migrating ASCIItable to Table class

processing/post/averageDown.py

@@ -49,6 +49,7 @@ parser.set_defaults(pos     = 'pos',
                    )
 
 (options,filenames) = parser.parse_args()
+if filenames == []: filenames = [None]
 
 packing = np.array(options.packing,dtype = int)
 shift   = np.array(options.shift,  dtype = int)
@@ -56,47 +57,14 @@ shift   = np.array(options.shift,  dtype = int)
 prefix = 'averagedDown{}x{}x{}_'.format(*packing)
 if any(shift != 0): prefix += 'shift{:+}{:+}{:+}_'.format(*shift)
 
-# --- loop over input files ------------------------------------------------------------------------
-
-if filenames == []: filenames = [None]
 
 for name in filenames:
-  try:    table = damask.ASCIItable(name    = name,
-                                    outname = os.path.join(os.path.dirname(name),
-                                                           prefix+os.path.basename(name)) if name else name,
-                                    buffered = False)
-  except IOError:
-    continue
   damask.util.report(scriptName,name)
-
-# ------------------------------------------ read header ------------------------------------------
-
-  table.head_read()
-
-# ------------------------------------------ sanity checks ----------------------------------------
-
-  errors  = []
-  remarks = []
   
-  if table.label_dimension(options.pos) != 3:  errors.append('coordinates {} are not a vector.'.format(options.pos))
+  table = damask.Table.from_ASCII(StringIO(''.join(sys.stdin.read())) if name is None else name)
-
-  if remarks != []: damask.util.croak(remarks)
-  if errors  != []:
-    damask.util.croak(errors)
-    table.close(dismiss = True)
-    continue
-
-# ------------------------------------------ assemble header ---------------------------------------
-
-  table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
-  table.head_write()
-
-# --------------- figure out size and grid ---------------------------------------------------------
-
-  table.data_readArray()
 
   if (options.grid is None or options.size is None):
-    grid,size,origin = damask.grid_filters.cell_coord0_2_DNA(table.data[:,table.label_indexrange(options.pos)])
+    grid,size,origin = damask.grid_filters.cell_coord0_2_DNA(table.get(options.pos))
   else:
     grid   = np.array(options.grid,'i')
     size   = np.array(options.size,'d')
@@ -105,27 +73,25 @@ for name in filenames:
   shift   = np.where(grid == 1,0,shift)                                                             # reset   shift to 0 where grid==1
   packedGrid = np.maximum(np.ones(3,'i'),grid//packing)
 
+  data = table.data.values.reshape(tuple(grid)+(-1,),order = 'F')
   averagedDown = scipy.ndimage.filters.uniform_filter( \
                   np.roll(
                   np.roll(
-                  np.roll(table.data.reshape(list(grid)+[table.data.shape[1]],order = 'F'),
+                  np.roll(data,
                           -shift[0],axis = 0),
                           -shift[1],axis = 1),
                           -shift[2],axis = 2),
                   size = list(packing) + [1],
                   mode = 'wrap',
                   origin = list(-(packing//2)) + [0])\
-                  [::packing[0],::packing[1],::packing[2],:].reshape((packedGrid.prod(),table.data.shape[1]),order = 'F')
+                  [::packing[0],::packing[1],::packing[2],:].reshape((packedGrid.prod(),-1),order = 'F')
 
   
-  table.data = averagedDown
+  table = damask.Table(averagedDown,table.shapes,table.comments)
-
-#--- generate grid --------------------------------------------------------------------------------
 
   coords = damask.grid_filters.cell_coord0(packedGrid,size,shift/packedGrid*size+origin)
-  table.data[:,table.label_indexrange(options.pos)] = coords.reshape((-1,3))
+  table.set(options.pos, coords.reshape((-1,3)))
 
 
-# ------------------------------------------ output finalization -----------------------------------  
+  outname = os.path.join(os.path.dirname(name),prefix+os.path.basename(name))
-  table.data_writeArray()
+  table.to_ASCII(sys.stdout if name is None else outname)
-  table.close()

processing/post/blowUp.py

@@ -43,65 +43,29 @@ parser.set_defaults(pos  = 'pos',
                    )
 
 (options,filenames) = parser.parse_args()
+if filenames == []: filenames = [None]
 
 options.packing = np.array(options.packing)
 prefix = 'blowUp{}x{}x{}_'.format(*options.packing)
 
-# --- loop over input files -------------------------------------------------------------------------
-
-if filenames == []: filenames = [None]
 
 for name in filenames:
-  try:    table = damask.ASCIItable(name = name,
-                                    outname = os.path.join(os.path.dirname(name),
-                                                           prefix+os.path.basename(name)) if name else name,
-                                    buffered = False)
-  except IOError:
-    continue
   damask.util.report(scriptName,name)
-
-# ------------------------------------------ read header ------------------------------------------
-
-  table.head_read()
-
-# ------------------------------------------ sanity checks ----------------------------------------
   
-  errors  = []
+  table = damask.Table.from_ASCII(StringIO(''.join(sys.stdin.read())) if name is None else name)
-  remarks = []
+  grid,size,origin = damask.grid_filters.cell_coord0_2_DNA(table.get(options.pos))
-  
-  if table.label_dimension(options.pos) != 3:  errors.append('coordinates "{}" are not a vector.'.format(options.pos))
-
-  colElem = table.label_index('elem')
-  
-  if remarks != []: damask.util.croak(remarks)
-  if errors  != []:
-    damask.util.croak(errors)
-    table.close(dismiss = True)
-    continue
-
-# --------------- figure out size and grid ---------------------------------------------------------
-
-  table.data_readArray(options.pos)
-  table.data_rewind()
-
-  grid,size,origin = damask.grid_filters.cell_coord0_2_DNA(table.data)
   
   packing = np.array(options.packing,'i')
   outSize = grid*packing
   
-# ------------------------------------------ assemble header --------------------------------------
+  data = table.data.values.reshape(tuple(grid)+(-1,))
+  blownUp = ndimage.interpolation.zoom(data,tuple(packing)+(1,),order=0,mode='nearest').reshape((outSize.prod(),-1))
 
-  table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
+  table = damask.Table(blownUp,table.shapes,table.comments)
-  table.head_write()
 
-# ------------------------------------------ process data -------------------------------------------
-  table.data_readArray()
-  data = table.data.reshape(tuple(grid)+(-1,))
-  table.data = ndimage.interpolation.zoom(data,tuple(packing)+(1,),order=0,mode='nearest').reshape((outSize.prod(),-1))
   coords = damask.grid_filters.cell_coord0(outSize,size,origin)
-  table.data[:,table.label_indexrange(options.pos)] = coords.reshape((-1,3))
+  table.set(options.pos,coords.reshape((-1,3)))
-  table.data[:,table.label_index('elem')] = np.arange(1,outSize.prod()+1)
+  table.set('elem',np.arange(1,outSize.prod()+1))
-
+  
-# ------------------------------------------ output finalization -----------------------------------  
+  outname = os.path.join(os.path.dirname(name),prefix+os.path.basename(name))
-  table.data_writeArray()
+  table.to_ASCII(sys.stdout if name is None else outname)
-  table.close()