<s> import urllib2 <EOL> import argparse <EOL> import numpy as np <EOL> import urllib2 <EOL> import cStringIO <EOL> import sys <EOL> import tempfile <EOL> import h5py <EOL> anno_names = { <NUM_LIT:1> : '<STR_LIT>' , <NUM_LIT:2> : '<STR_LIT>' , <NUM_LIT:3> : '<STR_LIT>' , <NUM_LIT:4> : '<STR_LIT>' , <NUM_LIT:5> : '<STR_LIT>' , <NUM_LIT:6> : '<STR_LIT>' } <EOL> def main ( ) : <EOL> parser = argparse . ArgumentParser ( description = '<STR_LIT>' ) <EOL> parser . add_argument ( '<STR_LIT>' , action = "<STR_LIT:store>" ) <EOL> parser . add_argument ( '<STR_LIT>' , action = "<STR_LIT:store>" ) <EOL> parser . add_argument ( '<STR_LIT>' , action = "<STR_LIT:store>" , help = '<STR_LIT>' ) <EOL> parser . add_argument ( '<STR_LIT>' , action = "<STR_LIT:store>" , help = '<STR_LIT>' , default = None ) <EOL> parser . add_argument ( '<STR_LIT>' , action = '<STR_LIT:store_true>' , help = '<STR_LIT>' ) <EOL> parser . add_argument ( '<STR_LIT>' , type = int , action = "<STR_LIT:store>" , default = None ) <EOL> parser . add_argument ( '<STR_LIT>' , type = int , action = "<STR_LIT:store>" , default = None ) <EOL> result = parser . parse_args ( ) <EOL> url = '<STR_LIT>' % ( result . baseurl , result . token ) <EOL> if result . type != None : <EOL> url += '<STR_LIT>' % ( result . type ) <EOL> if result . status != None : <EOL> url += '<STR_LIT>' % ( result . status ) <EOL> print "<STR_LIT>" , url <EOL> try : <EOL> f = urllib2 . urlopen ( url ) <EOL> except urllib2 . URLError , e : <EOL> print "<STR_LIT>" , url <EOL> print "<STR_LIT>" % ( e . read ( ) ) <EOL> sys . exit ( <NUM_LIT:0> ) <EOL> tmpfile = tempfile . NamedTemporaryFile ( ) <EOL> tmpfile . write ( f . read ( ) ) <EOL> f . close ( ) <EOL> tmpfile . tell ( ) <EOL> h5f = h5py . File ( tmpfile . name , driver = '<STR_LIT>' , backing_store = False ) <EOL> if h5f . get ( '<STR_LIT>' ) : <EOL> if len ( h5f [ '<STR_LIT>' ] ) == <NUM_LIT:0> : <EOL> print "<STR_LIT>" <EOL> sys . exit ( <NUM_LIT:0> ) <EOL> else : <EOL> print "<STR_LIT>" <EOL> sys . exit ( <NUM_LIT:0> ) <EOL> for annoid in np . array ( h5f [ '<STR_LIT>' ] [ : ] ) : <EOL> if result . resolution == None : <EOL> url = "<STR_LIT>" % ( result . baseurl , result . token , annoid ) <EOL> else : <EOL> url = "<STR_LIT>" % ( result . baseurl , result . token , result . annids , annoid ) <EOL> try : <EOL> f = urllib2 . urlopen ( url ) <EOL> except urllib2 . URLError , e : <EOL> print "<STR_LIT>" , url <EOL> print "<STR_LIT>" % ( e ) <EOL> sys . exit ( <NUM_LIT:0> ) <EOL> tmpfile = tempfile . NamedTemporaryFile ( ) <EOL> tmpfile . write ( f . read ( ) ) <EOL> f . close ( ) <EOL> tmpfile . tell ( ) <EOL> h5f = h5py . File ( tmpfile . name , driver = '<STR_LIT>' , backing_store = False ) <EOL> idgrp = h5f . get ( h5f . keys ( ) [ <NUM_LIT:0> ] ) <EOL> print "<STR_LIT>" % ( idgrp [ '<STR_LIT>' ] [ : ] , idgrp [ '<STR_LIT>' ] [ : ] ) <EOL> cutoutdim = idgrp [ '<STR_LIT>' ] [ : ] <EOL> if cutoutdim [ <NUM_LIT:0> ] * cutoutdim [ <NUM_LIT:1> ] * cutoutdim [ <NUM_LIT:2> ] > <NUM_LIT:2> ** <NUM_LIT> : <EOL> sys . stderr . write ( "<STR_LIT>" % ( annoid , cutoutdim [ <NUM_LIT:0> ] * cutoutdim [ <NUM_LIT:1> ] * cutoutdim [ <NUM_LIT:2> ] ) ) <EOL> sys . stderr . flush ( ) <EOL> continue <EOL> h5f . close ( ) <EOL> if not result . cutout : <EOL> if result . resolution == None : <EOL> url = "<STR_LIT>" % ( result . baseurl , result . token , annoid ) <EOL> else : <EOL> url = "<STR_LIT>" % ( result . baseurl , result . token , annoid , result . resolution ) <EOL> else : <EOL> if result . resolution == None : <EOL> url = "<STR_LIT>" % ( result . baseurl , result . token , annoid ) <EOL> else : <EOL> url = "<STR_LIT>" % ( result . baseurl , result . token , annoid , result . resolution ) <EOL> try : <EOL> f = urllib2 . urlopen ( url ) <EOL> except urllib2 . URLError , e : <EOL> print "<STR_LIT>" , url <EOL> print "<STR_LIT>" % ( e . read ( ) ) <EOL> sys . exit ( <NUM_LIT:0> ) <EOL> filename = "<STR_LIT>" + str ( annoid ) + "<STR_LIT>" <EOL> fh = open ( filename , '<STR_LIT:w>' ) <EOL> fh . write ( f . read ( ) ) <EOL> fh . tell ( ) <EOL> h5f = h5py . File ( filename ) <EOL> idgrp = h5f . get ( h5f . keys ( ) [ <NUM_LIT:0> ] ) <EOL> print "<STR_LIT>" , h5f . keys ( ) [ <NUM_LIT:0> ] <EOL> print "<STR_LIT>" , anno_names [ idgrp [ '<STR_LIT>' ] [ <NUM_LIT:0> ] ] <EOL> mdgrp = idgrp [ '<STR_LIT>' ] <EOL> if idgrp . get ( '<STR_LIT>' ) : <EOL> print "<STR_LIT>" , len ( idgrp [ '<STR_LIT>' ] [ : ] ) <EOL> elif not result . cutout : <EOL> print "<STR_LIT>" <EOL> if idgrp . get ( '<STR_LIT>' ) and idgrp . get ( '<STR_LIT>' ) : <EOL> print "<STR_LIT>" % ( idgrp [ '<STR_LIT>' ] [ : ] , idgrp [ '<STR_LIT>' ] . shape ) <EOL> print "<STR_LIT>" % ( len ( np . nonzero ( np . array ( idgrp [ '<STR_LIT>' ] [ : , : , : ] ) ) [ <NUM_LIT:0> ] ) ) <EOL> h5f . flush ( ) <EOL> h5f . close ( ) <EOL> if __name__ == "<STR_LIT:__main__>" : <EOL> main ( ) </s>
