Mercurial > repos > iuc > stacks2_refmap
diff test-data/sstacks/sstacks.log @ 0:45385ba40a75 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 11:03:22 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sstacks/sstacks.log Mon Jul 01 11:03:22 2019 -0400 @@ -0,0 +1,48 @@ +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.