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
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
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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.