eb033e11b2
polishing
2019-11-27 08:44:38 +01:00
31d3958ca6
using fast new Table class
...
more a proof-of-concept since shell scripts are deprecated. The detailed
error handling of the former scripts is not implemented, i.e. the user
need to ensure that the files exist and the data has the correct shape
2019-11-26 22:59:42 +01:00
2d96136a0d
more general constructor for Table
...
reading from file is just one case (now handled by static method).
General constructor needs data and header information as dictionary.
Works only with python 3.7 where dict keeps the insertion order. Earlier
python versions/other implementations might fail.
2019-11-26 22:53:46 +01:00
845cfc34ec
similar logic as in geom class
...
- filename is not part of the object
- transparent handling of files, strings, and path-like objects for file
IO
2019-11-26 14:26:25 +01:00
81abc43920
Merge branch 'development' into new-ASCII
2019-11-26 10:29:05 +01:00
406ca39b2c
ASCII table unable to handle inhomogeneous situations
2019-11-24 21:23:43 +01:00
c9b1944493
handling of derived datatypes/structs
...
currently required for orientation
2019-11-24 08:50:27 +01:00
fb286af354
[skip sc] first draft
2019-10-31 10:47:40 +01:00
da79949c2a
old python2 script, not needed for DADF5
2019-10-19 23:14:17 +02:00
f4a0a5cfe5
substitute error introduced when enabling MSC.Marc
2019-10-18 22:03:31 +02:00
b70ad9ff54
Merge branch 'development' into DADF5-improvements
2019-10-18 20:54:54 +02:00
f8ffd7e39c
added specifics to resulting column label (sum or prod)
2019-10-18 09:30:43 -04:00
edcb8f9c4d
name change in development
2019-10-18 12:55:15 +02:00
de912c22b4
Merge branch 'development' into HDF5-spectral-displacements
2019-10-18 12:54:12 +02:00
76236a4a0c
direct initialization (float64 is anyway standard)
2019-10-17 22:41:18 +02:00
03a3edc128
added option to multiply values instead of summing them
2019-10-17 13:23:14 -04:00
91691744c6
Merge branch 'Marc-No-nonlocal' into 'development'
...
Marc no nonlocal
See merge request damask/DAMASK!98
2019-10-15 10:35:37 +02:00
d73e653f50
support for unstructured grid (FEM)
2019-10-14 14:13:03 +02:00
708bbd3cb9
mesh/grid type transparent handling of coordinates
2019-10-12 16:15:04 +02:00
513f1c6726
write out point data
...
might be possible to use a rectilinear grid for this also in the case of
grid solvers
2019-10-12 12:34:37 +02:00
b208fa6565
takeover from Vitesh's work with small adoptions to current DADF5
2019-10-12 08:02:57 +02:00
3206ee04bc
nodal displacements for grid solver
...
currently for non-MPI only
2019-09-27 20:38:02 -07:00
8793050329
fixed handling of subfolders
...
now inline with post results.
Still a little bit unclear what happens if an absolute directory is
given. Probably best to either specify absolute or relative with respect
to working directory
2019-09-19 16:10:07 -07:00
4cedcee0b4
handling of increments follows handling of other 'visible'-items
2019-09-15 17:08:03 -07:00
f6ac8c995f
simplified and selected better names
2019-09-15 16:00:19 -07:00
04aefa84bc
more appropriate names
2019-09-15 15:02:16 -07:00
de316f1afe
Merge remote-tracking branch 'origin/development' into even-more-HDF5-postprocessing
2019-09-14 12:48:42 -07:00
b85ac11c49
implemented ideas from discussion with Philip
...
group matching unified and with wildcard support
time step handling should become more convenient (WIP)
add_norm can not compute abs of scalar, added function for that
general polishing here and there
2019-09-14 09:07:23 -07:00
c13db4b3ca
renaming
...
on_air/active are not clear. visible seems to be the most appropriate
name
2019-09-13 21:49:22 -07:00
a6567e0cc6
safer to use functions
...
don't mess with attributes of the object, they might be renamed
2019-09-13 21:41:35 -07:00
002383afc2
solved problem with postprocessing
...
- to not 'try' with h5py library, it might have another 'try'. Check
explicitly for empty argument
also some polishing
2019-09-13 16:01:30 -07:00
52904a81dc
taking prospector complaints serious
2019-09-13 06:49:25 -07:00
a3c6f6682e
using eigh should ensure orthogonal eigenvectors
2019-09-13 06:42:01 -07:00
890a6cf42f
avoid floating point comparison and simply play it safe
2019-09-13 06:40:41 -07:00
0497b58629
use existing functionality
2019-09-13 06:38:22 -07:00
cd6a4d1cfd
that's all we need
2019-09-13 06:37:47 -07:00
66d8a3e601
stretch is symmetric (play it safe here)
2019-09-13 06:35:48 -07:00
79d2432c6c
R not needed
2019-09-13 06:33:00 -07:00
49b3cd2145
transpose evuivalent for rot but faster
2019-09-13 06:32:05 -07:00
462bb07efd
Merge branch 'development' into even-more-HDF5-postprocessing
2019-09-11 16:29:44 -07:00
926217fcb6
added possibility to reduce rotation to specific fundamental zone, and to output 3-dim Rodrigues vector
2019-09-10 15:09:27 -04:00
d446248d75
also ouptut materialpoint results if requested
2019-07-15 17:07:04 -07:00
b6bb8a4650
simple strain calculation for DADF5
...
further enhancement requires to give optional arguments to
add_genericpontwise
2019-07-06 21:41:29 -07:00
a8ed982706
[skip ci] better name
2019-06-15 07:31:30 +02:00
eb8be13203
missing import
2019-06-14 17:27:00 +02:00
1cf9c59850
standardizing
...
import follows PEP style guide, encoding not needed for python3
2019-06-14 13:03:30 +02:00
4ff3efb1a5
to 'stack' tables
2019-06-13 23:14:40 +02:00
bf27505faa
Merge branch 'development' into geometry-class
2019-05-31 16:21:50 +02:00
5cf63bbbc3
vtk 7 is out for more than 3 years
2019-05-27 08:34:36 +02:00
af493cf9fd
using class
...
needs more memory, but should be faster and is better readable
2019-05-26 21:32:08 +02:00
339b86f784
bugfix + more verbose reporting
2019-05-16 11:44:03 +02:00
9f7fa5393a
fix for scalar datasets
2019-05-16 09:31:13 +02:00
4599d1c34e
does not match
...
node does not make sense, is weirdly numbered
2019-05-16 00:42:22 +02:00
3c0c0a2cd1
more flexible in selecting data
2019-05-16 00:27:06 +02:00
998789528c
Merge branch 'HDF5-out-homog-2' into 'development'
...
Hdf5 out homog 2
See merge request damask/DAMASK!78
2019-05-13 17:34:59 +02:00
feb1465803
Better to have actual increment num in output file
2019-05-08 17:31:18 +02:00
0cc2b1214d
store requested data in ASCII file
2019-05-07 15:18:12 +02:00
1eaf67ad82
store results in subdirectory
...
defaults to postProc
2019-05-07 13:30:05 +02:00
f65423fe9f
rudimentary postResults for HDF5 output
...
only meant for compatibility during transition
2019-05-05 10:09:23 +02:00
8a9baf6d78
preparing output of mech_homog to HDF5
2019-04-30 18:45:38 +02:00
d74599d39a
Merge branch 'HDF5-postprocessing' into 'development'
...
Hdf5 postprocessing
See merge request damask/DAMASK!72
2019-04-29 23:24:42 +02:00
6b7fd6b7ea
visualizing data from DADF5: first prototype
2019-04-18 11:58:17 +02:00
7177813710
adding data to geometry
2019-04-17 19:57:16 +02:00
8eb1a35dfb
first version of a library to parse HDF5
...
- preliminarly called DADF5 (DAMASK HDF5)
- script to write (empty undeformed) geometries is also added
2019-04-13 11:25:53 +02:00
0c6fde97f9
wrong positions for point visualization
...
- now the cell centers are at the centers of the cells for cell
visualization
2019-04-13 00:42:05 +02:00
433281f71d
following Rowenhorst convention
2019-03-09 19:58:17 +01:00
0d08659b2a
general cleaning
2019-03-09 11:11:40 +01:00
60feb96afd
let vtk decide on the file extension
2019-03-09 11:11:40 +01:00
5ab8e50d09
consistent with reference paper
2019-03-08 19:07:19 +01:00
c706ca5ba3
no progress bars in quite mode
2019-02-26 21:22:49 -05:00
f3d2803443
addMises failed for single run of either --stress or --strain
2019-02-25 19:29:12 -05:00
2089726800
corrected output extension of vtk files to reflect binary format
2019-02-25 18:48:40 -05:00
d3ac3cc0f5
using new Orientation class
2019-02-24 08:34:20 +01:00
9fa2553af4
task for DREAM.3D if needed
...
pointwise takeover should not be a problem anymore as reading in takes
no time (at least in comparison to addGrainID)
2019-02-23 22:14:55 +01:00
b3455c825e
transition to new orientation class
...
forward-backward conversion quite stable
2019-02-23 21:49:05 +01:00
93ae5cbd07
Merge remote-tracking branch 'origin/development' into 10-consistent-orientation-conversions-3
2019-02-22 23:05:36 +01:00
43a451b2e1
inplace not useful
...
use shell script if you want to keep an backup of your old data
2019-02-18 14:36:04 +01:00
27ebe1f665
improved documentation
2019-02-17 08:17:40 +01:00
5c20609e81
more verbose help, drop support for really old vtk
2019-02-16 22:20:44 +01:00
802ef6fe5c
more precise help
2019-02-16 18:25:41 +01:00
c6781e415a
using default notation for vector access
2019-02-16 18:23:00 +01:00
0b1bfdfd4e
was only working with python2
2019-02-16 18:17:05 +01:00
29fc53fdcb
more specific about invocation
2019-02-16 17:41:56 +01:00
fa003e8077
small adjustments for autodoc
2019-02-16 15:26:21 +01:00
4ce151c967
camel casing (easer for foswiki)
2019-02-15 23:22:51 +01:00
0cc4e582e4
Merge branch 'development' into 26_autodoc-2
2019-02-15 20:47:14 +01:00
566099ad81
automatic documentation for some post processing scripts
2019-02-15 18:52:47 +01:00
d58c3008ae
fixed too long line in addLinked
2019-02-14 18:31:22 -05:00
742d58cfce
added ASCIItable tests to CI pipelining
2019-02-14 18:24:09 -05:00
c4cb35891c
all fine with python3
2019-02-14 22:56:39 +01:00
889cfc8ba0
vtk script only work with python3 on new testing
2019-02-14 01:39:54 +01:00
217024667b
forgotten comma
2019-02-12 11:30:43 +01:00
608852df83
rotation paper has angle as last component
2019-02-12 10:58:38 +01:00
7da8980cc0
bugfixes: wrong shape, wrong conversion
2019-02-12 09:04:35 +01:00
336a80091f
rodrigues is 4-vector with rotation being the last component
...
established a single source of truth for length
2019-02-12 08:59:26 +01:00
97ac437686
more user friendly constructors
2019-02-12 08:14:27 +01:00
ef3fc0b58a
bugfix: wrong array indexing
...
rotation of meshgrid tuple implemented
2019-02-12 07:42:46 +01:00
48b0307fab
using new rotation class
...
cannot rotate matrices (3,3) and (3,3,3,3) at the moment
2019-02-12 00:27:13 +01:00
74956c0290
avoid error for empty "name"
2019-01-23 20:59:07 -05:00
1192f16582
Merge remote-tracking branch 'origin/development' into 56-parallel-hdf5
2019-01-06 20:56:36 +01:00
7768c5874b
simpler interface for progress bar
2019-01-05 10:41:49 +01:00
c00d00c219
Merge remote-tracking branch 'origin/development' into misc-improvements
2019-01-05 09:22:41 +01:00
3c5df0a4a4
[skip ci] viewTable acknowledges requested output type(s)
2019-01-04 16:34:21 -05:00
bcd4288f1e
[skip ci] groupTable according to unique values in more than one column
2019-01-03 18:25:28 -05:00
b5d62c8e29
[skip ci] print estimated remaining processing time for postResults
2019-01-03 11:31:04 -05:00
835e3f95a5
[skip ci] was not used
2018-12-31 08:05:56 +01:00
6f40989465
order was randomized when creating dict
2018-12-31 07:18:45 +01:00
a992b8b1f5
random order caused test to fail
...
rather a workaround, but since HDF5 is coming...
2018-12-30 11:41:22 +01:00
25a80723c0
numpy interface changed to be strict about 2D array shape in histogram
2018-12-20 17:14:55 -05:00
1ef82e351b
Merge branch 'orientationClass_with_negative_P' into development
2018-12-20 20:43:00 +01:00
7df6dfbf3f
renamed "showTable" to "viewTable" to avoid clashing with astropy.table module
2018-12-18 15:10:26 -05:00
3bab08fdeb
Merge branch 'development' into 56-parallel-hdf5
2018-12-12 07:46:02 +01:00
1f2fbbee21
consistent name
2018-12-10 09:38:57 +01:00
767650e002
more general option + improved descriptions
...
hopefully more user friendly
2018-12-10 09:27:39 +01:00
d219842ad8
[skip ci] consistent tolerances
2018-12-09 20:19:33 +01:00
60686fb72c
[skip ci] improved reporting
2018-12-09 18:05:37 +01:00
bc04b83d8a
no reason for using python2.7
2018-12-09 14:09:26 +01:00
08ac49fac0
line too long
2018-12-09 13:21:56 +01:00
130fac21c6
cleaning
2018-12-09 13:15:59 +01:00
d43dfa569b
lines too long
2018-12-09 12:37:27 +01:00
65165ffc5e
assumed wrong type
...
quaternion should have lenght one
2018-12-09 12:35:32 +01:00
697d97cd38
cleaned
...
legacy format was for pre-MPI output where the extra bytes at start and
end of a chunk (Fortran out) had to be handled manually
2018-12-09 12:30:07 +01:00
5054291557
python3 compatible status message
2018-12-09 12:25:31 +01:00
741032339e
time/math/datatype are not used/defined any more
2018-12-09 11:05:35 +01:00
aefa006d09
simplified
...
assume quaternions as input
2018-12-09 10:53:53 +01:00
213e31ff87
string was split into letters
2018-12-09 10:53:25 +01:00
d9b47f09bc
modernized
...
split arguments logically, assume 3-vector for coordinates
2018-12-09 10:52:37 +01:00
7eaea64d09
python3 compatible
...
hope that the new bar causes less trouble than the background message
2018-12-09 09:08:33 +01:00
6b73840853
works with python3
2018-12-09 08:07:40 +01:00
83a3628765
bug fixes
2018-12-09 07:58:42 +01:00
d145b257aa
new version of numpy complain about overlong range argument
2018-12-09 07:57:05 +01:00
4130cbcffa
simplified
...
- always use quaternion as input for orientation
- addAPS34IDEstrainCoords uses table functionality
- rotateData can figure out whether input is vector or tensor
2018-12-09 07:10:31 +01:00
3f8726464d
addOrientations now checks its input for convention conformity
2018-12-08 13:22:22 -05:00
ac45a9e2d3
more output options, frame input changed to "lab expressed in crystal"
2018-12-07 22:03:14 -05:00
c0f7ae2798
updated scripts that still used formerly valid object properties of quaternions
2018-12-05 09:07:29 -05:00
8f26fc9358
Merge remote-tracking branch 'origin/development' into 56-parallel-hdf5
2018-12-04 22:34:29 +01:00
c0ad496764
eigenvalue solver seems to depent on python version
2018-11-22 23:13:49 +01:00
76accdeaf2
all orientations are passive now
...
.conjugated() not needed anymore.
Rest is polishing
2018-11-22 18:45:01 +01:00
9b82b7fadd
removed obsolete keyword "Bunge" from asEulers() method
2018-11-22 11:51:53 -05:00
ba5b623f14
Merge branch 'development' into improved-HDF5
2018-11-18 19:44:36 +01:00
fcb14f6099
was never used
2018-11-18 12:04:08 +01:00
8ee2de61ea
map returns no list any more
2018-11-17 12:12:20 +01:00
257d9d5350
needs to be list
2018-11-17 12:12:20 +01:00
44bd85a041
not working for python3, trying
2018-11-17 12:12:20 +01:00
e1a730e96b
python3 compatible integer division and argument sequence in agreement with documentation
2018-11-17 09:58:54 +01:00
558745b548
explicitly require python3
...
on older systems, python3 tpyically exists but python2 is the defaul
2018-11-17 08:12:12 +01:00
4ffb4a4321
fixed several typos
2018-11-16 19:28:24 +01:00
26811b74d6
known to work with python3
2018-11-16 09:18:29 +01:00
a3647cc587
more files with confirmed python3 compatibility
2018-11-16 09:03:12 +01:00
f47891e292
booleans not allowed as indeces any more
2018-11-16 09:03:12 +01:00
fe2c7efa27
seem to work
2018-11-15 13:56:48 +01:00
8f80152a03
use floor division of integers
...
1/2 = 0.5 in python3 (would be 0 in python2)
2018-11-15 12:28:36 +01:00
efd29e62f7
verbose should be optional
...
- causes problems on many systems (screwed up output)
- does not work with python 3 since threading class has changed
2018-11-15 12:16:55 +01:00
0cbcb028aa
fixed problem with "ValueError: Mixing iteration and read methods would lose data" for string-containing tables
2018-10-21 15:39:30 -04:00
7480d1a842
fixes for Python3
2018-10-19 07:35:59 +02:00
2632be2a76
polishing
2018-07-20 03:09:53 +02:00
1f637a0c49
python3 compatible map requires conversion to list
2018-07-19 18:01:38 +02:00
0438b7113a
using util function where possible, ensuring python3 compatibility
2018-07-19 16:38:25 +02:00
f928bd5e5b
more python 3 compatibility
2018-07-19 16:26:30 +02:00
35e470ff4d
needed for python3
2018-07-19 16:19:05 +02:00
9821654aae
iteritems does not exist in python3 anymore
...
items also works for python2 (might be slower though)
2018-07-19 16:16:10 +02:00
d138993c1d
using util functionality to be compatible with python3
2018-07-19 16:12:36 +02:00
aadcd61824
polishing
2018-06-18 00:05:55 +02:00
1bbaa7cefe
reverted last commit, scipy.linalg is different from numpy.linalg
2018-02-26 23:50:44 +01:00
6046a7ae3d
there is no scipy.linalg (at least on my system)
...
numpy.linalg is automatically imported together with numpy
2018-02-26 20:22:57 +01:00
b078234644
added scipy and scipy.linalg as known modules for calculations
2018-02-25 14:19:22 -05:00
e304ce35da
forgot to rename function call to read "coordGridAndSize"
2018-01-30 12:58:43 -05:00
355d576b4d
shortened code with utility function coordGridAndSize
2018-01-30 09:20:47 -05:00
710970d728
updated option --label for addCurl/Div/Grad
2018-01-29 21:27:05 -05:00
1d71a52133
further simplifcation of scripts
2018-01-29 15:10:41 -05:00
b45b43c5ac
bug fix in addCurl, simplified scripts
2018-01-29 14:12:19 -05:00
622d038932
einsum now compatible with numpy 1.14
2018-01-29 09:18:05 -05:00
30272fc355
generalized addCurl with --data instead of --tensor and --vector
2018-01-28 18:25:50 -05:00
8fb127f31c
better description of activity
2018-01-28 18:08:02 -05:00
761670f218
generalized addGradient with --data instead of --scalar and --vector
2018-01-28 18:02:35 -05:00
532d669d33
switched to more robust line based output
2018-01-27 17:45:53 -05:00
ceb0ff09e6
Subdivide vertex data with geometry when converting Marc input to VTK
2018-01-15 17:20:24 -05:00
a03bb1ec3e
Add MSC.Marc to VTK conversion support
...
marc_to_vtk.py takes Marc input file, subdivides it and creates a
vtkUnstructuredGrid .vtu file with the resulting geometry. Currently
supports hexahedron elements.
vtk_addGridData.py adds nodal/cell data to some VTK grid. It is
essentially vtk_addRectilinearGridData with support for unstructured
grid (.vtu) format, which is marc_to_vtk.py's output.
2017-12-11 12:32:38 -05:00
c33655b479
fixed pyflakes issues
2017-11-28 11:14:22 -05:00
0c8c4b54aa
Merge branch 'development' of magit1.mpie.de:damask/DAMASK into development
2017-11-28 11:12:05 -05:00
3b96fac8bd
added script to calculate numerical derivative of ASCIItable data
2017-11-28 10:59:53 -05:00
4dfb52c792
unfinished HDF5 should not be part of the next release
2017-11-21 10:23:50 +01:00
eda8c24b7d
Merge branch 'development' of magit1.mpie.de:damask/DAMASK into development
2017-10-07 17:24:59 +02:00
14c1291046
added "--quiet" option to suppress online messaging
2017-10-03 14:03:50 -04:00
f46d721750
Merge branch 'development' of magit1.mpie.de:damask/DAMASK into development
2017-09-03 17:42:02 -07:00
64259d9239
bug fixed in whitelist sorting, more robust against numpy parsing errors
2017-08-28 19:38:14 -04:00
5b8bc65d37
exchanged string 'n/a' for 'nan' to allow smooth parsing as float value
2017-08-28 19:32:59 -04:00
9e5896a6c5
large speedup (10x) for unconditional filtering by using read/writeArray
2017-08-23 20:54:02 -04:00
fc4fb43d48
aborting when NO data columns found
2017-08-23 17:53:30 -04:00
e82df723d1
added Rodrigues vector as possible input format
2017-08-23 14:10:56 -04:00
b3ac200c17
report linking column in screen output
2017-08-23 14:10:22 -04:00
255a465e8b
sharpened error detection and reporting
2017-08-16 15:18:29 -04:00
e18c2fd74c
slight layout tweak
2017-08-16 12:52:46 -04:00
91c70fc823
sharpened error detection and reporting
2017-08-16 12:51:32 -04:00
a2947789b5
clarified help and reporting
2017-08-15 16:12:06 -04:00
95c0179945
labeling vectors and values independenty in addSpectralDecomposition
2017-08-13 02:14:34 +02:00
e6cc948ddf
added vector-valued conditions and cleaned obsolete code
2017-08-11 15:19:47 -04:00
b7d4b3d190
simplified internal handling of conditions and added vector capability to it
2017-08-11 11:56:27 -04:00
3860eecb7c
Merge branch 'development' of magit1.mpie.de:damask/DAMASK into development
2017-08-10 11:09:37 -04:00
cb62066667
Merge branch 'development' of magit1.mpie.de:damask/DAMASK into development
2017-07-31 23:00:24 +02:00
Martin Diehl