view tools/filters/lav_to_bed_code.py @ 0:9071e359b9a3

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#Set build, name, and info for each output BED file
def exec_after_process(app, inp_data, out_data, param_dict, tool, stdout, stderr):
    new_stdout = ""
    filename_to_build = {}
    for line in stdout.split("\n"):
        if line.startswith("#FILE"):
            fields = line.split("\t")
            filename_to_build[fields[1]]=fields[2].strip()
        else:
            new_stdout = "%s%s" % ( new_stdout, line )
    for name,data in out_data.items():
        try:
            data.info = "%s\n%s" % ( new_stdout, stderr )
            data.dbkey = filename_to_build[data.file_name]
            data.name = "%s (%s)" % ( data.name, data.dbkey )
            app.model.context.add( data )
            app.model.context.flush()
        except:
            continue