Mercurial > repos > iuc > stacks2_denovomap
view test-data/gstacks/gstacks.log.distribs @ 2:421c33b8bf17 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit f55e2407891a3c1f73f14a77b7ddadcd6f5eb1f8"
author | iuc |
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date | Wed, 15 Jul 2020 17:25:36 -0400 |
parents | b9822370f843 |
children | 405a212b32ab |
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# 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 (3.0%) 0.0 processing (95.7%) 0.0 pre-alignments block (74.4%) 0.0 reformatting fw-reads (0.2%) 0.0 assembling (27.3%) 0.0 initializing alignments (8.7%) 0.0 aligning (36.6%) 0.0 merging read pairs (1.6%) 0.0 post-alignments block (19.8%) 0.0 filtering reads (0.0%) 0.0 counting nucleotides (3.2%) 0.0 genotyping (1.5%) 0.0 haplotyping (0.9%) 0.0 computing consensus (0.1%) 0.0 building_fa (0.1%) 0.0 building_vcf (14.0%) 0.0 writing_fa (0.0%) 0.0 writing_vcf (0.9%) 0.0 clocking (0.1%) Total time spent writing vcf: 0.0 (0.8%) VCFwrite block size: mean=1.0(n=3); max=1 END clockings