Mercurial > repos > jackcurragh > ribogalaxy_get_chrom_sizes
diff get_chrom_sizes/calculating_chrom.sizes.py @ 6:c96b29e00427 draft
Uploaded
author | jackcurragh |
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date | Tue, 17 May 2022 13:02:31 +0000 |
parents | c6a297d05c8e |
children | 84664985411c |
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--- a/get_chrom_sizes/calculating_chrom.sizes.py Mon May 16 09:11:51 2022 +0000 +++ b/get_chrom_sizes/calculating_chrom.sizes.py Tue May 17 13:02:31 2022 +0000 @@ -2,9 +2,11 @@ # adapted from https://bioexpressblog.wordpress.com/2014/04/15/calculate-length-of-all-sequences-in-an-multi-fasta-file/ from sys import argv # python calculating_chrom.sizes.py genome_input.fa output.chrom.sizes -genome = str(argv[1]) -prefix = str(argv[2]) -output = str(argv[3]) +fasta_source = str(argv[1]) +genome = str(argv[2]) +builtin = str(argv[3]) +prefix = str(argv[4]) +output = str(argv[5]) # genome = 'test-data/test.fasta' # output = "test-data/test_chrom.sizes"