comparison test-data/sstacks/sstacks.log @ 0:7e5a174bc201 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
author iuc
date Mon, 01 Jul 2019 10:57:49 -0400
parents
children
comparison
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-1:000000000000 0:7e5a174bc201
1 Searching for matches by sequence identity...
2 Parsing stacks_inputs/catalog.tags.tsv
3 Parsing stacks_inputs/catalog.snps.tsv
4 Parsing stacks_inputs/catalog.alleles.tsv
5 Populating kmer dictionary for exact matches...done.
6 Populating kmer dictionary for gapped alignments...done.
7
8 Processing sample 'stacks_inputs/PopA_01' [1 of 2]
9 Parsing stacks_inputs/PopA_01.tags.tsv
10 Parsing stacks_inputs/PopA_01.snps.tsv
11 Parsing stacks_inputs/PopA_01.alleles.tsv
12 Searching for sequence matches...
13 3 sample loci compared against the catalog containing 3 loci.
14 3 matching loci, 0 contained no verified haplotypes.
15 0 loci matched more than one catalog locus and were excluded.
16 0 loci contained SNPs unaccounted for in the catalog and were excluded.
17 4 total haplotypes examined from matching loci, 4 verified.
18 Searching for gapped alignments...
19 Out of 3 query loci, 0 gapped alignments attempted.
20 0 loci matched one catalog locus; 0 total haplotypes examined, 0 verified.
21 0 loci matched no catalog locus;
22 0 loci matched more than one catalog locus and were excluded.
23 0 loci contained SNPs unaccounted for in the catalog and were excluded.
24 0 loci had no verified haplotypes.
25 0 loci had inconsistent alignments to a catalog locus and were excluded.
26 Outputing to file stacks_inputs/PopA_01.matches.tsv
27
28 Processing sample 'stacks_inputs/PopA_02' [2 of 2]
29 Parsing stacks_inputs/PopA_02.tags.tsv
30 Parsing stacks_inputs/PopA_02.snps.tsv
31 Parsing stacks_inputs/PopA_02.alleles.tsv
32 Searching for sequence matches...
33 3 sample loci compared against the catalog containing 3 loci.
34 3 matching loci, 0 contained no verified haplotypes.
35 0 loci matched more than one catalog locus and were excluded.
36 0 loci contained SNPs unaccounted for in the catalog and were excluded.
37 4 total haplotypes examined from matching loci, 4 verified.
38 Searching for gapped alignments...
39 Out of 3 query loci, 0 gapped alignments attempted.
40 0 loci matched one catalog locus; 0 total haplotypes examined, 0 verified.
41 0 loci matched no catalog locus;
42 0 loci matched more than one catalog locus and were excluded.
43 0 loci contained SNPs unaccounted for in the catalog and were excluded.
44 0 loci had no verified haplotypes.
45 0 loci had inconsistent alignments to a catalog locus and were excluded.
46 Outputing to file stacks_inputs/PopA_02.matches.tsv
47
48 sstacks is done.