diff test-data/cstacks/cstacks.log @ 0:ad7a60726fc3 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
author iuc
date Mon, 01 Jul 2019 11:02:39 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/cstacks/cstacks.log	Mon Jul 01 11:02:39 2019 -0400
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+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.