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DAMASK_EICMD
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old table not needed anymore

This commit is contained in:
Martin Diehl 2021-03-27 14:34:18 +01:00
parent c742f7c9d0
commit 8a99306aed
2 changed files with 0 additions and 423 deletions
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1
python/damask/__init__.py
View File

@ -34,5 +34,4 @@ from ._grid import Grid # noqa
from ._result import Result # noqa from ._result import Result # noqa
# deprecated # deprecated
from ._asciitable import ASCIItable # noqa
from ._test import Test # noqa from ._test import Test # noqa

422
python/damask/_asciitable.py
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@ -1,422 +0,0 @@
import os
import sys
import re
import shlex
from collections.abc import Iterable
import numpy as np
# ------------------------------------------------------------------
class ASCIItable():
"""Read and write to ASCII tables."""
tmpext = '_tmp' # filename extension for in-place access
# ------------------------------------------------------------------
def __init__(self,
name,
labeled = True, # assume table has labels
readonly = False, # no reading from file
):
"""Read and write to ASCII tables."""
self.__IO__ = {'output': [],
'labeled': labeled, # header contains labels
'tags': [], # labels according to file info
'dataStart': 0,
}
self.__IO__['inPlace'] = name and not readonly
outname = name + self.tmpext if self.__IO__['inPlace'] else None # transparently create tmp file
try:
self.__IO__['in'] = (open( name,'r') if os.access( name, os.R_OK) else None) if name else sys.stdin
except TypeError:
self.__IO__['in'] = name
try:
self.__IO__['out'] = (open(outname,'w') if (not os.path.isfile(outname) or
os.access( outname, os.W_OK)
) and
(not self.__IO__['inPlace'] or
not os.path.isfile(name) or
os.access( name, os.W_OK)
) else None) if outname else sys.stdout
except TypeError:
self.__IO__['out'] = outname
self.info = []
self.tags = []
self.data = []
self.line = ''
if self.__IO__['in'] is None \
or self.__IO__['out'] is None: raise IOError # complain if any required file access not possible
# ------------------------------------------------------------------
def _removeCRLF(self,
string):
"""Delete any carriage return and line feed from string."""
try:
return string.replace('\n','').replace('\r','')
except AttributeError:
return str(string)
# ------------------------------------------------------------------
def _quote(self,
what):
"""Quote empty or white space-containing output."""
return '{quote}{content}{quote}'.format(
quote = ('"' if str(what)=='' or re.search(r"\s",str(what)) else ''),
content = what)
# ------------------------------------------------------------------
def close(self,
dismiss = False):
if self.__IO__['in'] != sys.stdin: self.__IO__['in'].close()
self.output_flush()
if self.__IO__['out'] != sys.stdout: self.__IO__['out'].close()
if dismiss and os.path.isfile(self.__IO__['out'].name):
os.remove(self.__IO__['out'].name)
elif self.__IO__['inPlace']:
os.rename(self.__IO__['out'].name, self.__IO__['out'].name[:-len(self.tmpext)])
# ------------------------------------------------------------------
def output_write(self,
what):
"""Aggregate a single row (string) or list of (possibly containing further lists of) rows into output."""
if isinstance(what, str):
self.__IO__['output'] += [what]
else:
try:
for item in what: self.output_write(item)
except TypeError:
self.__IO__['output'] += [str(what)]
return self.output_flush()
# ------------------------------------------------------------------
def output_flush(self,
clear = True):
try:
self.__IO__['output'] == [] or self.__IO__['out'].write('\n'.join(self.__IO__['output']) + '\n')
except IOError:
return False
if clear: self.__IO__['output'] = []
return True
# ------------------------------------------------------------------
def head_read(self):
"""
Get column labels.
by either reading the first row or,
if keyword "head[*]" is present, the last line of the header
"""
try:
self.__IO__['in'].seek(0)
except IOError:
pass
firstline = self.__IO__['in'].readline().strip()
m = re.search(r'(\d+)\s+head', firstline.lower()) # search for "head" keyword
if m: # proper ASCIItable format
if self.__IO__['labeled']: # table features labels
self.info = [self.__IO__['in'].readline().strip() for i in range(1,int(m.group(1)))]
self.tags = shlex.split(self.__IO__['in'].readline()) # store tags found in last line
else:
self.info = [self.__IO__['in'].readline().strip() for i in range(0,int(m.group(1)))] # all header is info ...
else: # other table format
self.__IO__['in'].seek(0)
while self.data_read(advance = False, respectLabels = False):
if self.line[0] in ['#','!','%','/','|','*','$']: # "typical" comment indicators
self.info_append(self.line) # store comment as info
self.data_read() # wind forward one line
else: break # last line of comments
if self.__IO__['labeled']: # table features labels
self.tags = self.data # get tags from last line in "header"...
self.data_read() # ...and remove from buffer
if self.__IO__['labeled']: # table features tags
self.__IO__['tags'] = list(self.tags) # backup tags (make COPY, not link)
try:
self.__IO__['dataStart'] = self.__IO__['in'].tell() # current file position is at start of data
except IOError:
pass
# ------------------------------------------------------------------
def head_write(self,
header = True):
"""Write current header information (info + labels)."""
head = [f"{len(self.info)+self.__IO__['labeled']}\theader"] if header else []
head.append(self.info)
if self.__IO__['labeled']:
head.append('\t'.join(map(self._quote,self.tags)))
if len(self.tags) == 0: raise ValueError('no labels present.')
return self.output_write(head)
# ------------------------------------------------------------------
def labels_append(self,
what,
reset = False):
"""Add item or list to existing set of labels (and switch on labeling)."""
if isinstance(what, str):
self.tags += [self._removeCRLF(what)]
else:
try:
for item in what: self.labels_append(item)
except TypeError:
self.tags += [self._removeCRLF(str(what))]
self.__IO__['labeled'] = True # switch on processing (in particular writing) of tags
if reset: self.__IO__['tags'] = list(self.tags) # subsequent data_read uses current tags as data size
# ------------------------------------------------------------------
def labels_clear(self):
"""Delete existing labels and switch to no labeling."""
self.tags = []
self.__IO__['labeled'] = False
# ------------------------------------------------------------------
def labels(self,
tags = None,
raw = False):
"""
Tell abstract labels.
"x" for "1_x","2_x",... unless raw output is requested.
operates on object tags or given list.
"""
if tags is None: tags = self.tags
if isinstance(tags, Iterable) and not raw: # check whether list of tags is requested
id = 0
dim = 1
labelList = []
while id < len(tags):
if not tags[id].startswith('1_'):
labelList.append(tags[id])
else:
label = tags[id][2:] # get label
while id < len(tags) and tags[id] == f'{dim}_{label}': # check successors
id += 1 # next label...
dim += 1 # ...should be one higher dimension
labelList.append(label) # reached end --> store
id -= 1 # rewind one to consider again
id += 1
dim = 1
else:
labelList = self.tags
return labelList
# ------------------------------------------------------------------
def label_index(self,
labels):
"""
Tell index of column label(s).
return numpy array if asked for list of labels.
transparently deals with label positions implicitly given as numbers or their headings given as strings.
"""
if isinstance(labels, Iterable) and not isinstance(labels, str): # check whether list of labels is requested
idx = []
for label in labels:
if label is not None:
try:
idx.append(int(label)-1) # column given as integer number?
except ValueError:
label = label[1:-1] if label[0] == label[-1] and label[0] in ('"',"'") else label # remove outermost quotations
try:
idx.append(self.tags.index(label)) # locate string in label list
except ValueError:
try:
idx.append(self.tags.index('1_'+label)) # locate '1_'+string in label list
except ValueError:
idx.append(-1) # not found...
else:
try:
idx = int(labels)-1 # offset for python array indexing
except ValueError:
try:
labels = labels[1:-1] if labels[0] == labels[-1] and labels[0] in ('"',"'") else labels # remove outermost quotations
idx = self.tags.index(labels)
except ValueError:
try:
idx = self.tags.index('1_'+labels) # locate '1_'+string in label list
except ValueError:
idx = None if labels is None else -1
return np.array(idx) if isinstance(idx,Iterable) else idx
# ------------------------------------------------------------------
def label_dimension(self,
labels):
"""
Tell dimension (length) of column label(s).
return numpy array if asked for list of labels.
transparently deals with label positions implicitly given as numbers or their headings given as strings.
"""
listOfLabels = isinstance(labels, Iterable) and not isinstance(labels, str) # check whether list of labels is requested
if not listOfLabels: labels = [labels]
dim = []
for label in labels:
if label is not None:
myDim = -1
try: # column given as number?
idx = int(label)-1
myDim = 1 # if found treat as single column of dimension 1
except ValueError: # column has string label
label = label[1:-1] if label[0] == label[-1] and label[0] in ('"',"'") else label # remove outermost quotations
if label in self.tags: # can be directly found?
myDim = 1 # scalar by definition
elif '1_'+label in self.tags: # look for first entry of possible multidim object
idx = self.tags.index('1_'+label) # get starting column
myDim = 1 # (at least) one-dimensional
while idx+myDim < len(self.tags) and self.tags[idx+myDim].startswith("%i_"%(myDim+1)):
myDim += 1 # keep adding while going through object
dim.append(myDim)
return np.array(dim) if listOfLabels else dim[0]
# ------------------------------------------------------------------
def label_indexrange(self,
labels):
"""
Tell index range for given label(s).
return numpy array if asked for list of labels.
transparently deals with label positions implicitly given as numbers or their headings given as strings.
"""
start = self.label_index(labels)
dim = self.label_dimension(labels)
return np.hstack([range(s,s+d) for s,d in zip(start,dim)]).astype(int) \
if isinstance(labels, Iterable) and not isinstance(labels, str) \
else range(start,start+dim)
# ------------------------------------------------------------------
def info_append(self,
what):
"""Add item or list to existing set of infos."""
if isinstance(what, str):
self.info += [self._removeCRLF(what)]
else:
try:
for item in what: self.info_append(item)
except TypeError:
self.info += [self._removeCRLF(str(what))]
# ------------------------------------------------------------------
def info_clear(self):
"""Delete any info block."""
self.info = []
# ------------------------------------------------------------------
def data_rewind(self):
self.__IO__['in'].seek(self.__IO__['dataStart']) # position file to start of data section
self.tags = list(self.__IO__['tags']) # restore label info found in header (as COPY, not link)
self.__IO__['labeled'] = len(self.tags) > 0
# ------------------------------------------------------------------
def data_read(self,
advance = True,
respectLabels = True):
"""Read next line and parse it into data array."""
self.line = self.__IO__['in'].readline().strip()
self.line = self.line.rstrip('\n')
if self.__IO__['labeled'] and respectLabels: # if table has labels
items = shlex.split(self.line)[:len(self.__IO__['tags'])] # use up to label count (from original file info)
self.data = items if len(items) == len(self.__IO__['tags']) else [] # take entries if label count matches
else:
self.data = shlex.split(self.line) # otherwise take all
return self.data != []
# ------------------------------------------------------------------
def data_readArray(self,
labels = []):
"""Read whole data of all (given) labels as numpy array."""
try:
self.data_rewind() # try to wind back to start of data
except IOError:
pass # assume/hope we are at data start already...
if labels is None or labels == []:
use = None # use all columns (and keep labels intact)
labels_missing = []
else:
if isinstance(labels, str) or not isinstance(labels, Iterable): # check whether labels are a list or single item
labels = [labels]
indices = self.label_index(labels) # check requested labels ...
dimensions = self.label_dimension(labels) # ... and remember their dimension
present = np.where(indices >= 0)[0] # positions in request list of labels that are present ...
missing = np.where(indices < 0)[0] # ... and missing in table
labels_missing = np.array(labels)[missing] # labels of missing data
columns = []
for i,(c,d) in enumerate(zip(indices[present],dimensions[present])): # for all valid labels ...
# ... transparently add all components unless column referenced by number or with explicit dimension
columns += list(range(c,c +
(d if str(c) != str(labels[present[i]]) else
1)))
use = np.array(columns) if len(columns) > 0 else None
self.tags = list(np.array(self.__IO__['tags'])[use]) # update labels with valid subset
self.data = np.loadtxt(self.__IO__['in'],usecols=use,ndmin=2)
return labels_missing
# ------------------------------------------------------------------
def data_write(self):
"""Write current data array and report alive output back."""
if len(self.data) == 0: return True
if isinstance(self.data[0],list):
return self.output_write(['\t'.join(map(self._quote,items)) for items in self.data])
else:
return self.output_write( '\t'.join(map(self._quote,self.data)))
# ------------------------------------------------------------------
def data_writeArray(self):
"""Write whole numpy array data."""
for row in self.data:
try:
output = list(map(repr,row))
except Exception:
output = [repr(row)]
try:
self.__IO__['out'].write('\t'.join(output) + '\n')
except Exception:
pass
# ------------------------------------------------------------------
def data_append(self,
what):
if isinstance(what, str):
self.data += [what]
else:
try:
for item in what: self.data_append(item)
except TypeError:
self.data += [str(what)]