3eea3791dc36fbfc521b45b9eebd854c73908b62,dataPrepScripts/ChooseItemInBed.py,,Calc,#Any#,12

Before Change

def Calc(args):

    tree = {}
    with open(args.bed_fn) as f:
        for row in f:
            row = row.split()
            name = row[0]

After Change

    f.wait()


    f = subprocess.Popen(shlex.split("gzip -fdc %s" % (args.input_fn) ), stdout=subprocess.PIPE, bufsize=8388608)
    for row in f.stdout:
        ctgName, pos = [(row.split()[i]) for i in [0,1]]
        pos = int(pos)
        if ctgName not in tree:
            continue
        if len(tree[ctgName].search(pos)) == 0:
            continue
        sys.stdout.write(row)
    sys.stdout.flush()
    f.stdout.close()
    f.wait()


if __name__ == "__main__":

Instances