| Previous changeset 16:95ddee768b61 (2021-09-24) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/chira commit 8064fa653fe73c9432c76783d6c635d86548d538" |
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modified:
chira_map.xml macros.xml |
| b |
| diff -r 95ddee768b61 -r 7925dd016f53 chira_map.xml --- a/chira_map.xml Fri Sep 24 06:50:39 2021 +0000 +++ b/chira_map.xml Sun Dec 19 15:48:59 2021 +0000 |
| [ |
| @@ -1,9 +1,9 @@ -<tool id="chira_map" name="ChiRA map" version="@WRAPPER_VERSION@0"> +<tool id="chira_map" name="ChiRA map" version="@TOOL_VERSION@0"> <description>map reads to trascriptome</description> - <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> + <expand macro="bio_tools"/> <expand macro="requirements" /> <command detect_errors="aggressive"><![CDATA[ chira_map.py -b @@ -123,7 +123,6 @@ <param name="ref_type" value="split"/> <param name="ref_fasta1" value="ref1.fasta"/> <param name="ref_fasta2" value="ref2.fasta"/> - <param name="unmapped" value="True"/> <output name="mapped_bed" > <assert_contents> <has_text_matching expression="mmu-miR-6898-5p\t11\t21\t2\|2,mmu-miR-6898-5p,11,21,\+,10M39S\t1\t\+" /> @@ -142,7 +141,6 @@ <param name="ref_type" value="split"/> <param name="ref_fasta1" value="ref1.fasta"/> <param name="ref_fasta2" value="ref2.fasta"/> - <param name="unmapped" value="True"/> <output name="mapped_bed" > <assert_contents> <has_text_matching expression="mmu-miR-20a-5p\t0\t23\t3\|2,mmu-miR-20a-5p,0,23,\+,5S23M27S\t1\t\+" /> @@ -167,7 +165,7 @@ **Output** * BED file containing the alignments -* Optional unmapped FASTA file +* unmapped FASTA file (only for aligner BWA-MEM) </help> <expand macro="citations" /> |
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| diff -r 95ddee768b61 -r 7925dd016f53 macros.xml --- a/macros.xml Fri Sep 24 06:50:39 2021 +0000 +++ b/macros.xml Sun Dec 19 15:48:59 2021 +0000 |
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| @@ -1,5 +1,5 @@ <macros> - <token name="@WRAPPER_VERSION@">@TOOL_VERSION@+galaxy</token> + <token name="@TOOL_VERSION@">@TOOL_VERSION@+galaxy</token> <token name="@TOOL_VERSION@">1.4.3</token> <xml name="bio_tools"> <xrefs> |