Mercurial > repos > iuc > migmap
changeset 1:fbbe507e692b draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/migmap commit 9028fa28c7b3216926bf999dd21c5f156d1cc63e
| author | iuc |
|---|---|
| date | Sat, 04 Aug 2018 12:22:14 -0400 |
| parents | b2f1cf977ca9 |
| children | 6ad9d48a512e |
| files | migmap.xml |
| diffstat | 1 files changed, 5 insertions(+), 4 deletions(-) [+] |
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--- a/migmap.xml Sat Sep 30 09:33:24 2017 -0400 +++ b/migmap.xml Sat Aug 04 12:22:14 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="migmap" name="MiGMAP" version="1.0.2.1"> +<tool id="migmap" name="MiGMAP" version="1.0.2.2"> <description>mapper for full-length T- and B-cell repertoire sequencing </description> <requirements> @@ -6,6 +6,9 @@ </requirements> <command detect_errors='exit_code'><![CDATA[ export IGBLAST_PATH=\$(dirname \$(which igblastn)) && +mkdir temp_db && +ln -s "\${IGBLAST_PATH}/../share/igblast/" ./temp_db/ && + #if $input.is_of_type('fasta') : ln -s '$input' in.fa && #else @@ -22,10 +25,9 @@ -q $qual_threshold #end if -p "\${GALAXY_SLOTS:-4}" - --data-dir "\${IGBLAST_PATH}/../share/igblast" + --data-dir ./temp_db/igblast/ -S $species -R $receptor_list - --report '$report' #if $input.is_of_type('fasta'): in.fa #else @@ -71,7 +73,6 @@ </inputs> <outputs> <data name="output" format="tabular"/> - <data name="report" format="txt"/> </outputs> <tests> <test>