Commit Graph

550 Commits

Author SHA1 Message Date
Tias Maiti acad1246f3 fixed wrong variable name for quaternions as rotation options 2015-06-19 04:38:00 +00:00
Philip Eisenlohr d57c7568dd simplified processing of ASCIItables by utilizing the improved class methods.
modernized file looping.
updated help.
2015-06-16 05:42:11 +00:00
Luv Sharma a5b3e9d64c typos fixed 2015-06-14 05:51:53 +00:00
Haiming Zhang c7f59c6482 change angle into radian. 2015-06-11 17:57:23 +00:00
Haiming Zhang bfe76794af add the output of ".ang" file 2015-06-11 16:50:29 +00:00
Yannick Naunheim c45a0ce55e improved stability for geom_fromAng. no longer depends on correct header information.
geom_fromVPSC with correct size determination now
2015-06-11 10:06:53 +00:00
Philip Eisenlohr b7f98c00d6 input file handling now save for large file count.
streamlining of input column detection.
fixed bug iterating through “grainIDs” instead of “grain”.
proper closing and dismissal of output table file.
2015-06-05 11:50:15 +00:00
Philip Eisenlohr 5adbe74b10 changed library function name table.labels_index() to table.label_index() 2015-06-05 11:44:17 +00:00
Philip Eisenlohr f50927b99f Create seeds file by poking at 45 degree through given geom file.
Mimics APS Beamline 34-ID-E DAXM poking.
2015-06-05 11:41:44 +00:00
Philip Eisenlohr 6eb83530b8 streamlining 2015-06-05 11:34:41 +00:00
Tias Maiti 147cc91496 some polishing to laguerre tessellation 2015-05-28 20:57:03 +00:00
Tias Maiti c5349ab041 some polishing for option parser 2015-05-26 20:22:11 +00:00
Tias Maiti 73c6bd767f added options for selective seed picking based on Mitchell’s best candidate algorithm for more uniformly distributed (spatially) seeds points 2015-05-26 20:13:35 +00:00
Martin Diehl 737e474cea consistent handling of random number per file and always reporting as comment, fix for permuteData needed because of new asciitable behavior 2015-05-22 05:56:49 +00:00
Sehar Abbas 7af176d13f introduced option to set microstructure starting index 2015-05-21 10:04:52 +00:00
Martin Diehl d70b903d1b output follows standard way, test need to ignore header 2015-05-20 21:26:49 +00:00
Martin Diehl 056ba0f2e4 reverted back to hard-to-read but working if else statement 2015-05-20 19:40:11 +00:00
Martin Diehl d99f13a49f now operating on file, only on stdout if input comes from stdin 2015-05-20 19:07:52 +00:00
Martin Diehl cd94469ea0 VPSC file format not used, if needed convert first to geom 2015-05-18 18:59:41 +00:00
Martin Diehl 76d456ee49 fixed rename 2015-05-18 14:48:25 +00:00
Martin Diehl 7775b254bd updated tests to follow new addStrainTensors syntax, check in seeds_fromTable.py was wrong with simplified default 2015-05-18 08:42:14 +00:00
Martin Diehl cddbd53789 reads better 2015-05-16 14:32:32 +00:00
Martin Diehl e45dcb7948 more readable if-else oneliner 2015-05-15 13:38:27 +00:00
Martin Diehl fa1368204d fixed bug in asciitable when updating labels for readArray, fixed checking for euler angels presence in tessellation, improved help 2015-05-14 17:07:50 +00:00
Martin Diehl 7ea350b90e corrected default for multiple arguments of fixed length (tuple, not list) 2015-05-14 10:00:56 +00:00
Martin Diehl 4899b3df0a found some unused (forgotten debug) statements 2015-05-11 20:09:49 +00:00
Martin Diehl 6f112b46b5 can be done with TSL OIM in current versions 2015-05-10 15:56:59 +00:00
Martin Diehl b60f868a76 renumbering asciitable when readArray for selected columns only
test no longer for deleteColumn
2015-05-10 11:29:11 +00:00
Martin Diehl d0180540eb fixed bugs introduced with last commit and restored capability of handling legacy seeds format 2015-05-08 05:02:44 +00:00
Tias Maiti ce0675f359 added options for laguerrre tessellation 2015-05-02 07:41:14 +00:00
Haiming Zhang afe7225357 add the option of exporting '.ctf' format file. 2015-04-28 18:09:07 +00:00
Haiming Zhang f8e06b488a make the script consistent with other scripts:
1. use new file handles
2. add scriptID and version
2015-04-28 17:47:06 +00:00
Martin Diehl 906c3f63a1 updated hybridIA sampling to work with new format
cropLinearODF is not working for the new format, but filterTable should be able to do the task
2015-04-27 05:30:29 +00:00
Martin Diehl b9c5edf7ab changed to standard file and output handling 2015-04-22 18:57:44 +00:00
Martin Diehl 2e6bbe887e changed header in seeds file from 'x,y,z' to '1..3_coords'.
scripts now use the header information and do not rely on coordinates being in the first three columns
2015-04-22 18:44:54 +00:00
Martin Diehl 0cec85ac63 corrected order of output, config file output is not supported yet 2015-04-21 19:37:03 +00:00
Martin Diehl 4581e22a0f change reading in to standard loop over files
getting bins now from header information
format of linearODF now standard ASCII table style with header/keyword/label
2015-04-20 14:22:45 +00:00
Martin Diehl f43afa13d8 simple script to generate geom file from stacked tiff images. 2015-04-20 12:57:45 +00:00
Martin Diehl f5762209dc changed 'range' keyword to 'limit', now using proper ASCII table (with column 'intensity') for linearODF
hybridIO_linODFsampling simplified
2015-04-15 14:37:46 +00:00
Martin Diehl 64764b0902 introduced moving of multiple seeds at the same time
introduced more suitable check for convergence of the first bin. Improvements in bringing seeds with a size outside the range of the target closer are no longer invisible
2015-04-14 12:42:35 +00:00
Martin Diehl d008b566b4 ensure to bring all seeds within target range 2015-04-10 20:47:20 +00:00
Martin Diehl 9d3cd8f997 added options do define number of maximum seeds to move simulateneously 2015-04-10 18:08:17 +00:00
Martin Diehl 4aa63e1ab9 handling of seeds files without microstructure (but eulerangles) 2015-04-10 16:59:08 +00:00
Martin Diehl 09bfd1e18e more verbose error handling for euler angles limits
ensuring that ROUNDED euler angles are not above the limits
2015-04-10 14:50:23 +00:00
Martin Diehl e01e270300 improved search for double microstructures (was N^2 bogosort) in geom_fromAng and introduced it in geom_fromVPSC 2015-04-10 12:57:25 +00:00
Martin Diehl 92a67e1a9d geom_fromAng.py crashed when found empty line (eg. at the end of the file), now fixed 2015-04-01 14:42:25 +00:00
Martin Diehl 004375cc79 removed table rewind causing problem with STDIN/STDOUT 2015-03-27 13:57:34 +00:00
Martin Diehl 69b8e02a3a removed unwanted ASCII table data rewind causing problem for STDIN 2015-03-26 21:15:59 +00:00
Martin Diehl 643f7fe934 some comments 2015-03-26 05:04:12 +00:00
Franz Roters 4b19b74d11 number of intervals is limit/delta not limit/delta -1 2015-03-13 08:39:55 +00:00
Haiming Zhang 37e40fdf79 Keep consistent with the new file: example.linearODF 2015-03-06 16:21:05 +00:00
Haiming Zhang 5d9abc16e8 the number of grains starts with one. 2015-03-05 20:16:17 +00:00
Haiming Zhang aeb468254d missing file.close() 2015-03-05 19:12:07 +00:00
Haiming Zhang 4579a696e8 use OptionParse to parse the command-line options, add help information,
add the output of material.config file.
2015-03-05 19:01:31 +00:00
Haiming Zhang d188f35c17 use OptionParse to parse the command-line options, add help information, format the header of output file, now the output file can be used by hydribIA_linODFsampling.py directly 2015-03-05 17:04:16 +00:00
Martin Diehl f1df6cf40f copied some stcopied some scripts from the Code folder that are of interest for DAMASK 2015-03-05 10:05:00 +00:00
Chen Zhang 8c91d174fa remove some debugging print;
add meshgrid2, but stick with list comprehension since it is actually faster.
2015-03-02 16:20:47 +00:00
Tias Maiti 0077177c05 some polishing (numpy —> np, theTable —> table) 2015-03-02 05:06:29 +00:00
Chen Zhang 0d7355a49f correct help information. 2015-02-27 23:08:48 +00:00
Chen Zhang 1742725963 interpolate microstructure using Delaunay triangulation and Barycentric interpolation. 2015-02-27 22:59:09 +00:00
Martin Diehl 425251ae2b fixed bug: theTable -> table 2015-02-14 11:23:50 +00:00
Martin Diehl 40a792d785 fixed bug in consistency check 2015-02-10 13:49:47 +00:00
Martin Diehl 63434c2ddb corrected error checking for correct type 2015-02-09 08:57:14 +00:00
Martin Diehl 7edd209ce4 corrected wrong name in add..., more verbose error checking for geom_from... 2015-02-07 22:22:28 +00:00
Martin Diehl e4a94aa72b put changes on algorithm from geom_fromEuclideanDistance into addEuclideanDistance 2015-02-07 17:11:46 +00:00
Martin Diehl 4772efbc45 fixed syntax error 2015-01-23 10:11:12 +00:00
Martin Diehl 440263f2f0 simplified, removed deprecated synonyms 2015-01-22 09:03:18 +00:00
Martin Diehl ed6b4fe50a fixed issues when having grains and eulers 2015-01-13 16:04:49 +00:00
Martin Diehl 8dea16c07f fixed wrong assignment of phase and made orientation comparison robust 2014-12-20 12:42:21 +00:00
Martin Diehl 9ac62e42df added possibility to specify number of bins to be sorted in advance to current cleared stage 2014-12-18 18:03:36 +00:00
Martin Diehl f8ce57abc8 removed aliases 'resolution' and 'dimension' for 'grid' and 'size' because some scripts did not have it anyway and the rename happened quite a while ago 2014-12-08 08:48:55 +00:00
Martin Diehl c067d0dc69 fixed wrong periodicity treatment 2014-12-05 10:35:56 +00:00
Luv Sharma 30920801aa extended for 2D, finds the bounding edges and assigns them 'physical' attribute. 2014-12-04 11:33:06 +00:00
Martin Diehl 47685ac7c4 added output of script ID do material.config 2014-12-03 10:09:47 +00:00
Martin Diehl 590106b889 added possibility to add randomly distributed second phase (index = indexGiven+1) 2014-12-02 22:22:11 +00:00
Philip Eisenlohr 3cfabe3b83 standardized script name reporting 2014-11-18 15:31:39 +00:00
Martin Diehl b656113b11 added missing string import in marc_addUserOutput (introduced with rev 3718) and removed unwanted imports and introduce use of damask.extendableParser in some other scripts 2014-11-18 08:00:45 +00:00
Martin Diehl 409a75c964 fixed 2 small flaws in geom_fromAng, corrected stringID and stringName in all remaining files in 'pre' 2014-11-16 21:44:46 +00:00
Philip Eisenlohr 6a3546cee2 script to produce ASCIItable from geom dataset.
contains best-practice for looping over multiple input files (to avoid error caused by too many open file handles!)
2014-11-14 15:16:00 +00:00
Philip Eisenlohr deee3a175a polishing and simplifications 2014-11-14 14:53:48 +00:00
Martin Diehl 733e85f6e6 fixed bug in material.config when do not compress the data. Thanks to Noriki for figuring out 2014-11-14 13:53:55 +00:00
Martin Diehl 2d2eb4e001 using extendable option, numpy as np, etc. 2014-11-07 11:13:14 +00:00
Martin Diehl 047042ad9f using extendable option, numpy as np, etc. 2014-11-07 11:07:03 +00:00
Tias Maiti 7d6670d4cf fixed table —> theTable flaw in output finalization 2014-11-05 22:17:06 +00:00
Philip Eisenlohr 52160385a6 alternative expression to parse script filename (scriptID excluding file extension). 2014-11-05 22:05:37 +00:00
Philip Eisenlohr 9345640dfd mainly polished for “numpy as np”. added alternative expression to parse script filename (excluding file extension). 2014-11-05 22:04:59 +00:00
Philip Eisenlohr 35f8b9786e changed way to sample grid positions when placing primitive object. Should be somewhat more efficient now. 2014-11-05 22:02:40 +00:00
Philip Eisenlohr f7da804927 changed file handling to allow for serial processing of large file numbers. 2014-11-05 22:01:11 +00:00
Pratheek Shanthraj e779c2e1e6 specify mesh size 2014-10-21 14:42:13 +00:00
Pratheek Shanthraj 975e42b132 specify which surface(s) you want to tag 2014-10-21 13:57:17 +00:00
Luv Sharma 8dd575cdbe now making use of parser options for input arguments 2014-10-17 11:51:22 +00:00
Luv Sharma 0193578540 now appending the bounding surface information to the gmsh geometry file 2014-10-16 17:23:17 +00:00
Luv Sharma 7e0c6f420b added shebang script to make executable, some properties and few improvements. Now giving the bounding surfaces. 2014-10-16 15:53:46 +00:00
Luv Sharma ff0f619015 started to write a script for finding bounding surfaces from gmsh geo file. 2014-10-16 14:07:25 +00:00
Martin Diehl 5e16cdd14f added support for multiple entries per line 2014-10-13 13:58:26 +00:00
Martin Diehl e1530afac7 test for geom_fromTable (does not work for empty black or whitelist) 2014-10-13 09:54:01 +00:00
Martin Diehl f4de982182 svn caused trouble due to rename, again some missing files 2014-10-10 12:11:10 +00:00
Martin Diehl 46d67f63d8 added test for converter from Ricardo's files 2014-10-10 08:54:48 +00:00
Martin Diehl 57e522566a updated python style 2014-10-09 17:03:06 +00:00
Martin Diehl 47c8bfeacb commented code 2014-10-09 11:01:07 +00:00
Martin Diehl 033a275d82 a bunch of small changes. deleted compiled FFTW libraries 2014-10-02 21:27:03 +00:00
Philip Eisenlohr bfe20a3af8 added $Id$ property and LF line endings. 2014-09-29 15:57:31 +00:00
Martin Diehl f2d9d66129 improved readibility, fixed negative coordinates, improved output 2014-09-29 15:55:17 +00:00
Martin Diehl ff475f1459 first draft of a constraint voronoi tessellation to match grain distribution 2014-09-29 10:19:49 +00:00
Philip Eisenlohr b85797c109 significant speed improvement for large grids.
polished messages and fixed error reporting bug.
2014-09-24 23:47:52 +00:00
Tias Maiti 14530b0a76 fixed bug 'the table' instead of 'table' 2014-09-19 15:24:59 +00:00
Martin Diehl afb9a2186b removed explicit default setting: type='string' and action='store' 2014-09-12 14:14:55 +00:00
Martin Diehl 5f986f3d54 updated to contain latest python improvements 2014-09-10 16:14:37 +00:00
Tias Maiti e286cf4c74 fixed bug "theTable" instead of "table" 2014-09-03 14:53:12 +00:00
Tias Maiti b566eed5a8 fixed error in last commit 2014-08-28 18:50:48 +00:00
Tias Maiti 5d96f62b44 fixed bug "theTable" instead of "table" 2014-08-28 17:37:27 +00:00
Martin Diehl d93c40a3dd fixed small bug ('theTable' instead of 'table') and simplified 2014-08-25 12:53:11 +00:00
Martin Diehl 1ba7cbb046 fixed small bug ('theTable' instead of 'table') and simplified 2014-08-25 12:39:12 +00:00
Martin Diehl c7837e1f66 changed manual input/output close to class method 2014-08-22 16:58:53 +00:00
Philip Eisenlohr 9d26bfa375 try to go on despite crappy data (containing dead ends in the segment network) 2014-08-21 17:23:16 +00:00
Philip Eisenlohr 0bcd508298 added new option "no-data" to omit output of microstructure data field, i.e. generates plain mesh only 2014-08-21 16:01:11 +00:00
Tias Maiti b573d06c3f fixed bug where initial microstructure array was allocated (factor 2) too large in anticipation of later 2D tiling. 2014-08-18 21:32:53 +00:00
Martin Diehl df50707445 fixed some small flaws 2014-08-07 16:16:02 +00:00
Martin Diehl 0874ebe096 new script to name abaqus output like in for marc.
written by B Bode from University of Kassel
2014-08-04 18:41:44 +00:00
Tias Maiti 5556dad13f updated to latest ASCII table handling style 2014-07-28 15:34:11 +00:00
Philip Eisenlohr 826f3d4dc7 added possibility to rotate primitives.
better help text.
2014-07-07 17:32:37 +00:00
Martin Diehl 1ff38b98af fixed error in file handling 2014-06-18 09:00:57 +00:00
Philip Eisenlohr 31aded8311 no scaling of the output by size (seeds files are within 0..1)
plus some polishing here and there
2014-06-08 12:48:32 +00:00
Philip Eisenlohr b0ab048d7b now aware of "origin" keyword in seeds-file 2014-06-07 18:15:08 +00:00
Philip Eisenlohr e3c4e0ecfc added option to override bounding box calculation from data with own geometry. 2014-06-07 18:14:30 +00:00
Philip Eisenlohr 72e9c512bd polishing of variable names, comments, and some of the programming structure. 2014-06-07 18:13:29 +00:00
Pratheek Shanthraj 522efaac92 added immutable option 2014-06-05 17:18:52 +00:00
Philip Eisenlohr 3ec323e564 Create seed file by taking microstructure indices from given ASCIItable column. 2014-05-26 14:57:39 +00:00
Philip Eisenlohr f81c6f6890 changed ASCIItable reading from _asArray (deprecated) to _readArray.
observe physical box size.
added compatibility to VTK > version 5.
2014-05-26 14:35:25 +00:00
Martin Diehl 89c896678b added printing of cli arguments to seeds_fromRandom, fixed regression in compile_CoreModule and DAMASK_spectral_doxygen 2014-05-15 09:58:31 +00:00
Philip Eisenlohr 8a80f5ec7a fixed typo that prevented selection of "Moore" neighborhood.
made "boundary" and "biplane" synonyms.
adopted more modern treatment of geom-files.
introduced scale for voxel size (independent of physical size and resolution given in geom-file).
2014-05-14 15:26:06 +00:00
Philip Eisenlohr 8b9ed55928 small "beautification" 2014-05-13 15:03:55 +00:00
Philip Eisenlohr 13f1607e15 changed default behavior to (system-provided) random seed instead of fixed "0" 2014-05-03 02:36:23 +00:00
Philip Eisenlohr a85ea307f1 changed (with backward compatibility) option "origin" to more suitable name of "center" since it specifies the position of the primitive's center, while "origin" could be mistaken for the lower left corner or such... 2014-04-09 14:22:27 +00:00
Martin Diehl 33af5af8cb some small changes on the header/shebang 2014-04-01 19:29:14 +00:00
Martin Diehl 342ca0be47 tested new scripts to update shebang, all files got same shebang (and for python files encoding) 2014-04-01 18:41:14 +00:00
Claudio Zambaldi 559f14ca35 prepended *draw_manual for faster processing in "new" Mentat, thx Christoph 2014-04-01 17:06:10 +00:00
Martin Diehl c254f87814 now assuming periodic microstructures (was not fully correct before, assuming non-periodicity) 2014-04-01 16:43:39 +00:00
Christoph Kords f19955c84a added options to specify the columns for the grain IDs and segments
improved error handling
2014-03-12 14:26:44 +00:00
Philip Eisenlohr 943349fdbb bunch of new scripts:
gwyddion_filter tries to smoothen out Gwyddion data sets.
vtk_fromGwyddion produces vtk mesh from Gwyddion data set.
geom_addPrimitive allows to add box, cylinder, or ellipsoidal blobs to geom file.
2014-03-04 03:34:34 +00:00
Philip Eisenlohr fdbde250dc deleted obsolete table.data_rewind to be pipe-safe 2014-02-28 15:55:48 +00:00
Martin Diehl 9d402022aa fixed small bug when using renumber option 2014-02-15 10:37:50 +00:00
Martin Diehl 371a027de9 added option '--renumber' to geom_rescale and geom_grainGrowth to renumber microstructures from 1 to N (without gaps), off by default.
added metavar information to some scripts
2014-02-14 13:17:29 +00:00
Philip Eisenlohr ccb950f3d8 checked Unix command piping conformity -- seems to now work:
seeds_fromRandom |
geom_fromVoronoiTessellation |
geom_grainGrowth |
geom_unpack |
geom_pack

However, grainGrowth functionality seems broken...
2014-02-03 23:44:29 +00:00
Martin Diehl f66c0727d0 fixed wrong type for arguments introduced last time (must be string to have multiples) 2014-02-03 20:23:49 +00:00
Martin Diehl 7a9fa061de added --compress option: for ang files filtered to have single orientation in grain (OIM filter), microstructure and texture in material.config are compressed 2014-01-30 12:00:20 +00:00
Philip Eisenlohr c9c6588f7c renamed seeds file related scripts in a (hopefully) consistent manner 2014-01-23 20:48:33 +00:00
Philip Eisenlohr eda9076157 use existing geom file and produce seed points from each voxel (filtering possible) 2014-01-23 20:43:42 +00:00
Martin Diehl 8b4af554ba added verbosity on help messages 2014-01-20 14:41:56 +00:00
Luv Sharma 649b8b91fe fixed reporting of arguments 2014-01-15 15:10:13 +00:00
Martin Diehl db18b3c77f added missing script arguments in documentation part of the header 2014-01-14 10:53:45 +00:00
Philip Eisenlohr 4f30a6e05b now compatible with new table.data_readArray method 2013-12-31 21:06:32 +00:00
Martin Diehl 2f1db8f69a introduced delimiter option (default = tab) for ascii table output, use space for geometry files 2013-12-17 08:16:29 +00:00
Philip Eisenlohr 7fb1a3130a now VTK 6 compatible 2013-12-09 15:41:29 +00:00
Philip Eisenlohr 0337b4f319 added script to produce VTK point cloud from seed file coordinates 2013-11-20 17:33:05 +00:00
Martin Diehl e1e76cb257 fixed bug in OIMang_hex2cub.py, added test for correct number of microstructures (should be equal to header info) 2013-11-14 17:37:42 +00:00
Martin Diehl d2cbca35b2 fixed syntax error in last commit 2013-11-13 12:51:48 +00:00
Martin Diehl 9b7007b937 added accidently deleted output of texturei again 2013-11-13 12:46:20 +00:00
Martin Diehl 103ae3cd0d introduced on the fly copying for 2D microstructures in 3 dimension 2013-11-12 17:04:36 +00:00
Pratheek Shanthraj fc8811c07d switched to faster algorithm and removed buggy multi-threading 2013-11-11 13:00:31 +00:00
Philip Eisenlohr 463ecfd296 switched to damask.ASCIItable parsing, now aware of synonyms in geometry header, and speed-up by some orders of magnitude due to scipy.ndimage.filters use... 2013-11-04 14:12:10 +00:00
Martin Diehl 1ff98296b3 added output of default values, still does not run for my geometry 2013-10-25 11:58:03 +00:00
Philip Eisenlohr 5c1c0028e0 throw error if RCB segment list is not properly connected, i.e., complain about "dead ends" along the segment chain. 2013-10-24 18:55:16 +00:00
Philip Eisenlohr 705d23a5ed fixed bug for non-present "microstructure" info in header. 2013-10-15 12:36:52 +00:00
Martin Diehl 47577e3d11 introduced synonym "grains" for deprecated "grains" to ensure backward compatibility 2013-10-15 09:50:20 +00:00
Philip Eisenlohr 9280b0a4e2 fixed bug where configuration wrote floating point numbers for grain IDs and texture IDs. 2013-09-23 18:35:30 +00:00
Martin Diehl 3eb8aa1362 checked for python3 compatibility:
use "print('foo')" instead of "print 'foo'"
and "except(error) as e" instead of "except error,e"
2013-09-14 10:52:02 +00:00
Christoph Kords 7bbee3fe60 write size as exponential not float, otherwise small numbers get rounded (to zero) 2013-08-21 15:25:27 +00:00
Franz Roters 4f7cd76b29 renamed texture_rotation into texture_transformation
changed keyword for material.config to axes in line with geom_fromAng.py
former keyword rotation is still recognized for compatibility
2013-07-24 11:09:39 +00:00
Pratheek Shanthraj d2ccc06aee added line break between rotation and euler angle information for correct parsing of config file 2013-07-23 14:33:30 +00:00
Pratheek Shanthraj c8cc397bf4 small bug fix 2013-07-23 12:40:26 +00:00
Martin Diehl 69b3359047 forgot in last commit 2013-07-18 13:31:40 +00:00
Martin Diehl 2201a73a46 added (?correct and working?) rotation for conversion from ANG and updated bold verbosity of all other scripts 2013-07-18 13:28:54 +00:00
Philip Eisenlohr 7d5f1270d5 fixed nasty bug that prevented proper grid rescaling 2013-07-16 21:11:44 +00:00
Philip Eisenlohr cb09c17fa2 simplified $Id treatment.
now reports own name in bold during runtime.
2013-07-10 09:15:42 +00:00
Philip Eisenlohr 31e0469b34 changed key "grains" to "microstructures" to be consistent with .geom description later. 2013-07-10 09:14:53 +00:00
Philip Eisenlohr f75604c235 fixed bug in output of origin (reported size instead) 2013-07-10 09:13:21 +00:00
Philip Eisenlohr fafa69b846 added possibility to have microstructure indices for seed points. Hence, multiple seed points can belong to the same final grain. 2013-07-10 09:12:00 +00:00
Pratheek Shanthraj 930e605afc bug fixes and more optimizations 2013-07-03 00:48:21 +00:00
Pratheek Shanthraj 34ef7b0f34 now fully anisotropic grain growth possible by setting up the function "interfacialEnergy" 2013-07-02 04:32:32 +00:00
Pratheek Shanthraj 5ff8a7067e fixed bug and re-reverted to faster version. added python multiprocessing functionality. polishing and renaming 2013-07-01 17:15:24 +00:00
Philip Eisenlohr 89cea68bc5 now using ASCIItable object and numpy array.repeat --> about 50x faster for large geoms (i.e. several mio voxels). 2013-06-30 19:11:16 +00:00
Philip Eisenlohr 39758f5c53 removed twoD option remnants 2013-06-30 19:09:01 +00:00
Philip Eisenlohr 1f891c544d now using ASCIItable object (much faster file writing).
(temporarily) switched back to rev2496 logic...
changed to diffusion distance as command line argument (instead of taking sqrt(time))
2013-06-30 13:51:21 +00:00
Philip Eisenlohr dd3d53e238 simplified grid/size synonyms treatment 2013-06-30 13:47:01 +00:00
Philip Eisenlohr 21c4447955 polishing and code unifications 2013-06-30 12:35:04 +00:00
Philip Eisenlohr 24fc14c2f3 fixed small syntax error introduced in last commit... 2013-06-30 00:46:52 +00:00
Philip Eisenlohr 77aa1c27b0 now based on damask.ASCIItable object
continue with next if one file is broken (used to stop!)
packing of already packed works now
overall speed improvement
standard unpacked output is 2D: use -1/--onedimensional for linear list
2013-06-30 00:39:48 +00:00
Philip Eisenlohr fcc2736431 now based on damask.ASCIItable object
continue with next if one file is broken (used to stop!)
improved index substitution and adopted more numpy functions --> notably faster
2013-06-30 00:37:03 +00:00
Philip Eisenlohr f204c38d4d now based on damask.ASCIItable object
continue with next if one file is broken (used to stop!)
switched to numpy functions for geom reshaping and writing --> 10x faster
2013-06-30 00:34:16 +00:00
Philip Eisenlohr 7d6035dcfa now based on damask.ASCIItable object
continue with next if one file is broken (used to stop!)
2013-06-30 00:31:44 +00:00
Philip Eisenlohr da1b4ff05b now based on damask.ASCIItable object
switched to numpy functions for grid generation --> about 20x faster.
2013-06-30 00:30:06 +00:00
Pratheek Shanthraj 4537720895 faster version for large number of grains. now performing diffusion on a small window around each grain where window around each grain is obtained cheaply 2013-06-27 16:57:14 +00:00
Philip Eisenlohr 034a6bc926 grid dimension can be changed by factor ("2x"), or left alone with number <= 0.
now understands packed geom structure.
2013-06-27 15:35:49 +00:00
Philip Eisenlohr 5f347648e1 now understands packed geom structure 2013-06-27 15:34:37 +00:00
Harsha Phukan 76171eec15 added possibility for factors---indicated by "x" at the end---and left-alone condition now comprises "0" as well as "negative numbers. understands packed structures, too. 2013-06-27 12:58:12 +00:00
Philip Eisenlohr 8b5ba9f8f0 now understands packed geom-files (much faster processing...) 2013-06-21 21:19:14 +00:00
Philip Eisenlohr 4cf2e75dc1 justification of numbers done with space instead of "0"s 2013-06-21 21:18:10 +00:00
Philip Eisenlohr e53c67f0e0 added black list for immutable microstructures.
now able to parse packed geom-files.
2013-06-21 21:17:03 +00:00
Philip Eisenlohr 3b4573301c removed now obsolete Moore neighborhood array 2013-06-21 19:10:10 +00:00
Philip Eisenlohr 5d15f68914 added help description.
fixed bug for grain index (+1).
renamed some variables and added a few comments.
2013-06-21 19:08:20 +00:00
Pratheek Shanthraj 2e8756b724 faster version of smoother using the scipy gaussian filter to get the diffused microstructure and vectorized sharpening of the diffused microstructure 2013-06-21 16:59:49 +00:00
Philip Eisenlohr 45951e27c5 script to smooth out interface roughness in a (polycrystal) geom 2013-06-20 19:45:25 +00:00
Ding Wang 920195809c fixed bug in auto determination of size and grid 2013-06-11 10:11:14 +00:00
Martin Diehl e635b06270 last polishing on preprocessing scripts, documentation and scripts are all up to date.
added addSchmidfactors to post processing scripts
2013-06-04 12:56:57 +00:00
Martin Diehl a21dd816c7 init reporting of constitutive_*.f90 had less/to much spaces, renamed label to LABEL because it is a parameter.
removed debug output of geom_fromEuclideanDistance.py
2013-05-28 17:31:55 +00:00
Martin Diehl b3a90a8a3b last changes on preprocessing tools, only documentation needs to be done 2013-05-17 16:44:03 +00:00
Martin Diehl 17b81fda7c still improving preprocessing scripts 2013-05-15 17:23:21 +00:00
Martin Diehl 53348db000 tested the modified scripts, all scripts generating geometry now named geom_from... 2013-05-15 16:02:38 +00:00
Martin Diehl 0b4a5cfa9b geom_check is now using vtk class, other scripts stop execution in case of invalid grid or size 2013-05-14 21:09:37 +00:00
Martin Diehl 9093cf2072 polishing, unifying,simplifying 2013-05-14 17:51:53 +00:00
Martin Diehl 2acd737859 polishing, unifying,simplifying 2013-05-14 17:19:36 +00:00
Martin Diehl 563e74c832 now also using numpy 2013-05-14 17:00:41 +00:00
Martin Diehl b2c50124b5 more improvements on structure, comments and header generation of pre processing tools 2013-05-13 13:10:31 +00:00
Martin Diehl 52af9aaabf made spectral preprocessing more verbose (now reporting changes on header) and aware of new keywords, added coding information below shebang 2013-05-13 11:27:59 +00:00
Martin Diehl a003d14824 grid and size for vicinityOffset, small changes for other scripts 2013-04-25 16:51:32 +00:00
Martin Diehl 5d8664e230 updated to new keywords + more verbosity 2013-04-25 15:53:41 +00:00
Martin Diehl 7cbf107751 removed misplaced new line statement 2013-04-24 11:07:05 +00:00
Pratheek Shanthraj aa07656a90 exchanged final two occurrences of "grains" to "microstructures" 2013-04-18 13:53:13 +00:00
Martin Diehl d971a32516 changed keywords, now also printing out altered size/grid/microstructures information 2013-04-16 18:00:14 +00:00
Martin Diehl 2ff0f1b93e keywords update from resolution/dimension to grid/size 2013-04-12 14:13:32 +00:00
Martin Diehl b4f67248a5 deleted two simple scripts used for debugging but with almost no use any more 2013-04-12 13:22:15 +00:00
Martin Diehl 7bcf1d6072 added ID information of creator script to header, changed keywords (resolution->grid, dimension->size) 2013-04-12 12:48:39 +00:00
Martin Diehl 4314ab236e added ID information of creator script to header 2013-04-12 11:15:17 +00:00
Martin Diehl 6f0308844f geom packing/unpacking won't throw away unknown header information any more (might contain comments) 2013-04-12 10:47:44 +00:00
Martin Diehl 0b1033d63a switched to new keywords "grid" and "size", still reads the old "resolution" and "dimension" but writes the new ones 2013-04-12 10:27:05 +00:00
Martin Diehl 010d4c6e26 added script to make 27 periodic copies (3 in each dimension) 2013-03-11 13:40:30 +00:00
Martin Diehl 8a66693001 added script to convert data used by R.A. Lebensohn to spectral solver (geom, material.config) format 2013-03-05 16:31:17 +00:00
Philip Eisenlohr 0d7f1e8623 killed "margin" option, now same as all others: resolution and dimension in x and y.
can be non-square grid.
2013-02-27 18:43:53 +00:00
Philip Eisenlohr 565c532546 fixed bugs (grain index start, alpha orientation for elliptic osteons).
added option to rotate osteon relative to periodic box.
2013-02-27 10:56:30 +00:00
Pratheek Shanthraj 1cc990c7ac osteon geom and config generator 2013-02-25 17:12:13 +00:00
Martin Diehl 831ad6d9c8 added leading zeros to names of microstructures and phases, spaces caused problems during initialization 2013-02-20 14:50:01 +00:00
Christoph Kords a90f15a3d3 corrected usage of "append" (which does not copy list items but only creates references) 2013-02-13 16:00:02 +00:00
Martin Diehl e74b5da19a changed all remaining routines to fortran-fast arrays (geometry reconstruction etc.)
changed all remaining routines in f2py to more clever determination of array size (requires f2py >= 2.0)
enabled 3D visualize to work with odd resolution by switching to linear reconstruction
PLEASE NOTE: Redefinition of routines for f2py might cause trouble -> DELETE DAMASK_ROOT/lib/damask/core.so in this case
further changes: added pure statement where possible, polished, unified use of "Q" for "Quaternion" and reordered math to have similar routines together
2013-01-31 16:28:08 +00:00
Philip Eisenlohr c8aaf8f6d4 added $id flags and specified line ending types when missing.
setup script missed ".py" extension for geom_euclideanDistance.
2013-01-18 12:59:26 +00:00
Pratheek Shanthraj 0e93d51fed adopted same algorithm as in addEuclideanDistance 2013-01-18 11:42:27 +00:00
Pratheek Shanthraj 096204cd79 corrected missing file renaming of output 2013-01-18 11:39:53 +00:00
Pratheek Shanthraj f63bb747c1 script to calculate the euclidean distance map (shortest distance to a grain boundary) of a given geom description using fast marching method (O(N logN) ops). grain boundary extracted using FD stencil. 2012-11-29 21:53:57 +00:00
Philip Eisenlohr 05507a6240 removed opening of unused _tmp file 2012-11-27 17:59:56 +00:00
Martin Diehl b5945ced5e changed counting of rows from pythonic (starting at 0) to human way (starting at 1) 2012-11-20 10:27:09 +00:00
Philip Eisenlohr 1df9be233d changed default threshold to 0.0 2012-11-08 17:08:41 +00:00
Philip Eisenlohr 025d6c9048 renamed script to new convention
aligned output behavior to that of fromVoronoiTessellation, i.e., standard output is geom, --config gives associated material.config stud
2012-11-08 15:44:51 +00:00
Philip Eisenlohr af2aa8500d added option to specify crystallite index 2012-11-08 15:43:38 +00:00
Philip Eisenlohr c4c27860b2 renamed script
updated to recent standard in io processing
introduced "primitive" bicontinuous structure in addition to "diamond" and "gyroid"
2012-11-07 16:52:10 +00:00
Philip Eisenlohr 7cf2024be3 fixed buggy parameter checking 2012-11-07 16:51:17 +00:00
Philip Eisenlohr e11d107956 fixed reporting to STDOUT/STDERR
fixed buggy parameter checking
2012-11-07 16:49:47 +00:00
Philip Eisenlohr cfc8823328 missed those three in former commit... 2012-11-05 21:28:01 +00:00
Philip Eisenlohr 1bd4262cfb renaming of (loosely related) "spectral" scripts to (more tightly related) "geom" versions. 2012-11-05 21:19:12 +00:00
Philip Eisenlohr afaf1f4e8c made errors report to STDERR.
maxMicrostructure remains silent if not present.
2012-10-30 16:32:00 +00:00
Philip Eisenlohr f2229883b5 exchanged "maxGrainCount" for "maxMicrostructure", since this is what it really means... 2012-10-30 16:15:10 +00:00