Mercurial > repos > matthias > stacks2_sstacks
diff test-data/tmp/stacks_outputs/gstacks.log.distribs @ 0:2fb24beef45a draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
author | matthias |
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date | Thu, 29 Nov 2018 11:54:35 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/tmp/stacks_outputs/gstacks.log.distribs Thu Nov 29 11:54:35 2018 -0500 @@ -0,0 +1,36 @@ +# Note: Individual distributions can be extracted using the `stacks-dist-extract` utility. +# e.g. `stacks-dist-extract gstacks.log.distribs dist_name` + +BEGIN effective_coverages_per_sample +# For mean_cov_ns, the coverage at each locus is weighted by the number of +# samples present at that locus (i.e. coverage at shared loci counts more). +sample n_loci n_used_fw_reads mean_cov mean_cov_ns +PopA_01 3 96 32.000 32.000 +PopA_02 3 90 30.000 30.000 +END effective_coverages_per_sample + +BEGIN phasing_rates_per_sample +sample n_gts n_multisnp_hets n_phased misphasing_rate +PopA_01 3 2 2 0.000 +PopA_02 3 3 3 0.000 +END phasing_rates_per_sample + +BEGIN clockings +Num. threads: 1 +Parallel time: 0.0 +Average thread time spent: + 0.0 reading (7.5%) + 0.0 processing (90.3%) + 0.0 assembling (7.0%) + 0.0 aligning/overlapping (50.0%) + 0.0 counting nucleotides (3.4%) + 0.0 genotyping (1.9%) + 0.0 haplotyping (1.4%) + 0.0 computing consensus (1.3%) + 0.0 building_vcf (18.6%) + 0.0 writing_fa (0.7%) + 0.0 writing_vcf (1.0%) + 0.0 clocking (0.2%) +Total time spent writing vcf: 0.0 (1.0%) +VCFwrite block size: mean=1.0(n=3); max=1 +END clockings