Mercurial > repos > iuc > stacks2_tsv2bam
comparison 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 |
| parents | |
| children |
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| -1:000000000000 | 0:1b270fc77c81 |
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| 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. |