Mercurial > repos > iuc > stacks2_tsv2bam
diff test-data/cstacks/cstacks.log @ 0:1b270fc77c81 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
| author | iuc |
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| date | Mon, 01 Jul 2019 10:59:53 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cstacks/cstacks.log Mon Jul 01 10:59:53 2019 -0400 @@ -0,0 +1,29 @@ +cstacks parameters selected: + Loci matched based on sequence identity. + Number of mismatches allowed between stacks: 1 + Gapped alignments: enabled +Constructing catalog from 2 samples. + +Initializing new catalog... + Parsing stacks_inputs/PopA_01.tags.tsv + Parsing stacks_inputs/PopA_01.snps.tsv + Parsing stacks_inputs/PopA_01.alleles.tsv + 3 loci were newly added to the catalog. + +Processing sample stacks_inputs/PopA_02 [2 of 2] + Parsing stacks_inputs/PopA_02.tags.tsv + Parsing stacks_inputs/PopA_02.snps.tsv + Parsing stacks_inputs/PopA_02.alleles.tsv +Searching for sequence matches... + 3 loci in the catalog, 184 kmers in the catalog hash. +Searching for gapped alignments... +Merging matches into catalog... + 3 loci were matched to a catalog locus. + 0 loci were matched to a catalog locus using gapped alignments. + 0 loci were newly added to the catalog. + 0 loci matched more than one catalog locus, linking them. + 0 linked catalog loci were merged into 0 loci. + +Writing catalog in directory 'stacks_inputs/'. +Final catalog contains 3 loci. +cstacks is done.