Mercurial > repos > matthias > stacks2_gstacks
comparison test-data/cstacks/cstacks.log @ 4:285e1f85c11a draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 4e87a14a5479800df9675c1cbcdbe1b11f63653b-dirty
| author | matthias |
|---|---|
| date | Wed, 27 Feb 2019 09:56:44 -0500 |
| parents | |
| children |
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| 3:5421b9528827 | 4:285e1f85c11a |
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| 1 cstacks parameters selected: | |
| 2 Loci matched based on sequence identity. | |
| 3 Number of mismatches allowed between stacks: 1 | |
| 4 Gapped alignments: enabled | |
| 5 Constructing catalog from 2 samples. | |
| 6 | |
| 7 Initializing new catalog... | |
| 8 Parsing stacks_inputs/PopA_01.tags.tsv | |
| 9 Parsing stacks_inputs/PopA_01.snps.tsv | |
| 10 Parsing stacks_inputs/PopA_01.alleles.tsv | |
| 11 3 loci were newly added to the catalog. | |
| 12 | |
| 13 Processing sample stacks_inputs/PopA_02 [2 of 2] | |
| 14 Parsing stacks_inputs/PopA_02.tags.tsv | |
| 15 Parsing stacks_inputs/PopA_02.snps.tsv | |
| 16 Parsing stacks_inputs/PopA_02.alleles.tsv | |
| 17 Searching for sequence matches... | |
| 18 3 loci in the catalog, 184 kmers in the catalog hash. | |
| 19 Searching for gapped alignments... | |
| 20 Merging matches into catalog... | |
| 21 3 loci were matched to a catalog locus. | |
| 22 0 loci were matched to a catalog locus using gapped alignments. | |
| 23 0 loci were newly added to the catalog. | |
| 24 0 loci matched more than one catalog locus, linking them. | |
| 25 0 linked catalog loci were merged into 0 loci. | |
| 26 | |
| 27 Writing catalog in directory 'stacks_inputs/'. | |
| 28 Final catalog contains 3 loci. | |
| 29 cstacks is done. |