Mercurial > repos > iuc > stacks2_ustacks

comparison test-data/gstacks/gstacks.log.distribs @ 0:7e5a174bc201 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
author iuc
date Mon, 01 Jul 2019 10:57:49 -0400
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children d033e1ccb386
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-1:000000000000 0:7e5a174bc201
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 (3.1%)
23 0.0 processing (95.2%)
24 0.0 pre-alignments block (72.2%)
25 0.0 reformatting fw-reads (0.1%)
26 0.0 assembling (22.2%)
27 0.0 initializing alignments (5.4%)
28 0.0 aligning (42.9%)
29 0.0 merging read pairs (1.5%)
30 0.0 post-alignments block (21.2%)
31 0.0 filtering reads (0.0%)
32 0.0 counting nucleotides (3.5%)
33 0.0 genotyping (1.9%)
34 0.0 haplotyping (1.0%)
35 0.0 computing consensus (0.1%)
36 0.0 building_fa (0.1%)
37 0.0 building_vcf (14.6%)
38 0.0 writing_fa (0.1%)
39 0.0 writing_vcf (1.3%)
40 0.0 clocking (0.2%)
41 Total time spent writing vcf: 0.0 (1.3%)
42 VCFwrite block size: mean=1.0(n=3); max=1
43 END clockings