ipyrad/core/assembly.py
def _zbufcountlines(filename, gzipped):
    """ faster line counter """
    if gzipped:
        cmd1 = ["gunzip", "-c", filename]
    else:
        cmd1 = ["cat", filename]
    cmd2 = ["wc"]

    proc1 = sps.Popen(cmd1, stdout=sps.PIPE, stderr=sps.PIPE)
    proc2 = sps.Popen(cmd2, stdin=proc1.stdout, stdout=sps.PIPE, stderr=sps.PIPE)
    res = proc2.communicate()[0]
    if proc2.returncode:
        raise IPyradWarningExit("error zbufcountlines {}:".format(res))
    LOGGER.info(res)
    nlines = int(res.split()[0])
    return nlines
def _zbufcountlines(filename, gzipped):
    """ faster line counter """
    if gzipped:
        cmd1 = ["gunzip", "-c", filename]
    else:
        cmd1 = ["cat", filename]
    cmd2 = ["wc"]

    proc1 = sps.Popen(cmd1, stdout=sps.PIPE, stderr=sps.PIPE)
    proc2 = sps.Popen(cmd2, stdin=proc1.stdout, stdout=sps.PIPE, stderr=sps.PIPE)
    res = proc2.communicate()[0]
    if proc2.returncode:
        raise IPyradWarningExit("error zbufcountlines {}:".format(res))
    LOGGER.info(res)
    nlines = int(res.split()[0])
    return nlines
def _zbufcountlines ( filename , gzipped ) : if gzipped : cmd1 = [ "gunzip" , "-c" , filename ] else : cmd1 = [ "cat" , filename ] cmd2 = [ "wc" ] proc1 = sps . Popen ( cmd1 , stdout = sps . PIPE , stderr = sps . PIPE ) proc2 = sps . Popen ( cmd2 , stdin = proc1 . stdout , stdout = sps . PIPE , stderr = sps . PIPE ) res = proc2 . communicate ( ) [ 0 ] if proc2 . returncode : raise IPyradWarningExit ( "error zbufcountlines {}:" . format ( res ) ) LOGGER . info ( res ) nlines = int ( res . split ( ) [ 0 ] ) return nlines
faster line counter
faster line counter