 UTC
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Revision Author Date Message Commit Date
1ae2dff Eh Tan 06 October 2006, 17:17:18 UTC Some minor edits 06 October 2006, 17:17:18 UTC
7394a1a Eh Tan 05 October 2006, 20:07:32 UTC Using 2-digit number for the cap filename, eg. prefix.cap00.step 05 October 2006, 20:07:32 UTC
4adbd5f Eh Tan 05 October 2006, 00:38:05 UTC Updated macros to use new samples files and fixed a few stylus issues 05 October 2006, 00:38:05 UTC
a43e1c9 Eh Tan 05 October 2006, 00:15:53 UTC Rearranged file list 05 October 2006, 00:15:53 UTC
c57c41c Eh Tan 05 October 2006, 00:15:03 UTC Updated file list 05 October 2006, 00:15:03 UTC
eb56b58 Eh Tan 05 October 2006, 00:04:43 UTC Replaced sample files at 0th time step with sample files at 100th time step, which have more interesting features in the visualization, 05 October 2006, 00:04:43 UTC
dec5cc0 Eh Tan 04 October 2006, 18:34:45 UTC * Removed some unnecessary parameters * Changed the layout slightly * Updated the cookbook scripts to be consistent with the manual 04 October 2006, 18:34:45 UTC
4803b77 Eh Tan 04 October 2006, 18:32:04 UTC Updated the Cookbook chapter 04 October 2006, 18:32:04 UTC
e7d317f Eh Tan 04 October 2006, 18:24:10 UTC Removed unused figures 04 October 2006, 18:24:10 UTC
32797c1 Eh Tan 04 October 2006, 01:56:32 UTC Renamed file to be consistent with the manual 04 October 2006, 01:56:32 UTC
9512254 Eh Tan 04 October 2006, 01:54:28 UTC Renamed directory to be consistent with the manual 04 October 2006, 01:54:28 UTC
ab8b6c4 Eh Tan 02 October 2006, 22:46:19 UTC Using default Rayleigh number, which is stated in the manual. Also updated the comment to be consistent with the manual. 02 October 2006, 22:46:19 UTC
3753e94 Eh Tan 02 October 2006, 22:43:45 UTC Slightly updated postprocessing chapter. Revised Cookbook 1. 02 October 2006, 22:43:45 UTC
5e5597c Eh Tan 30 September 2006, 00:56:33 UTC Updated Chapter 3 "Running CitComS.py" for the .cfg input format, also explained how to launch a parallel job. Some TODO items left. 30 September 2006, 00:56:33 UTC
4e33dfd Michael Gurnis 29 September 2006, 23:14:31 UTC Fixed age bug in Regional. In Regional_lith_age_read_files.c, find_age_in_MY() was not being converted to a float 29 September 2006, 23:14:31 UTC
0acc5c3 Sue Kientz 29 September 2006, 21:50:21 UTC updated version on pdf cover and added pdf layered file 29 September 2006, 21:50:21 UTC
78036ea Luis Armendariz 28 September 2006, 14:56:04 UTC 1. Added a cap dimension for efficient parallel I/O 2. Bulk of data write operations now done in collective mode. 4. Passing various parallel I/O tuning parameters to HDF5 and MPI-IO. 5. Consolidated all data buffers into one (only largest size allocated). 28 September 2006, 14:56:04 UTC
3009045 Luis Armendariz 28 September 2006, 14:30:32 UTC Fixed typo in names 28 September 2006, 14:30:32 UTC
45534b2 Eh Tan 27 September 2006, 23:33:15 UTC * Removed debugging output * Added svn:keywords and svn:mime-type attributes 27 September 2006, 23:33:15 UTC
a422171 Leif Strand 27 September 2006, 20:37:35 UTC Relaxed setuptools version requirement to 0.6b1. 27 September 2006, 20:37:35 UTC
c4c57a3 Eh Tan 27 September 2006, 00:24:45 UTC * Created new component 'Output.py' for storing output-related properties * Added several input parameters for HDF5 output performance tuning * Moved 'output_format' and 'output_optional' form Solver.py to Output.py 27 September 2006, 00:24:45 UTC
738492c Luis Armendariz 26 September 2006, 12:20:08 UTC Fixed broken 'make dist' 26 September 2006, 12:20:08 UTC
12d4521 Leif Strand 26 September 2006, 01:09:16 UTC Made 'Exchanger' optional. Give "--with-exchanger=[yes|no]" as an argument to 'configure' to manually specify whether you want Exchanger; the default is "auto", which means to use Exchanger if it's installed (and on your PYTHONPATH). Egg-ified 'configure' checks for Python packages. This means that CitcomS now requires the egg-ified CIG version of Pythia -- and (optionally) the egg-ified Exchanger. Old Pythia/Exchanger installations will not work, as they lack the egg-metadata ('configure' will act as if they are not installed). Added 'setup.py', which will automatically download and install the egg version of Pythia -- as well as the egg system itself ('setuptools'). If you want Exchanger, you still must install it manually (the way C++ is used prevents complete egg-ification of Exchanger). Note that 'setup.py' actually checks-out the latest Pythia from the SVN repository. The release version of CitcomS will download a packaged Pythia from the website instead. 26 September 2006, 01:09:16 UTC
5d463b3 Eh Tan 25 September 2006, 19:13:26 UTC Disabled material output, since material control is not working (yet) 25 September 2006, 19:13:26 UTC
373b819 Eh Tan 24 September 2006, 07:28:19 UTC Added new input parameter 'datadir_old' in CitcomS.solver. If output_format=ascii and restart=1, the restart files will be read from ${datadir_old}/${rank}/${datafile_old}.velo.${rank}.${step}. In this case, 'datafile_old' cannot contain '/'. See issue56. 24 September 2006, 07:28:19 UTC
5c1c7aa Eh Tan 22 September 2006, 23:26:49 UTC Write surf and botm output by default (but can be disabled by setting output_optional=''), which is compatible with v2.0.x. 22 September 2006, 23:26:49 UTC
07ed10c Eh Tan 22 September 2006, 22:58:02 UTC Removed debugging output 22 September 2006, 22:58:02 UTC
1fc1f3d Eh Tan 22 September 2006, 22:29:02 UTC * Fixed issue55 "surf files got deleted by batchsurf.py" * Refactored the codes on machinefile -> nodelist 22 September 2006, 22:29:02 UTC
88b387e Eh Tan 22 September 2006, 22:14:37 UTC These scripts accept 'localhost' as a valid machine name now 22 September 2006, 22:14:37 UTC
fa022de Luis Armendariz 22 September 2006, 22:01:30 UTC Bug fix: maxdims[0] is set to H5S_UNLIMITED in extendible datasets, so it should never be incremented. 22 September 2006, 22:01:30 UTC
bec9f15 Eh Tan 22 September 2006, 20:37:27 UTC Added 'Id' keyword to the files 22 September 2006, 20:37:27 UTC
b0699e3 Eh Tan 22 September 2006, 19:19:11 UTC Fixed two bugs in post-processing scripts 22 September 2006, 19:19:11 UTC
280c471 Eh Tan 21 September 2006, 23:03:16 UTC Updated post-processing script for new output_format options. See issue53. 21 September 2006, 23:03:16 UTC
6819d58 Luis Armendariz 21 September 2006, 21:25:44 UTC Allow for optional fields when extending datasets. 21 September 2006, 21:25:44 UTC
f57748f Eh Tan 21 September 2006, 21:17:46 UTC Refactored out the code computing horizontal average of temperature and rms velocity into a function. This fixes the bug in issue46. 21 September 2006, 21:17:46 UTC
3638975 Eh Tan 21 September 2006, 20:08:43 UTC Forgot to change the default value in C 21 September 2006, 20:08:43 UTC
ef5a5b2 Eh Tan 21 September 2006, 19:57:58 UTC Added new option for "output_format". The current behavior is: * If output_format=="ascii-local" (the default), CitcomS will write ascii files to the directory and prefix specified by "datafile", ie., the same behavior as in v2.0 * If output_format=="ascii", CitcomS will write ascii files to the directory specified by "datadir" with the prefix specified by "datafile". In the case, "datafile" cannot contains the '/' (path seperator) character. * If output_format=="hdf5", CitcomS will write singe HDf5 file to the directory and prefix specified by "datafile". 21 September 2006, 19:57:58 UTC
0257ab0 Eh Tan 21 September 2006, 17:51:16 UTC Parser will skip lines starting with '[', so that it can parse .cfg file correctly 21 September 2006, 17:51:16 UTC
3d0ae13 Eh Tan 21 September 2006, 17:49:19 UTC Removed quotes from output string 21 September 2006, 17:49:19 UTC
8edf9f0 Eh Tan 21 September 2006, 00:18:04 UTC Calculate the needed # of cpu according to mesher properties. There is no longer a need to set launcher.nodes. 21 September 2006, 00:18:04 UTC
74c2461 Eh Tan 20 September 2006, 22:51:34 UTC Added svn:keywprds = Id 20 September 2006, 22:51:34 UTC
b71b7d8 Eh Tan 20 September 2006, 20:47:31 UTC Sync'd h5output_meta() with setProperties 20 September 2006, 20:47:31 UTC
d305358 Eh Tan 20 September 2006, 20:45:39 UTC Fixed the comment 20 September 2006, 20:45:39 UTC
d76f2f5 Eh Tan 20 September 2006, 20:34:30 UTC Removed unused parameter 'maxadvtime' 20 September 2006, 20:34:30 UTC
3cec036 Eh Tan 20 September 2006, 20:30:27 UTC Print out all pyre properties to the pid file 20 September 2006, 20:30:27 UTC
14a42a8 Eh Tan 20 September 2006, 19:54:04 UTC Saving the input parameters to a unique file 'pidXXXXX.cfg' for archives. 20 September 2006, 19:54:04 UTC
4a607d4 Luis Armendariz 19 September 2006, 19:50:58 UTC Allocate tensor field buffer only when necessary. 19 September 2006, 19:50:58 UTC
6df64fd Eh Tan 19 September 2006, 18:44:17 UTC Since the opendx scripts have the macro path built in the file, there is no need to define $DXMACROS env. var. 19 September 2006, 18:44:17 UTC
0891519 Eh Tan 17 September 2006, 17:32:43 UTC * Added new input parameter 'datadir' in Solver * All outputs are done in 'datadir' directory * Processors write its own ascii output in 'datadir/rank' directory * Post-processing codes and cookbook examples were updated accordingly 17 September 2006, 17:32:43 UTC
97262aa Martin Weier 14 September 2006, 18:14:03 UTC added help on usage. 14 September 2006, 18:14:03 UTC
6c46dea Martin Weier 13 September 2006, 19:04:24 UTC Changed range trait. 13 September 2006, 19:04:24 UTC
15229cc Eh Tan 12 September 2006, 20:50:16 UTC Fixed the bug of negative CPU time, which is caused by storing the walltime in insufficient precision 12 September 2006, 20:50:16 UTC
e60fedb Martin Weier 11 September 2006, 17:25:43 UTC added latest version of file converter in c. 11 September 2006, 17:25:43 UTC
31ffc94 Martin Weier 11 September 2006, 17:24:29 UTC Updated licenses. 11 September 2006, 17:24:29 UTC
a9e6ba7 Martin Weier 11 September 2006, 17:23:11 UTC Update 11 September 2006, 17:23:11 UTC
91c4b29 Luis Armendariz 11 September 2006, 00:17:46 UTC 1. Added utility to extract steps from CitcomS HDF5 file. 2. Changed h5tocombined.c to h5tocap.c in copyright header. 11 September 2006, 00:17:46 UTC
4cbb737 Luis Armendariz 11 September 2006, 00:09:53 UTC When no frames are specified, print number of available frames. 11 September 2006, 00:09:53 UTC
1710fc0 Luis Armendariz 10 September 2006, 09:50:56 UTC 1. Added h5tocap to build procedure 2. Changed h5tocap to read frames from command-line (instead of steps) 10 September 2006, 09:50:56 UTC
fc0bd37 Luis Armendariz 10 September 2006, 07:36:21 UTC Moved connectivity dataset to root group. 10 September 2006, 07:36:21 UTC
5687edb Eh Tan 09 September 2006, 01:45:11 UTC * set --with-hdf5=auto as default, which will try to detect HDF5 library, if not found, HDF5 support will be disabled * Reported summary at the end of configure 09 September 2006, 01:45:11 UTC
ef69b49 Eh Tan 09 September 2006, 00:24:41 UTC Added $PHDF5_HOME env. variables for the home directory of parallel HDF5 lib 09 September 2006, 00:24:41 UTC
c401173 Eh Tan 08 September 2006, 20:59:16 UTC Forgot to rename file 08 September 2006, 20:59:16 UTC
b8c6e93 Luis Armendariz 08 September 2006, 20:27:42 UTC Changed name to h5tocap.c 08 September 2006, 20:27:42 UTC
ba0b406 Eh Tan 08 September 2006, 19:20:07 UTC Added a comment 08 September 2006, 19:20:07 UTC
be3be8b Eh Tan 08 September 2006, 19:18:21 UTC Reverted the accidental check-in at r4498 08 September 2006, 19:18:21 UTC
6d66fa7 Eh Tan 08 September 2006, 19:14:42 UTC Renamed the conversion script 08 September 2006, 19:14:42 UTC
8a70e4f Eh Tan 08 September 2006, 19:14:12 UTC * Using 'caps' attribute in the input group * frame -> timestep conversion * Cleaned up the code 08 September 2006, 19:14:12 UTC
8c8edf4 Luis Armendariz 08 September 2006, 15:53:55 UTC Removing unnecessary HDF5 attribute. 08 September 2006, 15:53:55 UTC
b54b035 Luis Armendariz 08 September 2006, 15:46:28 UTC Fix allocation of buffer for connectivity (done per cap, not globally). 08 September 2006, 15:46:28 UTC
8c1b1af Martin Weier 07 September 2006, 21:07:38 UTC Fixed connectivity issues. Fixed HdfDisplays wrong status output. 07 September 2006, 21:07:38 UTC
7d2f637 Martin Weier 06 September 2006, 22:33:30 UTC Got rid of the iterator to change the order. 06 September 2006, 22:33:30 UTC
7112cc3 Luis Armendariz 06 September 2006, 21:01:50 UTC Added function to retrieve float attributes from HDF5 file. 06 September 2006, 21:01:50 UTC
f5ba751 Eh Tan 06 September 2006, 20:18:19 UTC * Made CitcomSImportHDF5 accept NULL (default) input for the caplist * Added CitcomSImportHDF5 to the install list 06 September 2006, 20:18:19 UTC
ee9203e Eh Tan 06 September 2006, 19:06:02 UTC Forgot backslash (line continuation) after Solver/__init__.py. See issue48. 06 September 2006, 19:06:02 UTC
6e153d7 Eh Tan 06 September 2006, 18:39:06 UTC Added an dx macro to import HDF5 output, this module depends on the Cactus OpenDXutils project (http://www.cactuscode.org/Visualization/openDX) 06 September 2006, 18:39:06 UTC
52643a2 Martin Weier 06 September 2006, 16:41:58 UTC New C version of the Hdf to Vtk converter. 06 September 2006, 16:41:58 UTC
6378e69 Martin Weier 05 September 2006, 22:41:10 UTC Bugfixes and a new README on how to use the code. 05 September 2006, 22:41:10 UTC
db4cb66 Martin Weier 05 September 2006, 21:10:21 UTC Consistency 05 September 2006, 21:10:21 UTC
ea2c5ef Martin Weier 05 September 2006, 20:53:25 UTC Some minor bugfixes 05 September 2006, 20:53:25 UTC
360898f Martin Weier 05 September 2006, 20:49:51 UTC Rename for consistence. 05 September 2006, 20:49:51 UTC
12be5fe Luis Armendariz 02 September 2006, 10:11:53 UTC Added connectivity datasets (per cap) to HDF5 optional output. 02 September 2006, 10:11:53 UTC
3762fe2 Luis Armendariz 02 September 2006, 09:31:15 UTC Opened all available cap groups outside the main loop. 02 September 2006, 09:31:15 UTC
4161786 Martin Weier 31 August 2006, 23:06:36 UTC New folder structure. 31 August 2006, 23:06:36 UTC
1790c11 Martin Weier 31 August 2006, 23:05:04 UTC Complete update to new Folder structure. 31 August 2006, 23:05:04 UTC
b187f94 Luis Armendariz 31 August 2006, 14:56:29 UTC Added ability to output multiple timesteps (specified on command-line). 31 August 2006, 14:56:29 UTC
99c3faf Luis Armendariz 31 August 2006, 13:28:33 UTC 1. Cleaned up code in general. 2. Fixed bug in reading coord dataset (need to do it for each cap!). 31 August 2006, 13:28:33 UTC
4ddc2ba Martin Weier 29 August 2006, 23:44:53 UTC More stable versions. Some performance enhancements. 29 August 2006, 23:44:53 UTC
94d74f5 Martin Weier 28 August 2006, 23:19:35 UTC Deleting Bytecode Files 28 August 2006, 23:19:35 UTC
079b37c Martin Weier 28 August 2006, 23:17:45 UTC Files for Mayavi2 plugins 28 August 2006, 23:17:45 UTC
d325add Sue Kientz 28 August 2006, 21:20:33 UTC fixed man cover, removed pg no., fixed date, added table of figures, enabled URL hotlinks 28 August 2006, 21:20:33 UTC
39ead86 Eh Tan 26 August 2006, 00:49:06 UTC Flushed debugging output 26 August 2006, 00:49:06 UTC
fae9d1f Eh Tan 25 August 2006, 23:15:12 UTC Improved the section of full CitcomS visualization. Fixed issue44 25 August 2006, 23:15:12 UTC
66dc232 Luis Armendariz 24 August 2006, 23:46:45 UTC Added script to estimate the size of the output from CitcomS. 24 August 2006, 23:46:45 UTC
c6a2532 Eh Tan 24 August 2006, 20:08:59 UTC Renamed some attributes 24 August 2006, 20:08:59 UTC
fde1b04 Eh Tan 24 August 2006, 20:08:17 UTC Updated file list 24 August 2006, 20:08:17 UTC
7fe2c89 Eh Tan 24 August 2006, 19:40:45 UTC Changed the class names 24 August 2006, 19:40:45 UTC
0518c68 Eh Tan 24 August 2006, 19:34:48 UTC Renamed *Exchanger.py to *Coupler.py 24 August 2006, 19:34:48 UTC
d64fecf Eh Tan 24 August 2006, 19:31:54 UTC Started refactoring Coupler and Exchanger ... 24 August 2006, 19:31:54 UTC
faac435 Eh Tan 24 August 2006, 19:27:49 UTC * Refactored coupler-related codes from Solver.py to CoupledSolver.py * Created CoupledFullSolver.py and CoupledRegionalSolver.py * Refactored common codes between CoupledApp.py and SimpleApp.py to BaseApplication.py * Changed the facility names in CoupledApp.py * Created a coupledcitcoms script 24 August 2006, 19:27:49 UTC
e78e058 Luis Armendariz 24 August 2006, 02:47:01 UTC Added /cap/average/coord dataset 24 August 2006, 02:47:01 UTC
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