Mercurial > repos > matthias > stacks2_sstacks
view test-data/gstacks/gstacks.log @ 1:cb2793034109 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 8b047549e9e8791a5ca9424b1ef391e8980aba79-dirty
| author | matthias |
|---|---|
| date | Fri, 30 Nov 2018 05:54:12 -0500 |
| parents | 2fb24beef45a |
| children | aef37afe214f |
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gstacks v2.2, executed 2018-11-27 19:48:29 /home/berntm/miniconda3/envs/__stacks@2.2/bin/gstacks -P stacks_outputs -M /tmp/tmpSlCHrR/files/000/dataset_3.dat -t 1 --var-alpha 0.05 --gt-alpha 0.05 Locus/sample distributions will be written to 'stacks_outputs/gstacks.log.distribs'. Configuration for this run: Input mode: denovo Population map: '/tmp/tmpSlCHrR/files/000/dataset_3.dat' Input files: 2, e.g. 'stacks_outputs/PopA_01.matches.bam' Output to: 'stacks_outputs/' Model: marukilow (var_alpha: 0.05, gt_alpha: 0.05) Reading BAM headers... Processing all loci... 20%... 50%... 100% Input appears to be single-end (no paired-end reads were seen). Genotyped 3 loci: effective per-sample coverage: mean=21.0x, stdev=1.0x, min=20.0x, max=22.0x mean number of sites per locus: 94.0 a consistent phasing was found for 2 of out 2 (100.0%) diploid loci needing phasing gstacks is done.