Mercurial > repos > iuc > malt_run
changeset 1:87a1202c03e8 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/malt commit 6bde7c9985265b3086f1e1a6df814c20d02ee092"
| author | iuc |
|---|---|
| date | Mon, 09 May 2022 15:08:00 +0000 |
| parents | d505990b8c89 |
| children | |
| files | macros.xml malt_run.xml |
| diffstat | 2 files changed, 2 insertions(+), 5 deletions(-) [+] |
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--- a/macros.xml Fri Nov 12 18:39:23 2021 +0000 +++ b/macros.xml Mon May 09 15:08:00 2022 +0000 @@ -1,6 +1,6 @@ <macros> <token name="@TOOL_VERSION@">0.5.3</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> <token name="@PROFILE@">20.09</token> <xml name="requirements"> <requirements>
--- a/malt_run.xml Fri Nov 12 18:39:23 2021 +0000 +++ b/malt_run.xml Mon May 09 15:08:00 2022 +0000 @@ -7,9 +7,6 @@ <command detect_errors="exit_code"><![CDATA[ #import re -## This will point to a directory. -#set ref = str($reference.fields.path) - #set input_identifier = re.sub('[^\s\w\-]', '_', str($input.element_identifier)) ## malt-run uses the file extension to determine the input format. #if $input.is_of_type('fasta', 'fasta.gz'): @@ -42,7 +39,7 @@ --alignmentType '$alignmentType' --inFile '$input_identifier' ---index '$ref' +--index '$reference.fields.path' ## malt-run requires correct output file extensions. --output './output.rma6' --numThreads \${GALAXY_SLOTS:-12}