def setUp(self):
self.nex = NexusReader()
self.nex.read_string(
"""Begin data;
Dimensions ntax=3 nchar=2;
Format datatype=standard symbols="01" gap=-;
Charstatelabels
1 char1, 2 char2;
Matrix
Maori 14
Dutch 25
Latin 36
;""")
self.nex = binarise(self.nex)
if __name__ == '__main__':
#set up command-line options
from optparse import OptionParser
parser = OptionParser(usage="usage: %prog old.nex new.nex")
parser.add_option("-1", "--onefile", dest="onefile",
action="store_true", default=False,
help="One nexus file for each multistate character")
options, args = parser.parse_args()
try:
nexusname = args[0]
newnexusname = args[1]
except IndexError:
print __doc__
print "Author: %s\n" % __author__
parser.print_help()
sys.exit()
nexus = NexusReader(nexusname)
new = binarise(nexus, one_nexus_per_block=options.onefile)
if isinstance(new, NexusWriter):
new.write_to_file(newnexusname)
elif len(new) > 1:
newnexusname, ext = os.path.splitext(newnexusname)
for nex in new:
nex.write_to_file("%s-%s%s" % (newnexusname, nex.clean(nex.characters[0]), ext))
if __name__ == '__main__':
#set up command-line options
from optparse import OptionParser
parser = OptionParser(usage="usage: %prog old.nex new.nex")
parser.add_option("-1", "--onefile", dest="onefile",
action="store_true", default=False,
help="One nexus file for each multistate character")
options, args = parser.parse_args()
try:
nexusname = args[0]
newnexusname = args[1]
except IndexError:
print(__doc__)
print("Author: %s\n" % __author__)
parser.print_help()
sys.exit()
nexus = NexusReader(nexusname)
new = binarise(nexus, one_nexus_per_block=options.onefile)
if isinstance(new, NexusWriter):
new.write_to_file(newnexusname)
elif len(new) > 1:
newnexusname, ext = os.path.splitext(newnexusname)
for nex in new:
nex.write_to_file("%s-%s%s" % (newnexusname, nex.clean(nex.characters[0]), ext))
