def main():
pickledir = sys.argv[1]
FileNames = libutil.get_file_names(pickledir, filter='.pickle')
FileNames.sort()
outdir = './properties'
libutil.makedir(outdir)
s1path_out = open(os.path.join(outdir, "sideonepath.txt"), 'w')
s2path_out = open(os.path.join(outdir, "sidetwopath.txt"), 'w')
midline_out = open(os.path.join(outdir, "midline.txt"), 'w')
nosetip_out = open(os.path.join(outdir, "nosetip.txt"), 'w')
tailtip_out = open(os.path.join(outdir, "tailtip.txt"), 'w')
intensity_test = open(os.path.join(outdir, "intensitystest.txt"), 'w')
volume_test = open(os.path.join(outdir, "volumetest.txt"), 'w')
int_vol_test = open(os.path.join(outdir, "int-vol-test.txt"), 'w')
is_loop_test = open(os.path.join(outdir, "is_loop.txt"), 'w')
for file in FileNames:
NamePrefix = file.strip('.pickle')
SeqNumber = int(NamePrefix.split('_')[-1])
try:
l = cPickle.load(open(file, 'rb'))
nosetiptxt = "%6i, %4i, %4i \n" % (SeqNumber, l["head"][0],
l["head"][1])
tailtiptxt = "%6i, %4i, %4i \n" % (SeqNumber, l["tail"][0],
l["tail"][1])
intensitytxt = "%6i, %s \n" % (SeqNumber, l["intensitytest"])
volumetxt = "%6i, %s \n" % (SeqNumber, l["volumetest"])
int_vol_txt = "%6i, %s %s \n" % (SeqNumber, l["intensitytest"],
l["volumetest"])
is_loop_txt = "%6i, %s \n" % (SeqNumber, l["is_loop"])
midlinetxt = format_list_of_points(l["midline"], SeqNumber)
s1pathtxt = format_list_of_points2(l["s1path"], SeqNumber)
s2pathtxt = format_list_of_points2(l["s2path"], SeqNumber)
except:
nosetiptxt = "%6i, -1, -1 \n" % SeqNumber
tailtiptxt = "%6i, -1, -1 \n" % SeqNumber
intensitytxt = "%6i, -1 \n" % SeqNumber
volumetxt = "%6i, -1 \n" % SeqNumber
int_vol_txt = "%6i -1, -1\n" % SeqNumber
is_loop_txt = "%6i -1 \n" % SeqNumber
midlinetxt = "%6i, -1 \n" % SeqNumber
s1pathtxt = "%6i, -1 \n" % SeqNumber
s2pathtxt = "%6i, -1 \n" % SeqNumber
raise
nosetip_out.write(nosetiptxt)
tailtip_out.write(tailtiptxt)
intensity_test.write(intensitytxt)
volume_test.write(volumetxt)
int_vol_test.write(int_vol_txt)
is_loop_test.write(is_loop_txt)
midline_out.write(midlinetxt)
s1path_out.write(s1pathtxt)
s2path_out.write(s2pathtxt)
def main():
pickledir=sys.argv[1]
FileNames = libutil.get_file_names(pickledir,filter='.pickle')
FileNames.sort()
outdir = './properties'
libutil.makedir(outdir)
s1path_out = open(os.path.join(outdir,"sideonepath.txt"),'w')
s2path_out = open(os.path.join(outdir,"sidetwopath.txt"),'w')
midline_out = open(os.path.join(outdir,"midline.txt"),'w')
nosetip_out = open(os.path.join(outdir,"nosetip.txt"),'w')
tailtip_out = open(os.path.join(outdir,"tailtip.txt"),'w')
intensity_test = open(os.path.join(outdir,"intensitystest.txt"),'w')
volume_test = open(os.path.join(outdir,"volumetest.txt"),'w')
int_vol_test = open(os.path.join(outdir,"int-vol-test.txt"),'w')
is_loop_test = open(os.path.join(outdir,"is_loop.txt"),'w')
for file in FileNames:
NamePrefix = file.strip('.pickle')
SeqNumber = int(NamePrefix.split('_')[-1])
try:
l = cPickle.load(open(file,'rb'))
nosetiptxt = "%6i, %4i, %4i \n" % (SeqNumber,l["head"][0],l["head"][1])
tailtiptxt = "%6i, %4i, %4i \n" % (SeqNumber,l["tail"][0],l["tail"][1])
intensitytxt = "%6i, %s \n" %(SeqNumber,l["intensitytest"])
volumetxt = "%6i, %s \n" %(SeqNumber,l["volumetest"])
int_vol_txt = "%6i, %s %s \n" %(SeqNumber,l["intensitytest"],l["volumetest"])
is_loop_txt = "%6i, %s \n" % (SeqNumber,l["is_loop"])
midlinetxt = format_list_of_points(l["midline"],SeqNumber)
s1pathtxt = format_list_of_points2(l["s1path"],SeqNumber)
s2pathtxt = format_list_of_points2(l["s2path"],SeqNumber)
except:
nosetiptxt = "%6i, -1, -1 \n" % SeqNumber
tailtiptxt = "%6i, -1, -1 \n" % SeqNumber
intensitytxt = "%6i, -1 \n" % SeqNumber
volumetxt = "%6i, -1 \n" % SeqNumber
int_vol_txt = "%6i -1, -1\n" % SeqNumber
is_loop_txt = "%6i -1 \n" %SeqNumber
midlinetxt = "%6i, -1 \n" % SeqNumber
s1pathtxt = "%6i, -1 \n" % SeqNumber
s2pathtxt = "%6i, -1 \n" % SeqNumber
raise
nosetip_out.write(nosetiptxt)
tailtip_out.write(tailtiptxt)
intensity_test.write(intensitytxt)
volume_test.write(volumetxt)
int_vol_test.write(int_vol_txt)
is_loop_test.write(is_loop_txt)
midline_out.write(midlinetxt)
s1path_out.write(s1pathtxt)
s2path_out.write(s2pathtxt)
BGIMAGE = args.BGIMAGE
THRESH = int(args.THRESH)
THRESH_DIFF = int(args.THRESH_DIFF)
NPOINTS = int(args.NPOINTS)
ANGLE_STEP_SIZE = int(args.ANGLE_STEP_SIZE)
FILTER = args.FILTER
STARTFRAME,ENDFRAME = int(args.FRAMERANGE[0]),int(args.FRAMERANGE[1])
DETMETHOD = int(args.DETMETHOD)
WORMWIDTH = int(args.WORMWIDTH)
WORMLENGTH = float(args.WORMLENGTH)
if STARTFRAME >= ENDFRAME:
print "Start frame %i >= than End frame %i. Please correct and re-run." % (STARTFRAME,ENDFRAME)
sys.exit()
libutil.makedir(SCRATCHDIR)
libutil.makedir(VIZDIR)
max_image = scipy.misc.imread(BGIMAGE)
try:
from mpi4py import MPI
comm = MPI.COMM_WORLD
if comm.Get_size() == 1:
localmain(IMGDIR,NPROCS)
else:
mpimain(IMGDIR)
except ImportError:
# cProfile.run( 'localmain(FileNames,NPROCS) )
# import pycallgraph