Mercurial > repos > jasmine_amir > snrqk
changeset 2:2308682602ed
"planemo upload commit 8db6cc633cfc8e104358c3fb8f0a07674222ab43"
| author | jasmine_amir |
|---|---|
| date | Wed, 27 Apr 2022 10:00:02 -0400 |
| parents | b3e3fa1f38c1 |
| children | f8c9d848c435 |
| files | snrqk.xml test-data/snrqk_result.tsv test-data/snrqk_resultFloat.tsv test-data/snrqk_result_int.tsv |
| diffstat | 4 files changed, 36 insertions(+), 36 deletions(-) [+] |
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--- a/snrqk.xml Fri Apr 22 22:44:49 2022 -0400 +++ b/snrqk.xml Wed Apr 27 10:00:02 2022 -0400 @@ -2,7 +2,7 @@ <description>Compute SSQuAWK QC metrics within SSQuAWK version 4+ workflow</description> <requirements> <requirement type="package" version="3.7.12">python</requirement> - <requirement type="package" version="0.14.1">pandas</requirement> + <requirement type="package" version="1.3.5">pandas</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ python $__tool_directory__/SNRQK.py $input
--- a/test-data/snrqk_result.tsv Fri Apr 22 22:44:49 2022 -0400 +++ b/test-data/snrqk_result.tsv Wed Apr 27 10:00:02 2022 -0400 @@ -1,18 +1,18 @@ Sample nReads readsAlignPassFilt avgQual readsAligned avgQualPassFilt avgLen avgLenPassFilt SNR -0 SRR16828363.fastq.gz 632664 136327 37.8 138637 37.9 151 151 18 -1 SRR16828364.fastq.gz 458116 176348 37.8 179913 37.9 151 151 24 -2 SRR16828365.fastq.gz 351980 53958 37.8 54928 37.9 151 151 7 -3 SRR16828366.fastq.gz 322968 21108 37.8 21470 37.9 151 151 2 -4 SRR16828367.fastq.gz 250920 24632 37.8 25076 37.9 151 151 3 -5 SRR16828368.fastq.gz 261146 20820 37.8 21269 37.9 151 151 2 -6 SRR16828369.fastq.gz 333366 21996 37.7 22519 37.9 151 151 3 -7 SRR16828370.fastq.gz 384632 18654 37.7 19129 37.9 151 151 2 -8 SRR16828371.fastq.gz 403370 39033 37.8 39675 37.9 151 151 5 -9 SRR16828372.fastq.gz 325846 63612 37.8 64765 37.9 151 151 8 -10 SRR16828373.fastq.gz 271852 21808 37.8 22257 37.9 151 151 2 -11 SRR16828374.fastq.gz 307272 25461 37.8 25870 37.9 151 151 3 -12 negativeControlSRR16828375.fastq.gz 148574 7332 37.8 7462 38.0 151 151 1 -13 SRR16828376.fastq.gz 479676 89724 37.8 91360 37.9 151 151 12 -14 SRR16828377.fastq.gz 401236 28382 37.8 28936 37.9 151 151 3 -15 SRR16828378.fastq.gz 236128 31781 37.7 32559 37.9 151 151 4 -16 SRR16828379.fastq.gz 288528 23081 37.8 23564 37.9 151 151 3 +0 SRR16828363.fastq.gz 632664 136327 37.8 138637 37.9 151 151 18.59342607746863 +1 SRR16828364.fastq.gz 458116 176348 37.8 179913 37.9 151 151 24.051827605019096 +2 SRR16828365.fastq.gz 351980 53958 37.8 54928 37.9 151 151 7.359247135842881 +3 SRR16828366.fastq.gz 322968 21108 37.8 21470 37.9 151 151 2.878887070376432 +4 SRR16828367.fastq.gz 250920 24632 37.8 25076 37.9 151 151 3.359519912711402 +5 SRR16828368.fastq.gz 261146 20820 37.8 21269 37.9 151 151 2.8396072013093288 +6 SRR16828369.fastq.gz 333366 21996 37.7 22519 37.9 151 151 3.0 +7 SRR16828370.fastq.gz 384632 18654 37.7 19129 37.9 151 151 2.544189852700491 +8 SRR16828371.fastq.gz 403370 39033 37.8 39675 37.9 151 151 5.323649754500818 +9 SRR16828372.fastq.gz 325846 63612 37.8 64765 37.9 151 151 8.675941080196399 +10 SRR16828373.fastq.gz 271852 21808 37.8 22257 37.9 151 151 2.9743589743589745 +11 SRR16828374.fastq.gz 307272 25461 37.8 25870 37.9 151 151 3.4725859247135844 +12 negativeControlSRR16828375.fastq.gz 148574 7332 37.8 7462 38.0 151 151 1.0 +13 SRR16828376.fastq.gz 479676 89724 37.8 91360 37.9 151 151 12.237315875613747 +14 SRR16828377.fastq.gz 401236 28382 37.8 28936 37.9 151 151 3.8709765411893073 +15 SRR16828378.fastq.gz 236128 31781 37.7 32559 37.9 151 151 4.33456082924168 +16 SRR16828379.fastq.gz 288528 23081 37.8 23564 37.9 151 151 3.1479814511729405
--- a/test-data/snrqk_resultFloat.tsv Fri Apr 22 22:44:49 2022 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,18 +0,0 @@ - Sample nReads readsAlignPassFilt avgQual readsAligned avgQualPassFilt avgLen avgLenPassFilt SNR -0 SRR16828363.fastq.gz 632664 136327 37.8 138637 37.9 151 151 18.59342607746863 -1 SRR16828364.fastq.gz 458116 176348 37.8 179913 37.9 151 151 24.051827605019096 -2 SRR16828365.fastq.gz 351980 53958 37.8 54928 37.9 151 151 7.359247135842881 -3 SRR16828366.fastq.gz 322968 21108 37.8 21470 37.9 151 151 2.878887070376432 -4 SRR16828367.fastq.gz 250920 24632 37.8 25076 37.9 151 151 3.359519912711402 -5 SRR16828368.fastq.gz 261146 20820 37.8 21269 37.9 151 151 2.8396072013093288 -6 SRR16828369.fastq.gz 333366 21996 37.7 22519 37.9 151 151 3.0 -7 SRR16828370.fastq.gz 384632 18654 37.7 19129 37.9 151 151 2.544189852700491 -8 SRR16828371.fastq.gz 403370 39033 37.8 39675 37.9 151 151 5.323649754500818 -9 SRR16828372.fastq.gz 325846 63612 37.8 64765 37.9 151 151 8.675941080196399 -10 SRR16828373.fastq.gz 271852 21808 37.8 22257 37.9 151 151 2.9743589743589745 -11 SRR16828374.fastq.gz 307272 25461 37.8 25870 37.9 151 151 3.4725859247135844 -12 negativeControlSRR16828375.fastq.gz 148574 7332 37.8 7462 38.0 151 151 1.0 -13 SRR16828376.fastq.gz 479676 89724 37.8 91360 37.9 151 151 12.237315875613747 -14 SRR16828377.fastq.gz 401236 28382 37.8 28936 37.9 151 151 3.8709765411893073 -15 SRR16828378.fastq.gz 236128 31781 37.7 32559 37.9 151 151 4.33456082924168 -16 SRR16828379.fastq.gz 288528 23081 37.8 23564 37.9 151 151 3.1479814511729405
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/snrqk_result_int.tsv Wed Apr 27 10:00:02 2022 -0400 @@ -0,0 +1,18 @@ + Sample nReads readsAlignPassFilt avgQual readsAligned avgQualPassFilt avgLen avgLenPassFilt SNR +0 SRR16828363.fastq.gz 632664 136327 37.8 138637 37.9 151 151 18 +1 SRR16828364.fastq.gz 458116 176348 37.8 179913 37.9 151 151 24 +2 SRR16828365.fastq.gz 351980 53958 37.8 54928 37.9 151 151 7 +3 SRR16828366.fastq.gz 322968 21108 37.8 21470 37.9 151 151 2 +4 SRR16828367.fastq.gz 250920 24632 37.8 25076 37.9 151 151 3 +5 SRR16828368.fastq.gz 261146 20820 37.8 21269 37.9 151 151 2 +6 SRR16828369.fastq.gz 333366 21996 37.7 22519 37.9 151 151 3 +7 SRR16828370.fastq.gz 384632 18654 37.7 19129 37.9 151 151 2 +8 SRR16828371.fastq.gz 403370 39033 37.8 39675 37.9 151 151 5 +9 SRR16828372.fastq.gz 325846 63612 37.8 64765 37.9 151 151 8 +10 SRR16828373.fastq.gz 271852 21808 37.8 22257 37.9 151 151 2 +11 SRR16828374.fastq.gz 307272 25461 37.8 25870 37.9 151 151 3 +12 negativeControlSRR16828375.fastq.gz 148574 7332 37.8 7462 38.0 151 151 1 +13 SRR16828376.fastq.gz 479676 89724 37.8 91360 37.9 151 151 12 +14 SRR16828377.fastq.gz 401236 28382 37.8 28936 37.9 151 151 3 +15 SRR16828378.fastq.gz 236128 31781 37.7 32559 37.9 151 151 4 +16 SRR16828379.fastq.gz 288528 23081 37.8 23564 37.9 151 151 3