def set_directories(self):
"""decide on use of top_dir (use it or nothing - no anat_dir)
==> if top_dir is set, use $top_dir/short_names
else just use anat and epi directly
"""
all_files = [self.uvars.val('dsets_A')]
more_files = self.uvars.val('dsets_B')
if more_files: all_files.append(more_files)
top_dir, parent_dirs, short_dirs, short_names = \
UTIL.common_parent_dirs(all_files)
if self.cvars.verb > 2:
print '== top_dir = %s\n parent_dirs = %s\n short_dirs = %s\n' \
' short_names = %s' \
%(top_dir, parent_dirs, short_dirs, short_names)
# and store it
self.LV.top_dir = top_dir
self.LV.parent_dirs = parent_dirs
self.LV.short_dirs = short_dirs
self.LV.short_names = short_names
# if top_dir isn't long enough, do not bother with it
if self.LV.top_dir.count('/') < 2:
self.LV.top_dir = ''
if self.cvars.verb > 2: print ' (top_dir not worth using...)'
def set_directories(self):
"""decide on use of top_dir (use it or nothing - no anat_dir)
==> if top_dir is set, use $top_dir/short_names
else just use anat and epi directly
"""
all_files = [self.uvars.val('dsets_A')]
more_files = self.uvars.val('dsets_B')
if more_files: all_files.append(more_files)
top_dir, parent_dirs, short_dirs, short_names = \
UTIL.common_parent_dirs(all_files)
if self.cvars.verb > 2:
print '== top_dir = %s\n parent_dirs = %s\n short_dirs = %s\n' \
' short_names = %s' \
%(top_dir, parent_dirs, short_dirs, short_names)
# and store it
self.LV.top_dir = top_dir
self.LV.parent_dirs = parent_dirs
self.LV.short_dirs = short_dirs
self.LV.short_names = short_names
# if top_dir isn't long enough, do not bother with it
if self.LV.top_dir.count('/') < 2:
self.LV.top_dir = ''
if self.cvars.verb > 2: print ' (top_dir not worth using...)'
def set_directories(self):
"""always use $top_dir with absolute paths to datasets
"""
inputs = [self.uvars.surf_vol, self.uvars.spec_file]
if self.cvars.val('on_surface') == 'yes':
if self.uvars.surf_mask != '': inputs.append(self.uvars.surf_mask)
else:
inputs.append(self.uvars.vol_mask)
# try converting to absolute paths
try:
inputs = [os.path.abspath(fname) for fname in inputs]
except:
msg = '** cannot convert inputs to asolute path names:\n %s' % inputs
self.errors.append(msg)
return 1
top_dir, parent_dirs, short_dirs, short_names = \
UTIL.common_parent_dirs([inputs])
self.LV.top_dir = parent_dirs[0] # common parent dir
self.LV.short_names = short_names # if top_dir is used, they are under it
if self.cvars.verb > 2:
if self.cvars.val('on_surface') != 'yes':
print('-- set_dirs: top_dir = %s\n' \
' short surf_vol = %s\n' \
' short spec_file = %s\n' \
' short vol_mask = %s\n' % (self.LV.top_dir,
short_names[0][0], short_names[0][1], short_names[0][2]))
else: # on surface
print('-- set_dirs: top_dir = %s\n' \
' short surf_vol = %s\n' \
' short spec_file = %s\n' % (self.LV.top_dir,
short_names[0][0], short_names[0][1]))
if len(short_names[0]) > 2:
print(' short surf_mask = %s\n' %
short_names[0][2])
# if top_dir isn't long enough, do not bother with it
if self.LV.top_dir.count('/') < 2:
self.LV.top_dir = ''
if self.cvars.verb > 2: print(' (top_dir not worth using...)')
return 0
def set_directories(self):
"""always use $top_dir with absolute paths to datasets
"""
inputs = [self.uvars.surf_vol, self.uvars.spec_file]
if self.cvars.val('on_surface') == 'yes':
if self.uvars.surf_mask != '': inputs.append(self.uvars.surf_mask)
else:
inputs.append(self.uvars.vol_mask)
# try converting to absolute paths
try: inputs = [ os.path.abspath(fname) for fname in inputs ]
except:
msg = '** cannot convert inputs to asolute path names:\n %s' % inputs
self.errors.append(msg)
return 1
top_dir, parent_dirs, short_dirs, short_names = \
UTIL.common_parent_dirs([inputs])
self.LV.top_dir = parent_dirs[0] # common parent dir
self.LV.short_names = short_names # if top_dir is used, they are under it
if self.cvars.verb > 2:
if self.cvars.val('on_surface') != 'yes':
print '-- set_dirs: top_dir = %s\n' \
' short surf_vol = %s\n' \
' short spec_file = %s\n' \
' short vol_mask = %s\n' % (self.LV.top_dir,
short_names[0][0], short_names[0][1], short_names[0][2])
else: # on surface
print '-- set_dirs: top_dir = %s\n' \
' short surf_vol = %s\n' \
' short spec_file = %s\n' % (self.LV.top_dir,
short_names[0][0], short_names[0][1])
if len(short_names[0]) > 2:
print ' short surf_mask = %s\n' % short_names[0][2]
# if top_dir isn't long enough, do not bother with it
if self.LV.top_dir.count('/') < 2:
self.LV.top_dir = ''
if self.cvars.verb > 2: print ' (top_dir not worth using...)'
return 0
def set_directories(self):
"""always use $top_dir with absolute paths to datasets
"""
inputs = [self.uvars.surf_vol, self.uvars.spec_file]
if self.cvars.val("on_surface") != "yes":
inputs.append(self.uvars.vol_mask)
# try converting to absolute paths
try:
inputs = [os.path.abspath(fname) for fname in inputs]
except:
msg = "** cannot convert inputs to asolute path names:\n %s" % inputs
self.errors.append(msg)
return 1
top_dir, parent_dirs, short_dirs, short_names = UTIL.common_parent_dirs([inputs])
self.LV.top_dir = parent_dirs[0] # common parent dir
self.LV.short_names = short_names # if top_dir is used, they are under it
if self.cvars.verb > 2:
if self.cvars.val("on_surface") != "yes":
print "-- set_dirs: top_dir = %s\n" " short surf_vol = %s\n" " short spec_file = %s\n" " short vol_mask = %s\n" % (
self.LV.top_dir,
short_names[0][0],
short_names[0][1],
short_names[0][2],
)
else: # on surface
print "-- set_dirs: top_dir = %s\n" " short surf_vol = %s\n" " short spec_file = %s\n" % (
self.LV.top_dir,
short_names[0][0],
short_names[0][1],
)
# if top_dir isn't long enough, do not bother with it
if self.LV.top_dir.count("/") < 2:
self.LV.top_dir = ""
if self.cvars.verb > 2:
print " (top_dir not worth using...)"
return 0
def set_directories(self):
"""decide on use of top_dir (use it or nothing - no anat_dir)
==> if top_dir is set, use $top_dir/short_names
else just use anat and epi directly
"""
top_dir, parent_dirs, short_dirs, short_names = \
UTIL.common_parent_dirs([[self.uvars.anat, self.uvars.epi]])
self.LV.top_dir = parent_dirs[0] # common parent dir
self.LV.short_names = short_names # if top_dir is used, they are under it
if self.uvars.verb > 2:
print '-- set_dirs: top_dir = %s\n' \
' short_anat = %s\n' \
' short_epi = %s\n' \
% (self.LV.top_dir, short_names[0][0], short_names[0][1])
# if top_dir isn't long enough, do not bother with it
if self.LV.top_dir.count('/') < 2:
self.LV.top_dir = ''
if self.uvars.verb > 2: print ' (top_dir not worth using...)'
def set_directories(self):
"""decide on use of top_dir (use it or nothing - no anat_dir)
==> if top_dir is set, use $top_dir/short_names
else just use anat and epi directly
"""
top_dir, parent_dirs, short_dirs, short_names = \
UTIL.common_parent_dirs([[self.uvars.anat, self.uvars.epi]])
self.LV.top_dir = parent_dirs[0] # common parent dir
self.LV.short_names = short_names # if top_dir is used, they are under it
if self.uvars.verb > 2:
print '-- set_dirs: top_dir = %s\n' \
' short_anat = %s\n' \
' short_epi = %s\n' \
% (self.LV.top_dir, short_names[0][0], short_names[0][1])
# if top_dir isn't long enough, do not bother with it
if self.LV.top_dir.count('/') < 2:
self.LV.top_dir = ''
if self.uvars.verb > 2: print ' (top_dir not worth using...)'
