def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option('-o',
'--overwrite',
action='store_true',
help="Overwrite the destination files. "
"If this is not set, an error is generated if "
"the destination file exists.")
parser.add_option(
'-i',
'--insert-package-inits',
action='store_true',
help=
"Automatically create missing __init__.py in intervening directories.")
opts, args = parser.parse_args()
if len(args) != 1:
parser.error("You must specify the destination root.")
dest, = args
if not opts.overwrite and exists(dest):
logging.error("Cannot overwrite '%s'." % dest)
sys.exit(1)
depends = list(read_depends(sys.stdin))
for droot, drel in flatten_depends(depends):
srcfn = join(droot, drel)
if isdir(srcfn):
drel = join(drel, '__init__.py')
srcfn = join(droot, drel)
dstfn = join(dest, drel)
if not opts.overwrite and exists(dstfn):
logging.error("Cannot overwrite '%s'." % dstfn)
sys.exit(1)
destdir = dirname(dstfn)
if not exists(destdir):
os.makedirs(destdir)
print_('Copying: %s' % srcfn)
if not exists(srcfn):
logging.error("Could not copy file '%s'." % srcfn)
continue
shutil.copyfile(srcfn, dstfn)
if opts.insert_package_inits:
for root, dirs, files in os.walk(dest):
if root == dest:
continue # Not needed at the very root.
initfn = join(root, '__init__.py')
if not exists(initfn):
print_('Creating: %s' % initfn)
f = open(initfn, 'w')
f.close()
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
opts, renames = parser.parse_args()
if len(renames) % 2:
parser.error("An odd number of renames was specified.")
renames = [(re.compile(regexp), target)
for regexp, target in iterpairs(renames)]
depends = read_depends(sys.stdin)
clusfiles = defaultdict(set)
for (froot, f), (troot, t) in depends:
for rename, target in renames:
if rename.match(f):
f = target
break
cfrom = (froot, f)
for rename, target in renames:
if t and rename.match(t):
t = target
break
cto = (troot, t)
# Skip self-dependencies that may occur.
if cfrom == cto:
cto = (None, None)
clusfiles[cfrom].add(cto)
output_depends(clusfiles)
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option('-f', '--from-file', action='store',
help="Read cluster list from the given filename.")
opts, clusters = parser.parse_args()
if opts.from_file:
clusters.extend(read_clusters(opts.from_file))
depends = read_depends(sys.stdin)
clusfiles = defaultdict(set)
for (froot, f), (troot, t) in depends:
cfrom = apply_cluster(clusters, froot, f)
cto = apply_cluster(clusters, troot, t)
# Skip self-dependencies that may occur.
if cfrom == cto:
cto = (None, None)
clusfiles[cfrom].add(cto)
output_depends(clusfiles)
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option('-f',
'--from-file',
action='store',
help="Read cluster list from the given filename.")
opts, clusters = parser.parse_args()
if opts.from_file:
clusters.extend(read_clusters(opts.from_file))
depends = read_depends(sys.stdin)
clusfiles = defaultdict(set)
for (froot, f), (troot, t) in depends:
cfrom = apply_cluster(clusters, froot, f)
cto = apply_cluster(clusters, troot, t)
# Skip self-dependencies that may occur.
if cfrom == cto:
cto = (None, None)
clusfiles[cfrom].add(cto)
output_depends(clusfiles)
def main():
parser = optparse.OptionParser(__doc__.strip())
opts, args = parser.parse_args()
depends = read_depends(sys.stdin)
for droot, drel in flatten_depends(depends):
print(join(droot, drel))
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
opts, renames = parser.parse_args()
if len(renames) % 2:
parser.error("An odd number of renames was specified.")
renames = [(re.compile(regexp), target)
for regexp, target in iterpairs(renames)]
depends = read_depends(sys.stdin)
clusfiles = defaultdict(set)
for (froot, f), (troot, t) in depends:
for rename, target in renames:
if rename.match(f):
f = target
break
cfrom = (froot, f)
for rename, target in renames:
if t and rename.match(t):
t = target
break
cto = (troot, t)
# Skip self-dependencies that may occur.
if cfrom == cto:
cto = (None, None)
clusfiles[cfrom].add(cto)
output_depends(clusfiles)
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
opts, args = parser.parse_args()
depends = read_depends(sys.stdin)
for droot, drel in flatten_depends(depends):
print_(join(droot, drel))
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option('-o', '--overwrite', action='store_true',
help="Overwrite the destination files. "
"If this is not set, an error is generated if "
"the destination file exists.")
parser.add_option('-i', '--insert-package-inits', action='store_true',
help="Automatically create missing __init__.py in intervening directories.")
opts, args = parser.parse_args()
if len(args) != 1:
parser.error("You must specify the destination root.")
dest, = args
if not opts.overwrite and exists(dest):
logging.error("Cannot overwrite '%s'." % dest)
sys.exit(1)
depends = list(read_depends(sys.stdin))
for droot, drel in flatten_depends(depends):
srcfn = join(droot, drel)
if isdir(srcfn):
drel = join(drel, '__init__.py')
srcfn = join(droot, drel)
dstfn = join(dest, drel)
if not opts.overwrite and exists(dstfn):
logging.error("Cannot overwrite '%s'." % dstfn)
sys.exit(1)
destdir = dirname(dstfn)
if not exists(destdir):
os.makedirs(destdir)
print 'Copying: %s' % srcfn
if not exists(srcfn):
logging.error("Could not copy file '%s'." % srcfn)
continue
shutil.copyfile(srcfn, dstfn)
if opts.insert_package_inits:
for root, dirs, files in os.walk(dest):
if root == dest:
continue # Not needed at the very root.
initfn = join(root, '__init__.py')
if not exists(initfn):
print 'Creating: %s' % initfn
f = open(initfn, 'w')
f.close()
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option('-f', '--full-pathnames', '--full', action='store_true',
help="Output the full pathnames, not just the relative.")
parser.add_option('-p', '--pythonify-filenames', '--remove-extensions',
action='store_true',
help="Remove filename extensions in the graph and "
"replace slashes with dots.")
parser.add_option('-r', '--redundant', action='store_false', default=True,
help="Do not eliminate redundant dependencies.")
parser.add_option('--fontsize', action='store', type='int',
default=10,
help="The size of the font to use for nodes.")
parser.add_option('--rankdir', action='store',
default='LR',
help="The direction of the graph layout (dot only). LR or TB.")
parser.add_option('--size', action='store',
default='8,10',
help="Size.")
parser.add_option('--shape', action='store',
default='ellipse',
help="Node shape. [ellipse,box,..]")
parser.add_option('--ratio', action='store',
default='fill',
help="See http://www.graphviz.org/doc/info/attrs.html#d:ratio.")
global opts
opts, args = parser.parse_args()
if not args:
args = ['-']
for fn in args:
if fn == '-':
f = sys.stdin
else:
f = open(fn)
depends = read_depends(f)
if opts.redundant:
depends = eliminate_redundant_depends(depends)
graph(depends, sys.stdout.write, opts.fontsize, opts.rankdir,
opts.size, opts.ratio, opts.shape)
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option('-f',
'--full-pathnames',
'--full',
action='store_true',
help="Output the full pathnames, not just the relative.")
parser.add_option('-p',
'--pythonify-filenames',
'--remove-extensions',
action='store_true',
help="Remove filename extensions in the graph and "
"replace slashes with dots.")
parser.add_option('-r',
'--redundant',
action='store_false',
default=True,
help="Do not eliminate redundant dependencies.")
parser.add_option('--fontsize',
action='store',
type='int',
default=10,
help="The size of the font to use for nodes.")
parser.add_option('--dpi',
action='store',
type='int',
default=-1,
help="Resolution to use for graph.")
global opts
opts, args = parser.parse_args()
if not args:
args = ['-']
for fn in args:
if fn == '-':
f = sys.stdin
else:
f = open(fn)
depends = read_depends(f)
if opts.redundant:
depends = eliminate_redundant_depends(depends)
graph(depends, sys.stdout.write, opts.fontsize, opts.dpi)
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option(
"-f",
"--full-pathnames",
"--full",
action="store_true",
help="Output the full pathnames, not just the relative.",
)
parser.add_option(
"-p",
"--pythonify-filenames",
"--remove-extensions",
action="store_true",
help="Remove filename extensions in the graph and " "replace slashes with dots.",
)
parser.add_option(
"-r", "--redundant", action="store_false", default=True, help="Do not eliminate redundant dependencies."
)
parser.add_option(
"--fontsize", action="store", type="int", default=10, help="The size of the font to use for nodes."
)
global opts
opts, args = parser.parse_args()
if not args:
args = ["-"]
for fn in args:
if fn == "-":
f = sys.stdin
else:
f = open(fn)
depends = read_depends(f)
if opts.redundant:
depends = eliminate_redundant_depends(depends)
graph(depends, sys.stdout.write, opts.fontsize)
def main():
import optparse
parser = optparse.OptionParser()
parser.add_option('-f',
'--from-file',
action='store',
help="Read cluster list from the given filename.")
opts, renames = parser.parse_args()
if opts.from_file:
renames.extend(read_clusters(opts.from_file))
if len(renames) % 2:
parser.error("An odd number of renames was specified.")
renames = [(re.compile(regexp), target)
for regexp, target in iterpairs(renames)]
depends = read_depends(sys.stdin)
clusfiles = defaultdict(set)
for (froot, f), (troot, t) in depends:
for rename, target in renames:
if rename.match(f):
f = target
break
cfrom = (froot, f)
for rename, target in renames:
if t and rename.match(t):
t = target
break
cto = (troot, t)
# Skip self-dependencies that may occur.
if cfrom == cto:
cto = (None, None)
clusfiles[cfrom].add(cto)
output_depends(clusfiles)
def main():
import optparse
parser = optparse.OptionParser(__doc__.strip())
parser.add_option('-f', '--full-pathnames', '--full', action='store_true',
help="Output the full pathnames, not just the relative.")
parser.add_option('-p', '--pythonify-filenames', '--remove-extensions',
action='store_true',
help="Remove filename extensions in the graph and "
"replace slashes with dots.")
parser.add_option('-r', '--redundant', action='store_false', default=True,
help="Do not eliminate redundant dependencies.")
parser.add_option('--fontsize', action='store', type='int',
default=10,
help="The size of the font to use for nodes.")
global opts
opts, args = parser.parse_args()
if not args:
args = ['-']
color_map = {}
for fn in args:
if fn == '-':
f = sys.stdin
else:
f = open(fn)
depends = read_depends(f)
if opts.redundant:
depends = eliminate_redundant_depends(depends)
graph(depends, sys.stdout.write, opts.fontsize, color_map)
#!/usr/bin/python
import sys
from snakefood.depends import read_depends
## def read_depends(f):
## "Generator for the dependencies read from the given file object."
## for line in f:
## try:
## yield eval(line)
## except Exception:
## logging.warning("Invalid line: '%s'" % line)
depends = read_depends(sys.stdin)
for d in depends:
if d[0][0].startswith("/home/nbecker/idma-cdma") and (
d[1][0] == None or d[1][0].startswith("/home/nbecker/idma-cdma")
):
print d
#!/usr/bin/python
import sys
from snakefood.depends import read_depends
## def read_depends(f):
## "Generator for the dependencies read from the given file object."
## for line in f:
## try:
## yield eval(line)
## except Exception:
## logging.warning("Invalid line: '%s'" % line)
depends = read_depends(sys.stdin)
for d in depends:
if (d[0][0].startswith ('/home/nbecker/idma-cdma') and \
(d[1][0] == None or \
d[1][0].startswith ('/home/nbecker/idma-cdma'))):
print(d)
