| Previous changeset 9:eadfd71dde37 (2021-10-05) Next changeset 11:29dabd8db6f2 (2022-06-02) |
|
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meryl commit f09759ed13dd6c6efabbdd79fb171b2d3bfdc927" |
|
modified:
macros.xml meryl.xml |
| b |
| diff -r eadfd71dde37 -r 9cd178127b19 macros.xml --- a/macros.xml Tue Oct 05 15:58:14 2021 +0000 +++ b/macros.xml Thu Apr 28 18:11:34 2022 +0000 |
| b |
| @@ -1,7 +1,7 @@ <macros> <token name="@TOOL_VERSION@">1.3</token> <token name="@GALAXY_TOOL_VERSION@">galaxy</token> - <token name="@SUFFIX_VERSION@">4</token> + <token name="@SUFFIX_VERSION@">5</token> <xml name="edam_ontology"> <edam_topics> <edam_topic>topic_0196</edam_topic> |
| b |
| diff -r eadfd71dde37 -r 9cd178127b19 meryl.xml --- a/meryl.xml Tue Oct 05 15:58:14 2021 +0000 +++ b/meryl.xml Thu Apr 28 18:11:34 2022 +0000 |
| b |
| @@ -77,18 +77,21 @@ #set size=$operation_type.options_kmer_size.input_kmer_size #end if #for $i, $read in enumerate($paternal_reads): - mkdir 'paternal{$i}.meryl' && - meryl count k=$size memory=\$GALAXY_MEMORY_GB threads=\${GALAXY_SLOTS:-1} '${read}' output 'paternal{$i}.meryl' && + mkdir 'paternal${i}.meryl' && + ln -s '$read' ./input_paternal_${i}.${read.ext} && + meryl count k=$size memory=\$GALAXY_MEMORY_GB threads=\${GALAXY_SLOTS:-1} ./input_paternal_${i}.${read.ext} output 'paternal${i}.meryl' && #end for meryl union-sum paternal*.meryl output pat.meryl && #for $i, $read in enumerate($maternal_reads): - mkdir 'maternal{$i}.meryl' && - meryl count k=$size memory=\$GALAXY_MEMORY_GB threads=\${GALAXY_SLOTS:-1} '${read}' output 'maternal{$i}.meryl' && + mkdir 'maternal${i}.meryl' && + ln -s '$read' ./input_maternal_${i}.${read.ext} && + meryl count k=$size memory=\$GALAXY_MEMORY_GB threads=\${GALAXY_SLOTS:-1} ./input_maternal_${i}.${read.ext} output 'maternal${i}.meryl' && #end for meryl union-sum maternal*.meryl output mat.meryl && #for $i, $read in enumerate($child_reads): - mkdir 'child{$i}.meryl' && - meryl count k=$size memory=\$GALAXY_MEMORY_GB threads=\${GALAXY_SLOTS:-1} '${read}' output 'child{$i}.meryl' && + mkdir 'child${i}.meryl' && + ln -s '$read' ./input_child_${i}.${read.ext} && + meryl count k=$size memory=\$GALAXY_MEMORY_GB threads=\${GALAXY_SLOTS:-1} ./input_child_${i}.${read.ext} output 'child${i}.meryl' && #end for meryl union-sum child*.meryl output child.meryl && ## mat specific kmers |