Mercurial > repos > iuc > plink
diff test-data/stats.log @ 10:c7d38dcbf02d draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/plink commit e4f567640710d5f8447b31bd6d78e7fb2d8fe401"
| author | iuc |
|---|---|
| date | Sun, 19 Dec 2021 15:52:45 +0000 |
| parents | 303123b30425 |
| children |
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--- a/test-data/stats.log Thu Dec 02 16:19:36 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,40 +0,0 @@ -PLINK v1.90p 64-bit (16 Jun 2020) -Options in effect: - --bfile plink_input/plink_input - --check-sex ycount 0.2 0.8 10 200 - --freq - --hardy - --het - --make-bed - --missing - --out plink_output/plink_output - -Hostname: p-body.local -Working directory: /private/var/folders/f7/p887fr2x6hd_jg712040rl580000gn/T/tmpzq_so7fd/job_working_directory/000/89/working -Start time: Tue Sep 15 10:53:23 2020 - -Random number seed: 1600192403 -32768 MB RAM detected; reserving 16384 MB for main workspace. -50 variants loaded from .bim file. -200 people (0 males, 200 females) loaded from .fam. -200 phenotype values loaded from .fam. -Using 1 thread (no multithreaded calculations invoked). -Before main variant filters, 200 founders and 0 nonfounders present. -Calculating allele frequencies... done. ---freq: Allele frequencies (founders only) written to -plink_output/plink_output.frq . ---missing: Sample missing data report written to -plink_output/plink_output.imiss, and variant-based missing data report written -to plink_output/plink_output.lmiss. ---hardy: Writing Hardy-Weinberg report (founders only) to -plink_output/plink_output.hwe ... done. -50 variants and 200 people pass filters and QC. -Among remaining phenotypes, 101 are cases and 99 are controls. -Warning: No Y chromosome data for --check-sex ycount. ---check-sex: 26 Xchr and 0 Ychr variant(s) scanned, 31 problems detected. -Report written to plink_output/plink_output.sexcheck . ---make-bed to plink_output/plink_output.bed + plink_output/plink_output.bim + -plink_output/plink_output.fam ... done. ---het: 24 variants scanned, report written to plink_output/plink_output.het . - -End time: Tue Sep 15 10:53:23 2020
