def main():
parser = lcommon.init_options()
Stack.addJobTreeOptions(parser)
options, args = parser.parse_args()
i = Stack(Setup(args)).startJobTree(options)
if i:
raise RuntimeError("The jobtree contains %d failed jobs.\n" % i)
def main():
usage = ("%prog <clonefile> <vfile> <jfile> <dfile> <outdir> <modeldir>")
parser = lcommon.init_options(usage)
Stack.addJobTreeOptions(parser)
options, args = parser.parse_args()
i = Stack(Setup(args)).startJobTree(options)
if i:
raise RuntimeError("The jobtree contains %d failed jobs.\n" % i)
def main():
usage = "%prog <indir> <outdir> [options]"
parser = lcommon.init_options(usage)
Stack.addJobTreeOptions(parser)
options, args = parser.parse_args()
indir = args[0]
outdir = args[1]
i = Stack(Setup(indir, outdir)).startJobTree(options)
if i:
raise RuntimeError("The jobtree contains %d failed jobs.\n" % i)
def main():
usage = "%prog <db_dir> <model_file> <outfile> [options]"
parser = lcommon.init_options(usage)
Stack.addJobTreeOptions(parser)
options, args = parser.parse_args()
db_dir = args[0]
model_file = args[1]
outfile = args[2]
i = Stack(Setup(db_dir, model_file, outfile, options)).startJobTree(options)
if i:
raise RuntimeError("The jobtree contains %d failed jobs.\n" % i)
def main():
usage = (
"%prog <clone_file> <model_dir|model_pickle_file> <db_dir> <numclone_file>"
+ "<out_dir> <ingroup> <outgroup> <lenllh> <clonellh>"
)
parser = lcommon.init_options(usage)
Stack.addJobTreeOptions(parser)
options, args = parser.parse_args()
i = Stack(Setup(args)).startJobTree(options)
if i:
raise RuntimeError("The jobtree contains %d failed jobs.\n" % i)
def main():
usage = ("%prog <db_dir> <sample_list> <minimum_sample> <outdir>")
parser = lcommon.init_options(usage)
parser.add_option('-c', '--c2s2s_dir', default=None,
help=('Directory contains clone2sample2size info. ' +
'Default=%default.'))
parser.add_option('--maxsam', dest='maxsam', type='int', default=None)
Stack.addJobTreeOptions(parser)
options, args = parser.parse_args()
i = Stack(Setup(args, options)).startJobTree(options)
if i:
raise RuntimeError("The jobtree contains %d failed jobs.\n" % i)
def main():
usage = ("%prog <indir> <minimum_sample> <outdir>")
parser = lcommon.init_options(usage)
parser.add_option('-m', '--maxsam', dest='maxsam', type='int',
default=None, help=('max number of samples'))
parser.add_option('--db', dest='db', action='store_true', default=False,
help=('Specified if indir is the db dir instead of the' +
' clone2sample2size dir. Default=%default'))
parser.add_option('-s', '--sampling', dest='sampling', default=None,
type='int', help=('number of clones in each numshare ' +
'category to take. default=%default'))
Stack.addJobTreeOptions(parser)
options, args = parser.parse_args()
i = Stack(Setup(args, options)).startJobTree(options)
if i:
raise RuntimeError("The jobtree contains %d failed jobs.\n" % i)
