Mercurial > repos > jackcurragh > ribogalaxy_get_chrom_sizes
comparison get_chrom_sizes/calculating_chrom.sizes.py @ 8:84664985411c draft
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author | jackcurragh |
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date | Tue, 17 May 2022 13:16:52 +0000 |
parents | c96b29e00427 |
children | c7e2879bf357 |
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7:f1d2d3397870 | 8:84664985411c |
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7 builtin = str(argv[3]) | 7 builtin = str(argv[3]) |
8 prefix = str(argv[4]) | 8 prefix = str(argv[4]) |
9 output = str(argv[5]) | 9 output = str(argv[5]) |
10 # genome = 'test-data/test.fasta' | 10 # genome = 'test-data/test.fasta' |
11 # output = "test-data/test_chrom.sizes" | 11 # output = "test-data/test_chrom.sizes" |
12 print(fasta_source, genome, builtin, prefix, output) | |
13 if fasta_source == 'builtin': | |
14 genome = builtin | |
12 | 15 |
13 chromSizesoutput = open(output,"w") | 16 chromSizesoutput = open(output,"w") |
14 | 17 |
15 records = [] | 18 records = [] |
16 record = False | 19 record = False |