Mercurial > repos > iuc > stacks2_tsv2bam
view test-data/sstacks/sstacks.log @ 0:1b270fc77c81 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
| author | iuc |
|---|---|
| date | Mon, 01 Jul 2019 10:59:53 -0400 |
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Searching for matches by sequence identity... Parsing stacks_inputs/catalog.tags.tsv Parsing stacks_inputs/catalog.snps.tsv Parsing stacks_inputs/catalog.alleles.tsv Populating kmer dictionary for exact matches...done. Populating kmer dictionary for gapped alignments...done. Processing sample 'stacks_inputs/PopA_01' [1 of 2] Parsing stacks_inputs/PopA_01.tags.tsv Parsing stacks_inputs/PopA_01.snps.tsv Parsing stacks_inputs/PopA_01.alleles.tsv Searching for sequence matches... 3 sample loci compared against the catalog containing 3 loci. 3 matching loci, 0 contained no verified haplotypes. 0 loci matched more than one catalog locus and were excluded. 0 loci contained SNPs unaccounted for in the catalog and were excluded. 4 total haplotypes examined from matching loci, 4 verified. Searching for gapped alignments... Out of 3 query loci, 0 gapped alignments attempted. 0 loci matched one catalog locus; 0 total haplotypes examined, 0 verified. 0 loci matched no catalog locus; 0 loci matched more than one catalog locus and were excluded. 0 loci contained SNPs unaccounted for in the catalog and were excluded. 0 loci had no verified haplotypes. 0 loci had inconsistent alignments to a catalog locus and were excluded. Outputing to file stacks_inputs/PopA_01.matches.tsv 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 sample loci compared against the catalog containing 3 loci. 3 matching loci, 0 contained no verified haplotypes. 0 loci matched more than one catalog locus and were excluded. 0 loci contained SNPs unaccounted for in the catalog and were excluded. 4 total haplotypes examined from matching loci, 4 verified. Searching for gapped alignments... Out of 3 query loci, 0 gapped alignments attempted. 0 loci matched one catalog locus; 0 total haplotypes examined, 0 verified. 0 loci matched no catalog locus; 0 loci matched more than one catalog locus and were excluded. 0 loci contained SNPs unaccounted for in the catalog and were excluded. 0 loci had no verified haplotypes. 0 loci had inconsistent alignments to a catalog locus and were excluded. Outputing to file stacks_inputs/PopA_02.matches.tsv sstacks is done.