| Previous changeset 88:a84ac3ee87e1 (2021-10-27) Next changeset 90:6809c63d9161 (2022-01-25) |
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Commit message:
"planemo upload commit 8b702d0cf8f2355307eb8f95989f3d2488b2c963" |
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modified:
shm_csr.xml wrapper.sh |
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| diff -r a84ac3ee87e1 -r 3c9d4d976c47 shm_csr.xml --- a/shm_csr.xml Wed Oct 27 12:32:21 2021 +0000 +++ b/shm_csr.xml Fri Nov 05 13:41:03 2021 +0000 |
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| @@ -1,5 +1,5 @@ -<tool id="shm_csr" name="SHM & CSR pipeline" version="1.2.1"> - <description>Performs a summary/analysis of an IMGT HighV-QUEST (https://www.imgt.org/HighV-QUEST/) ZIP file for Somatic hypermutation and class switch recombination.</description> +<tool id="shm_csr" name="SHM & CSR pipeline" version="1.3.0"> + <description></description> <requirements> <requirement type="package" version="3.7.1">python</requirement> <requirement type="package" version="0.4.4">changeo</requirement> @@ -16,8 +16,6 @@ <requirement type="package" version="4.4.18">bash</requirement> <requirement type="package" version="1.34">tar</requirement> <requirement type="package" version="5.39">file</requirement> - <container type="docker">quay.io/rhpvorderman/mulled-v2-a2524529ff4c0254c944ff4606e926ca2e8b80d0:9fa3e7fda79c80bf1af596872bddd871913a2c1c-0</container> - <container type="singularity">docker://quay.io/rhpvorderman/mulled-v2-a2524529ff4c0254c944ff4606e926ca2e8b80d0:9fa3e7fda79c80bf1af596872bddd871913a2c1c-0</container> </requirements> <command interpreter="bash"> #if str ( $filter_unique.filter_unique_select ) == "remove": |
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| diff -r a84ac3ee87e1 -r 3c9d4d976c47 wrapper.sh --- a/wrapper.sh Wed Oct 27 12:32:21 2021 +0000 +++ b/wrapper.sh Fri Nov 05 13:41:03 2021 +0000 |
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| @@ -895,12 +895,12 @@ echo "---------------- remove_files----------------" echo "---------------- remove_files----------------<br />" >> $log -rm -r -v results/baseline -rm -r -v files +rm -r -v -f results/baseline +rm -r -v -f files filename='remove_files.txt' while read file; do - rm -v $file + rm -v -f $file done < "$filename" |