def readParsHelpFile(self):
self.tags = {}
fileLocation = os.path.join(getTopDirectory(), 'data', 'ccp', 'varian',
'parhelp.txt')
fin = open(fileLocation, 'rU')
line = fin.readline()
while line:
if not (self.patt['emptyline'].search(line)
or self.patt['hash'].search(line)):
cols = line.split()
if len(cols) < 3 or cols[1] != '=':
print "Error parsing following line:" + self.newline + line + self.newline
else:
# Sort out tag
tag = cols[0]
# Sort out value (remove ' and rejoin with single spaces)
value = joinUnquote(cols[2:], "'")
self.tags[tag] = value
line = fin.readline()
def readParsHelpFile(self):
self.tags = {}
fileLocation = os.path.join(getTopDirectory(), 'data', 'ccp', 'bruker',
'parhelp.txt')
fin = open(fileLocation, 'rU')
line = fin.readline()
while line:
if not (self.patt['emptyline'].search(line)
or self.patt['hash'].search(line)):
cols = line.split()
if len(cols) < 3 or cols[1] != '=':
print "Error parsing following line:" + self.newline + line + self.newline
else:
# Sort out tag
tag = cols[0]
# Sort out value (remove ' and rejoin with single spaces)
value = joinUnquote(cols[2:], "'")
# Check if multivalue line (eg. SFO1, SFO2, ...)
searchobj = self.patt[self.format +
'BracketMultiValue'].search(tag)
if searchobj:
for i in range(int(searchobj.group(1)),
int(searchobj.group(2)) + 1):
curTag = self.patt[self.format +
'BracketMultiValue'].sub(
str(i), tag)
curValue = self.patt[self.format +
'BracketMultiValue'].sub(
str(i), value)
self.tags[curTag] = curValue
else:
self.tags[tag] = value
line = fin.readline()
def read(self, verbose=0, expname='unknown'):
if verbose == 1:
print "Reading Varian acquisition parameters file %s" % self.name
# For reading: Varian parameter stored format is made up of 3 OR MORE lines!
# See VarianPar class definition for more detailed info.
fin = open(self.name, 'rU')
line = fin.readline()
while line:
# Checking of empty lines and hashes not really necessary, but left in just in case
if not (self.patt['emptyline'].search(line)
or self.patt['hash'].search(line)):
cols = line.split()
if len(cols) != 11:
print " ERROR: %s Varian procpar has wrong number of fields on following line:" % expname + self.newline + line
elif self.parameters.has_key(cols[0]):
print("Reoccuring parameter name: %s" %
cols[0]) + self.newline
else:
parname = cols[0]
self.parameters[parname] = VarianAcqPar(
parname, cols[1], cols[2], cols[3], cols[4], cols[5],
cols[6], cols[7], cols[8], cols[9])
self.parameters[parname].addHelp(self.parHelp, verbose)
# Read values (LINE 2)
line = fin.readline()
cols = line.split()
value_len = returnInt(cols[0])
if self.parameters[parname].basictype == 1:
# Case real data type
self.parameters[parname].addvalues(
expname, value_len, returnFloats(cols[1:]))
elif self.parameters[parname].basictype == 2:
# Case string data type
values = []
values.append(joinUnquote(cols[1:], '"'))
# For multiple line string data, read other lines
for value_num in range(1, value_len):
# Read values
line = fin.readline()
cols = line.split()
values.append(joinUnquote(cols, '"'))
self.parameters[parname].addvalues(
expname, value_len, values)
else:
# Case undefined data type
print " ERROR: %s Varian procpar has undefined basic data type. Check parameter %s." % (
expname, parname)
# Read enumerations (LAST LINE)
line = fin.readline()
cols = line.split()
enum_len = returnInt(cols[0])
if enum_len == 0:
self.parameters[parname].addenum(expname, enum_len, '')
else:
self.parameters[parname].addenum(
expname, enum_len, unquote(cols[1:], '"'))
line = fin.readline()