Mercurial > repos > mzeidler > virana_main

from argparse import ArgumentParser
import os
from vmap import DNAIndex

if __name__ == "__main__":


    parser = ArgumentParser()

    a = parser.add_argument
    a("-o","--html_file",dest="html_file")
    a("-d","--dir",dest="directory")

    (options,args)= parser.parse_known_args()

    args.insert(0,"dummy")
    try:
        DNAIndex.run(argv=args)
    except SystemExit:
        f = open(options.html_file,'w')
        rval = ["<html><head><title>BWA Index Galaxy Composite Dataset </title></head><body><p/>\n"]
        rval.append('<div>This composite dataset is composed of the following files:<p/><ul>')
        flist = os.listdir(options.directory)

        for file in flist:
            rval.append( '<li><a href="%s">%s</a></li>' % ( file, file) )
        rval.append( '</ul></body></html>' )

        f.write("\n".join( rval ))
        f.close()
author	mzeidler
date	Mon, 30 Sep 2013 12:23:37 -0400
parents	f63d639b223c
children