comparison tools/mira4_0/mira4.py @ 38:cee8f9005e43 draft

planemo upload for repository https://github.com/peterjc/galaxy_mira/tree/master/tools/mira4_0 commit 206259620376b322fc8ed99a6efdd3712f38764b

37:eeeb21870a73

#!/usr/bin/env python
"""A simple wrapper script to call MIRA and collect its output.
"""

from __future__ import print_function

import os
import shutil

            sys.stderr.write(line)
    sys.stderr.write("\n%s\nEnd of manifest\n%s\n" % ("=" * 60, "=" * 60))


def collect_output(temp, name, handle):
    """Moves files to the output filenames (global variables)."""
    f = "%s/%s_assembly/%s_d_results" % (temp, name, name)
    if not os.path.isdir(f):
        log_manifest(manifest)
        sys.exit("Missing output folder")
    if not os.listdir(f):

        if msg:
            sys.exit(msg)


def clean_up(temp, name):
    folder = "%s/%s_assembly" % (temp, name)
    if os.path.isdir(folder):
        shutil.rmtree(folder)

38:cee8f9005e43

#!/usr/bin/env python
"""A simple wrapper script to call MIRA and collect its output."""

from __future__ import print_function

import os
import shutil

            sys.stderr.write(line)
    sys.stderr.write("\n%s\nEnd of manifest\n%s\n" % ("=" * 60, "=" * 60))


def collect_output(temp, name, handle):
    """Move files to the output filenames (global variables)."""
    f = "%s/%s_assembly/%s_d_results" % (temp, name, name)
    if not os.path.isdir(f):
        log_manifest(manifest)
        sys.exit("Missing output folder")
    if not os.listdir(f):

        if msg:
            sys.exit(msg)


def clean_up(temp, name):
    """Remove temp files."""
    folder = "%s/%s_assembly" % (temp, name)
    if os.path.isdir(folder):
        shutil.rmtree(folder)