vg_common.py 文件源码

def get_vg_script(job, runner, script_name, work_dir):
    """
    getting the path to a script in vg/scripts is different depending on if we're
    in docker or not.  wrap logic up here, where we get the script from wherever it
    is then put it in the work_dir
    """
    vg_container_type = runner.container_for_tool('vg')

    if vg_container_type != 'None':
        # we copy the scripts out of the container, assuming vg is at /vg
        cmd = ['cp', os.path.join('/vg', 'scripts', script_name), '.']
        runner.call(job, cmd, work_dir = work_dir, tool_name='vg')
    else:
        # we copy the script from the vg directory in our PATH
        scripts_path = os.path.join(os.path.dirname(find_executable('vg')), '..', 'scripts')
        shutil.copy2(os.path.join(scripts_path, script_name), os.path.join(work_dir, script_name))
    return os.path.join(work_dir, script_name)