Mercurial > repos > iuc > mothur_taxonomy_to_krona
comparison taxonomy-to-krona.xml @ 8:db30eb96ea23 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 7599ef16dc8b83ee49236ed5bb229260c969b0ab
| author | iuc |
|---|---|
| date | Mon, 17 Jun 2024 12:18:02 +0000 |
| parents | 7bfd66707e6f |
| children |
comparison
equal
deleted
inserted
replaced
| 7:a97107cc4c93 | 8:db30eb96ea23 |
|---|---|
| 1 <tool id="mothur_taxonomy_to_krona" name="Taxonomy-to-Krona" version="1.0"> | 1 <tool id="mothur_taxonomy_to_krona" name="Taxonomy-to-Krona" version="1.0"> |
| 2 <description>convert a mothur taxonomy file to Krona input format</description> | 2 <description>convert a mothur taxonomy file to Krona input format</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>macros.xml</import> | 4 <import>macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro="biotools"/> | |
| 6 <command detect_errors="exit_code"><![CDATA[ | 7 <command detect_errors="exit_code"><![CDATA[ |
| 7 cat $inputfile | 8 cat $inputfile |
| 8 | tail -n +2 ## remove header line | 9 | tail -n +2 ## remove header line |
| 9 | cut -f2,3 ## remove first column | 10 | cut -f2,3 ## remove first column |
| 10 | sed 's/;/\t/g' ## split taxonomy field on semicolon | 11 | sed 's/;/\t/g' ## split taxonomy field on semicolon |