Mercurial > repos > bgruening > column_arrange_by_header
diff column_arrange.py @ 0:f18f67056946 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/column_arrange_by_header commit 088e73e958b55dc765778641b8a84080cc289f85-dirty
author | bgruening |
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date | Fri, 16 Oct 2015 14:31:13 -0400 |
parents | |
children | 6c6d26ff01ff |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/column_arrange.py Fri Oct 16 14:31:13 2015 -0400 @@ -0,0 +1,18 @@ +#!/usr/bin/env python +import pandas as pd +import argparse + +parser = argparse.ArgumentParser() +parser.add_argument('-i', '--input', help='Tabular Input File Name') +parser.add_argument('-o','--output', help='Tabular Output File') +parser.add_argument('-c', '--columns', nargs='+', help='Column Headers to Sort By') +args=parser.parse_args() + +cols = args.columns +table = pd.read_csv(args.input, sep='\t') +blist = list(table.columns) +for token in cols: + blist.remove(token) +sorted_table = table[args.columns + blist] +# write without index, seperated by tabs +sorted_table.to_csv(args.output, sep='\t', index=False)