comparison tools/seq_select_by_id/seq_select_by_id.py @ 8:8e1a90917fa7 draft

v0.0.13 Python 3 compatible exception handling

7:a5602454b0ad

from __future__ import print_function

import sys

if "-v" in sys.argv or "--version" in sys.argv:
    print("v0.0.12")
    sys.exit(0)

# Parse Command Line
try:
    tabular_file, col_arg, in_file, seq_format, out_file = sys.argv[1:]

    # but doing the header and index at the low level is too fidly.
    name = None  # We want the variable to leak from the iterator's scope...
    iterator = (records[name] for name in parse_ids(tabular_file, column))
    try:
        count = writer.write_file(iterator)
    except KeyError, err:
        out_handle.close()
        if name not in records:
            sys.exit("Identifier %r not found in sequence file" % name)
        else:
            raise err
    out_handle.close()
else:
    # Avoid overhead of parsing into SeqRecord objects,
    # just re-use the original formatting from the input file.
    out_handle = open(out_file, "w")

8:8e1a90917fa7

from __future__ import print_function

import sys

if "-v" in sys.argv or "--version" in sys.argv:
    print("v0.0.13")
    sys.exit(0)

# Parse Command Line
try:
    tabular_file, col_arg, in_file, seq_format, out_file = sys.argv[1:]

    # but doing the header and index at the low level is too fidly.
    name = None  # We want the variable to leak from the iterator's scope...
    iterator = (records[name] for name in parse_ids(tabular_file, column))
    try:
        count = writer.write_file(iterator)
    except KeyError:
        out_handle.close()
        if name not in records:
            sys.exit("Identifier %r not found in sequence file" % name)
        else:
            raise
    out_handle.close()
else:
    # Avoid overhead of parsing into SeqRecord objects,
    # just re-use the original formatting from the input file.
    out_handle = open(out_file, "w")