def main(argv=None):
"""script main.
parses command line options in sys.argv, unless *argv* is given.
"""
if argv is None:
argv = sys.argv
# setup command line parser
parser = E.OptionParser(version="%prog version: $Id$",
usage=globals()["__doc__"])
parser.add_option("-t",
"--test",
dest="test",
type="string",
help="supply help")
parser.set_defaults(
directories=["scripts", "CGAT", "CGAT/scripts", "CGATPipelines"])
# add common options (-h/--help, ...) and parse command line
(options, args) = E.Start(parser, argv=argv)
# collect all dependencies
dependencies = {}
for directory in options.directories:
files = glob.glob(os.path.join(directory, "*.py"))
E.debug("processing %i files in %s" % (len(files), directory))
for f in files:
dependencies[f] = Requirements.checkRequirementsFromFile(f)
# group by tool
tools = collections.defaultdict(list)
for key, deps in list(dependencies.items()):
for r in deps:
tools[r.tool].append((r, key))
options.stdout.write("tool\trequired\tinstalled\tis_required\tlocations\n")
for tool, deps in sorted(tools.items()):
options.stdout.write("\t".join(
(tool, ",".join(
numpy.unique(
[x[0].operation + x[0].required_version for x in deps])),
",".join(numpy.unique([x[0].installed_version for x in deps])),
str(not numpy.all([x[0].optional for x in deps])),
",".join(numpy.unique([x[1] for x in deps])))) + "\n")
E.Stop()
def main(argv=None):
"""script main.
parses command line options in sys.argv, unless *argv* is given.
"""
if argv is None:
argv = sys.argv
# setup command line parser
parser = E.OptionParser(version="%prog version: $Id$",
usage=globals()["__doc__"])
parser.add_option("-t", "--test", dest="test", type="string",
help="supply help")
parser.set_defaults(
directories=["scripts", "CGAT", "CGATPipelines"])
# add common options (-h/--help, ...) and parse command line
(options, args) = E.Start(parser, argv=argv)
# collect all dependencies
dependencies = {}
for directory in options.directories:
files = glob.glob(os.path.join(directory, "*.py"))
E.debug("processing %i files in %s" % (len(files), directory))
for f in files:
dependencies[f] = Requirements.checkRequirementsFromFile(f)
# group by tool
tools = collections.defaultdict(list)
for key, deps in dependencies.items():
for r in deps:
tools[r.tool].append((r, key))
options.stdout.write(
"tool\trequired\tinstalled\tis_required\tlocations\n")
for tool, deps in sorted(tools.items()):
options.stdout.write("\t".join((
tool,
",".join(numpy.unique(
[x[0].operation + x[0].required_version for x in deps])),
",".join(numpy.unique(
[x[0].installed_version for x in deps])),
str(not numpy.all([x[0].optional for x in deps])),
",".join(numpy.unique(
[x[1] for x in deps])))) + "\n")
E.Stop()
