def get_summary_data( filename, whiskers, trajectories ):
if os.path.exists(filename):
data = numpy.load(filename)
else:
data = array(list( summary.features(whiskers) ))
numpy.save( filename, data )
return data
return summary.commit_traj_to_data_table( trajectories, data )
if not os.path.exists(os.path.split(dst)[0]):
if os.path.split(dst)[0]!='':
raise IOError, "Could not find destination path %s"%os.path.split(dst)[0]
if not all( map( os.path.exists, args )):
raise IOError, "Could not find one or more input source files."
if all(map( lambda f: os.path.splitext(f)[-1] in ['.trajectories','.whiskers'], args )):
if len(args)==1:
src = args[0]
tfile = None
else:
src = args[1] #know the order b.c. already sorted by file extenstion
tfile = args[0]
w = trace.Load_Whiskers( src )
data = numpy.array(list( summary.features(w, options.face) ))
if tfile:
t,tid = load_trajectories( tfile )
summary.commit_traj_to_data_table( t, data )
elif all(map( lambda f: os.path.splitext(f)[-1] in ['.trajectories','.measurements'], args )):
sources = dict( map( lambda f: (os.path.splitext(f)[-1], f), args ) )
try:
data = traj.MeasurementsTable( sources['.measurements'] ).asarray()
except KeyError:
raise UserException, "A .measurements file must be provided as one of the source files."
try:
t,tid = load_trajectories( sources['.trajectories'] )
if not all(map(os.path.exists, args)):
raise IOError, "Could not find one or more input source files."
if all(
map(
lambda f: os.path.splitext(f)[-1] in
['.trajectories', '.whiskers'], args)):
if len(args) == 1:
src = args[0]
tfile = None
else:
src = args[
1] #know the order b.c. already sorted by file extenstion
tfile = args[0]
w = trace.Load_Whiskers(src)
data = numpy.array(list(summary.features(w, options.face)))
if tfile:
t, tid = load_trajectories(tfile)
summary.commit_traj_to_data_table(t, data)
elif all(
map(
lambda f: os.path.splitext(f)[-1] in
['.trajectories', '.measurements'], args)):
sources = dict(map(lambda f: (os.path.splitext(f)[-1], f), args))
try:
data = traj.MeasurementsTable(sources['.measurements']).asarray()
except KeyError:
raise UserException, "A .measurements file must be provided as one of the source files."
import traj
from ui.whiskerdata import save_trajectories
warnings.simplefilter("default",UserWarning)
if __name__ == '__main__':
parser = optparse.OptionParser( usage = "Usage: %prog source destination" )
options,args = parser.parse_args()
if len(args) != 2:
parser.error( "Expected source and destination file names but recieved %d arguments."%len(args) )
src, dst = args
if not os.path.exists(os.path.split(dst)[0]): # check path, do this before doing long calculation
raise IOError, "Could not find destination file %s"%dst
#
# Get data from source
#
ext = os.path.splitext(src)[1]
if ext == '.whiskers':
w = trace.Load_Whiskers(src)
data = array(list( summary.features(w) ))
elif ext == '.measurements':
data = traj.MeasurementsTable(src).asarray()
else:
raise IOError, "Source file extension not recognized. Got: %s"%ext
traj = summary._simpletraj(data)
save_trajectories(dst, traj)
warnings.simplefilter("default", UserWarning)
if __name__ == '__main__':
parser = optparse.OptionParser(usage="Usage: %prog source destination")
options, args = parser.parse_args()
if len(args) != 2:
parser.error(
"Expected source and destination file names but recieved %d arguments."
% len(args))
src, dst = args
if not os.path.exists(os.path.split(
dst)[0]): # check path, do this before doing long calculation
raise IOError, "Could not find destination file %s" % dst
#
# Get data from source
#
ext = os.path.splitext(src)[1]
if ext == '.whiskers':
w = trace.Load_Whiskers(src)
data = array(list(summary.features(w)))
elif ext == '.measurements':
data = traj.MeasurementsTable(src).asarray()
else:
raise IOError, "Source file extension not recognized. Got: %s" % ext
traj = summary._simpletraj(data)
save_trajectories(dst, traj)
