polished option help messages
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dffa119724
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@ -94,18 +94,20 @@ Outputs at cell centers or cell nodes (into separate file).
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""", version = scriptID)
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parser.add_option('-f', '--defgrad',
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parser.add_option('-f',
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'--defgrad',
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dest = 'defgrad',
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metavar = 'string',
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help = 'column label of deformation gradient [%default]')
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parser.add_option('-c', '--coordinates',
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parser.add_option('-p',
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'--pos', '--position',
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dest = 'coords',
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metavar = 'string',
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help = 'column label of coordinates [%default]')
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help = 'label of coordinates [%default]')
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parser.add_option('--nodal',
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dest = 'nodal',
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action = 'store_true',
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help = 'output nodal (not cell-centered) displacements')
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help = 'output nodal (instad of cell-centered) displacements')
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parser.set_defaults(defgrad = 'f',
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coords = 'pos',
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@ -120,8 +122,8 @@ if filenames == []: filenames = [None]
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for name in filenames:
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try: table = damask.ASCIItable(name = name,
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outname = (os.path.splitext(name)[0]+
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'_nodal'+
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outname = (os.path.splitext(name)[0] +
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'_nodal' +
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os.path.splitext(name)[1]) if (options.nodal and name) else None,
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buffered = False)
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except: continue
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@ -139,13 +141,13 @@ for name in filenames:
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if table.label_dimension(options.defgrad) != 9:
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errors.append('deformation gradient "{}" is not a 3x3 tensor.'.format(options.defgrad))
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coordDim = table.label_dimension(options.coords)
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coordDim = table.label_dimension(options.pos)
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if not 3 >= coordDim >= 1:
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errors.append('coordinates "{}" need to have one, two, or three dimensions.'.format(options.coords))
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errors.append('coordinates "{}" need to have one, two, or three dimensions.'.format(options.pos))
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elif coordDim < 3:
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remarks.append('appending {} dimension{} to coordinates "{}"...'.format(3-coordDim,
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's' if coordDim < 2 else '',
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options.coords))
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options.pos))
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if remarks != []: damask.util.croak(remarks)
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if errors != []:
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@ -155,7 +157,7 @@ for name in filenames:
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# --------------- figure out size and grid ---------------------------------------------------------
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table.data_readArray([options.defgrad,options.coords])
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table.data_readArray([options.defgrad,options.pos])
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table.data_rewind()
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if len(table.data.shape) < 2: table.data.shape += (1,) # expand to 2D shape
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@ -202,8 +204,8 @@ for name in filenames:
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table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
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table.labels_append((['{}_pos' .format(i+1) for i in xrange(3)] if options.nodal else []) +
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['{}_avg({}).{}' .format(i+1,options.defgrad,options.coords) for i in xrange(3)] +
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['{}_fluct({}).{}'.format(i+1,options.defgrad,options.coords) for i in xrange(3)] )
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['{}_avg({}).{}' .format(i+1,options.defgrad,options.pos) for i in xrange(3)] +
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['{}_fluct({}).{}'.format(i+1,options.defgrad,options.pos) for i in xrange(3)] )
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table.head_write()
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# ------------------------------------------ output data -------------------------------------------
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@ -15,54 +15,61 @@ Add grain index based on similiarity of crystal lattice orientation.
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""", version = scriptID)
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parser.add_option('-r', '--radius',
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parser.add_option('-r',
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'--radius',
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dest = 'radius',
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type = 'float', metavar = 'float',
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help = 'search radius')
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parser.add_option('-d', '--disorientation',
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parser.add_option('-d',
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'--disorientation',
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dest = 'disorientation',
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type = 'float', metavar = 'float',
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help = 'disorientation threshold in degrees [%default]')
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parser.add_option('-s', '--symmetry',
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parser.add_option('-s',
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'--symmetry',
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dest = 'symmetry',
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type = 'string', metavar = 'string',
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help = 'crystal symmetry [%default]')
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parser.add_option('-e', '--eulers',
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parser.add_option('-e',
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'--eulers',
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dest = 'eulers',
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type = 'string', metavar = 'string',
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help = 'Euler angles')
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parser.add_option( '--degrees',
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help = 'label of Euler angles')
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parser.add_option('--degrees',
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dest = 'degrees',
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action = 'store_true',
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help = 'Euler angles are given in degrees [%default]')
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parser.add_option('-m', '--matrix',
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parser.add_option('-m',
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'--matrix',
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dest = 'matrix',
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type = 'string', metavar = 'string',
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help = 'orientation matrix')
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help = 'label of orientation matrix')
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parser.add_option('-a',
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dest = 'a',
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type = 'string', metavar = 'string',
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help = 'crystal frame a vector')
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help = 'label of crystal frame a vector')
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parser.add_option('-b',
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dest = 'b',
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type = 'string', metavar = 'string',
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help = 'crystal frame b vector')
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help = 'label of crystal frame b vector')
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parser.add_option('-c',
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dest = 'c',
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type = 'string', metavar = 'string',
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help = 'crystal frame c vector')
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parser.add_option('-q', '--quaternion',
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help = 'label of crystal frame c vector')
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parser.add_option('-q',
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'--quaternion',
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dest = 'quaternion',
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type = 'string', metavar = 'string',
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help = 'quaternion')
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parser.add_option('-p', '--position',
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dest = 'coords',
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help = 'label of quaternion')
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parser.add_option('-p',
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'--pos', '--position',
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dest = 'pos',
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type = 'string', metavar = 'string',
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help = 'spatial position of voxel [%default]')
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help = 'label of coordinates [%default]')
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parser.set_defaults(disorientation = 5,
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symmetry = 'cubic',
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coords = 'pos',
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pos = 'pos',
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degrees = False,
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)
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@ -108,10 +115,10 @@ for name in filenames:
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errors = []
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remarks = []
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if not 3 >= table.label_dimension(options.coords) >= 1:
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errors.append('coordinates "{}" need to have one, two, or three dimensions.'.format(options.coords))
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if not 3 >= table.label_dimension(options.pos) >= 1:
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errors.append('coordinates "{}" need to have one, two, or three dimensions.'.format(options.pos))
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if not np.all(table.label_dimension(label) == dim):
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errors.append('input {} does not have dimension {}.'.format(label,dim))
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errors.append('input "{}" does not have dimension {}.'.format(label,dim))
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else: column = table.label_index(label)
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if remarks != []: damask.util.croak(remarks)
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@ -140,7 +147,7 @@ for name in filenames:
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bg.set_message('reading positions...')
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table.data_readArray(options.coords) # read position vectors
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table.data_readArray(options.pos) # read position vectors
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grainID = -np.ones(len(table.data),dtype=int)
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start = tick = time.clock()
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@ -22,12 +22,12 @@ parser.add_option('-p',
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'--pos', '--position',
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dest = 'pos',
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type = 'string', metavar = 'string',
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help = 'coordinate label [%default]')
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help = 'label of coordinates [%default]')
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parser.add_option('-l',
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'--legacy',
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dest = 'legacy',
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action = 'store_true',
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help = 'force legacy VTK output')
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help = 'legacy VTK output')
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parser.set_defaults(pos = 'pos',
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legacy = False,
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@ -23,12 +23,12 @@ parser.add_option('-m',
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'--mode',
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dest = 'mode',
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type = 'choice', choices = ['cell','point'],
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help = 'cell-centered or point-centered coordinates ')
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help = 'cell-centered or point-centered coordinates')
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parser.add_option('-p',
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'--pos', '--position',
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dest = 'pos',
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type = 'string', metavar = 'string',
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help = 'coordinate label [%default]')
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help = 'label of coordinates [%default]')
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parser.add_option('-g',
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'--geom',
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dest = 'geom',
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@ -38,7 +38,7 @@ parser.add_option('-l',
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'--legacy',
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dest = 'legacy',
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action = 'store_true',
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help = 'force legacy VTK output')
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help = 'legacy VTK output')
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parser.set_defaults(mode = 'cell',
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pos = 'pos',
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@ -19,16 +19,18 @@ Translate geom description into ASCIItable containing 1/2/3_pos and microstructu
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""", version = scriptID)
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parser.add_option('-p','--position',
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dest = 'position',
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parser.add_option('-p',
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'--pos', '--position',
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dest = 'pos',
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type = 'string', metavar = 'string',
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help = 'column label for position [%default]')
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parser.add_option('-m','--microstructure',
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help = 'label of coordinates [%default]')
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parser.add_option('-m',
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'--microstructure',
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dest = 'microstructure',
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type = 'string', metavar = 'string',
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help = 'column label for microstructure index [%default]')
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help = 'label of microstructure index [%default]')
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parser.set_defaults(position = 'pos',
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parser.set_defaults(pos = 'pos',
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microstructure = 'microstructure',
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)
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@ -39,10 +41,11 @@ parser.set_defaults(position = 'pos',
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if filenames == []: filenames = [None]
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for name in filenames:
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try:
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table = damask.ASCIItable(name = name,
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try: table = damask.ASCIItable(name = name,
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outname = os.path.splitext(name)[0]+'.txt' if name else name,
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buffered = False, labeled = False)
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buffered = False,
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labeled = False,
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)
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except: continue
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damask.util.report(scriptName,name)
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table.info_clear()
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table.info_append(extra_header + [scriptID + '\t' + ' '.join(sys.argv[1:])])
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table.labels_clear()
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table.labels_append(['{}_{}'.format(1+i,options.position) for i in xrange(3)]+[options.microstructure])
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table.labels_append(['{}_{}'.format(1+i,options.pos) for i in xrange(3)]+[options.microstructure])
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table.head_write()
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table.output_flush()
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