comparison test-data/cstacks/cstacks.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
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-1:000000000000 0:7e5a174bc201
1 cstacks parameters selected:
2 Loci matched based on sequence identity.
3 Number of mismatches allowed between stacks: 1
4 Gapped alignments: enabled
5 Constructing catalog from 2 samples.
6
7 Initializing new catalog...
8 Parsing stacks_inputs/PopA_01.tags.tsv
9 Parsing stacks_inputs/PopA_01.snps.tsv
10 Parsing stacks_inputs/PopA_01.alleles.tsv
11 3 loci were newly added to the catalog.
12
13 Processing sample stacks_inputs/PopA_02 [2 of 2]
14 Parsing stacks_inputs/PopA_02.tags.tsv
15 Parsing stacks_inputs/PopA_02.snps.tsv
16 Parsing stacks_inputs/PopA_02.alleles.tsv
17 Searching for sequence matches...
18 3 loci in the catalog, 184 kmers in the catalog hash.
19 Searching for gapped alignments...
20 Merging matches into catalog...
21 3 loci were matched to a catalog locus.
22 0 loci were matched to a catalog locus using gapped alignments.
23 0 loci were newly added to the catalog.
24 0 loci matched more than one catalog locus, linking them.
25 0 linked catalog loci were merged into 0 loci.
26
27 Writing catalog in directory 'stacks_inputs/'.
28 Final catalog contains 3 loci.
29 cstacks is done.