__init__.py 文件源码

def check_fastq(fastq):
    # Check if fastq is readable
    if not os.access(fastq, os.R_OK):
        martian.exit("Do not have file read permission for FASTQ file: %s" % fastq)

    # Check if fastq is gzipped
    is_gzip_fastq = True
    try:
        with gzip.open(fastq) as f:
            f.read(1)
    except:
        is_gzip_fastq = False

    if is_gzip_fastq and not fastq.endswith(cr_constants.GZIP_SUFFIX):
        martian.exit("Input FASTQ file is gzipped but filename does not have %s suffix: %s" % (fastq, cr_constants.GZIP_SUFFIX))
    if not is_gzip_fastq and fastq.endswith(cr_constants.GZIP_SUFFIX):
        martian.exit("Input FASTQ file is not gzipped but filename has %s suffix: %s" % (fastq, cr_constants.GZIP_SUFFIX))