Mercurial > repos > tduigou > rptools_rpextractsink
changeset 9:fc1225e0752f draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rptools commit 4ae625e3ff1de2034c8d29ad26434f41e3230c2c-dirty
| author | tduigou |
|---|---|
| date | Fri, 24 Oct 2025 09:48:43 +0000 |
| parents | 66708fc9c57c |
| children | |
| files | macros.xml rpextractsink.xml |
| diffstat | 2 files changed, 4 insertions(+), 9 deletions(-) [+] |
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--- a/macros.xml Thu Oct 23 14:40:33 2025 +0000 +++ b/macros.xml Fri Oct 24 09:48:43 2025 +0000 @@ -1,6 +1,6 @@ <macros> <token name="@TOOL_VERSION@">6.7.1</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> <xml name="requirements"> <requirements> <requirement type="package" version="@TOOL_VERSION@">rptools</requirement>
--- a/rpextractsink.xml Thu Oct 23 14:40:33 2025 +0000 +++ b/rpextractsink.xml Fri Oct 24 09:48:43 2025 +0000 @@ -9,13 +9,8 @@ <regex match="Could not retreive any species in the compartment" level="fatal" /> </stdio> <command detect_errors="exit_code"><![CDATA[ - #import os - #if "TMPDIR" in os.environ - #set tmpdir=os.environ["TMPDIR"]/rr_cache - mkdir -p '$tmpdir' && - #else - #set tmpdir="." - #end if + TMPDIR="\${TMPDIR:-.}/rr_cache" && + mkdir -p "\${TMPDIR}" && python -m rptools.rpextractsink '$input' @@ -24,7 +19,7 @@ $adv.remove_dead_end $adv.standalone --chemical-space '$adv.datatype' - --cache-dir '$tmpdir' + --cache-dir "\${TMPDIR}" ]]></command> <inputs> <param name="input" type="data" format="sbml" optional="false" label="Strain"