Mercurial > repos > matthias > stacks2_sstacks
comparison 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 |
|---|---|
| date | Thu, 29 Nov 2018 11:54:35 -0500 |
| parents | |
| children |
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| -1:000000000000 | 0:2fb24beef45a |
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| 1 # Note: Individual distributions can be extracted using the `stacks-dist-extract` utility. | |
| 2 # e.g. `stacks-dist-extract gstacks.log.distribs dist_name` | |
| 3 | |
| 4 BEGIN effective_coverages_per_sample | |
| 5 # For mean_cov_ns, the coverage at each locus is weighted by the number of | |
| 6 # samples present at that locus (i.e. coverage at shared loci counts more). | |
| 7 sample n_loci n_used_fw_reads mean_cov mean_cov_ns | |
| 8 PopA_01 3 96 32.000 32.000 | |
| 9 PopA_02 3 90 30.000 30.000 | |
| 10 END effective_coverages_per_sample | |
| 11 | |
| 12 BEGIN phasing_rates_per_sample | |
| 13 sample n_gts n_multisnp_hets n_phased misphasing_rate | |
| 14 PopA_01 3 2 2 0.000 | |
| 15 PopA_02 3 3 3 0.000 | |
| 16 END phasing_rates_per_sample | |
| 17 | |
| 18 BEGIN clockings | |
| 19 Num. threads: 1 | |
| 20 Parallel time: 0.0 | |
| 21 Average thread time spent: | |
| 22 0.0 reading (7.5%) | |
| 23 0.0 processing (90.3%) | |
| 24 0.0 assembling (7.0%) | |
| 25 0.0 aligning/overlapping (50.0%) | |
| 26 0.0 counting nucleotides (3.4%) | |
| 27 0.0 genotyping (1.9%) | |
| 28 0.0 haplotyping (1.4%) | |
| 29 0.0 computing consensus (1.3%) | |
| 30 0.0 building_vcf (18.6%) | |
| 31 0.0 writing_fa (0.7%) | |
| 32 0.0 writing_vcf (1.0%) | |
| 33 0.0 clocking (0.2%) | |
| 34 Total time spent writing vcf: 0.0 (1.0%) | |
| 35 VCFwrite block size: mean=1.0(n=3); max=1 | |
| 36 END clockings |