Mercurial > repos > p.lucas > clermontyping
changeset 1:cec55ef9cce5 draft
Use env clermont instead of requirements in the wrapper
| author | p.lucas |
|---|---|
| date | Mon, 14 Feb 2022 14:20:05 +0000 |
| parents | e93c20bad6b0 |
| children | 07fe3c343426 |
| files | ClermonTyping_wrapper.xml |
| diffstat | 1 files changed, 3 insertions(+), 12 deletions(-) [+] |
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--- a/ClermonTyping_wrapper.xml Mon Feb 14 11:15:04 2022 +0000 +++ b/ClermonTyping_wrapper.xml Mon Feb 14 14:20:05 2022 +0000 @@ -2,19 +2,10 @@ <description> ClermonTyping: an easy-to-use and accurate in silico method for Escherichia genus strain phylotyping </description> - <requirements> - <requirement type="package" version="1.79">biopython</requirement> - <requirement type="package" version="2.12.0">blast</requirement> - <requirement type="package" version="2.17.1.1">pandoc</requirement> - <requirement type="package" version="2.1.2">r-readr</requirement> - <requirement type="package" version="1.0.7">r-dplyr</requirement> - <requirement type="package" version="1.2.0">r-tidyr</requirement> - <requirement type="package" version="1.37">r-knitr</requirement> - <requirement type="package" version="1.4.0">r-stringr</requirement> - <requirement type="package" version="2.11">r-markdown</requirement> - </requirements> <command detect_errors="exit_code"><![CDATA[ - /home/galaxy/ClermonTyping/clermonTyping.sh --fasta ${input} --name Analyse + source /home/galaxy/data/_conda/bin/activate Ab-HADDOCK; + /home/galaxy/ClermonTyping/clermonTyping.sh --fasta ${input} --name Analyse; + source /home/galaxy/data/_conda/bin/deactivate; ]]></command> <inputs> <param name="input" format="fasta" type="data" label="Select contigs file in fasta format." help="Fasta format containing contigs."/>