Merge commit 'v3.0.0-alpha-460-g5c3426075'

.gitlab-ci.yml

@@ -193,6 +193,8 @@ grid_mech_compile_Intel:
     - module load $IntelCompiler $MPICH_Intel $PETSc_MPICH_Intel
     - cp -r grid_mech_compile grid_mech_compile_Intel
     - grid_mech_compile_Intel/test.py
+    - cd pytest
+    - pytest -k 'compile and grid'
   except:
     - master
     - release
@@ -203,6 +205,8 @@ Compile_FEM_Intel:
     - module load $IntelCompiler $MPICH_Intel $PETSc_MPICH_Intel
     - cp -r FEM_compile FEM_compile_Intel
     - FEM_compile_Intel/test.py
+    - cd pytest
+    - pytest -k 'compile and mesh'
   except:
     - master
     - release
@@ -213,6 +217,8 @@ grid_mech_compile_GNU:
     - module load $GNUCompiler $MPICH_GNU $PETSc_MPICH_GNU
     - cp -r grid_mech_compile grid_mech_compile_GNU
     - grid_mech_compile_GNU/test.py
+    - cd pytest
+    - pytest -k 'compile and grid'
   except:
     - master
     - release
@@ -223,6 +229,8 @@ Compile_FEM_GNU:
     - module load $GNUCompiler $MPICH_GNU $PETSc_MPICH_GNU
     - cp -r FEM_compile FEM_compile_GNU
     - FEM_compile_GNU/test.py
+    - cd pytest
+    - pytest -k 'compile and mesh'
   except:
     - master
     - release
@@ -244,7 +252,7 @@ Pytest_grid:
   script:
     - module load $IntelCompiler $MPICH_Intel $PETSc_MPICH_Intel
     - cd pytest
-    - pytest
+    - pytest -m 'not compile'
   except:
     - master
     - release
@@ -320,6 +328,8 @@ Marc_compileIfort:
   script:
     - module load $IntelMarc $HDF5Marc $MSC
     - Marc_compileIfort/test.py
+    - cd pytest
+    - pytest -k 'compile and Marc'
   except:
     - master
     - release

PRIVATE

@@ -1 +1 @@
-Subproject commit 64e62f805b5ad784e3397ee5f735aaeb3cc134c2
+Subproject commit 226ea55968c756ae1abbdf51230756bb80696cb0

processing/post/addGaussian.py

@@ -1,76 +0,0 @@
-#!/usr/bin/env python3
-
-import os
-import sys
-from io import StringIO
-from optparse import OptionParser
-
-from scipy import ndimage
-
-import damask
-
-
-scriptName = os.path.splitext(os.path.basename(__file__))[0]
-scriptID   = ' '.join([scriptName,damask.version])
-
-
-# --------------------------------------------------------------------
-#                                MAIN
-# --------------------------------------------------------------------
-
-parser = OptionParser(option_class=damask.extendableOption, usage='%prog option [ASCIItable(s)]', description = """
-Add column(s) containing Gaussian filtered values of requested column(s).
-Operates on periodic and non-periodic ordered three-dimensional data sets.
-For details see scipy.ndimage documentation.
-
-""", version = scriptID)
-
-parser.add_option('-p','--pos','--periodiccellcenter',
-                  dest = 'pos',
-                  type = 'string', metavar = 'string',
-                  help = 'label of coordinates [%default]')
-parser.add_option('-s','--scalar',
-                  dest = 'labels',
-                  action = 'extend', metavar = '<string LIST>',
-                  help = 'label(s) of scalar field values')
-parser.add_option('-o','--order',
-                  dest = 'order',
-                  type = int,
-                  metavar = 'int',
-                  help = 'order of the filter [%default]')
-parser.add_option('--sigma',
-                  dest = 'sigma',
-                  type = float,
-                  metavar = 'float',
-                  help = 'standard deviation [%default]')
-parser.add_option('--periodic',
-                  dest = 'periodic',
-                  action = 'store_true',
-                  help = 'assume periodic grain structure')
-
-
-
-parser.set_defaults(pos = 'pos',
-                    order = 0,
-                    sigma = 1,
-                   )
-
-(options,filenames) = parser.parse_args()
-if filenames == []: filenames = [None]
-
-if options.labels is None: parser.error('no data column specified.')
-
-for name in filenames:
-    damask.util.report(scriptName,name)
-
-    table = damask.Table.load(StringIO(''.join(sys.stdin.read())) if name is None else name)
-    damask.grid_filters.coord0_check(table.get(options.pos))
-
-    for label in options.labels:
-        table = table.add('Gauss{}({})'.format(options.sigma,label),
-                          ndimage.filters.gaussian_filter(table.get(label).reshape(-1),
-                                                          options.sigma,options.order,
-                                                          mode = 'wrap' if options.periodic else 'nearest'),
-                          scriptID+' '+' '.join(sys.argv[1:]))
-
-    table.save((sys.stdout if name is None else name), legacy=True)