Mercurial > repos > iuc > mothur_split_abund
diff split.abund.xml @ 1:59ab81a8d28d draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit a9d1e0debcd357d8080a1c6c5f1d206dd45a7a4d
| author | iuc |
|---|---|
| date | Fri, 19 May 2017 04:21:32 -0400 |
| parents | 2077ddb27f4c |
| children | ef779f6cb288 |
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--- a/split.abund.xml Fri Jun 24 16:50:46 2016 -0400 +++ b/split.abund.xml Fri May 19 04:21:32 2017 -0400 @@ -4,8 +4,11 @@ <import>macros.xml</import> </macros> <expand macro="requirements"/> + <expand macro="stdio"/> <expand macro="version_command"/> - <command detect_errors="aggressive"><![CDATA[ + <command><![CDATA[ + @SHELL_OPTIONS@ + ## create symlinks to input datasets ln -s "$fasta" fasta.dat && ln -s "$search.input" search_input.dat && @@ -38,6 +41,7 @@ )' | sed 's/ //g' ## mothur trips over whitespace | mothur + | tee mothur.out.log ]]></command> <inputs> <param name="fasta" type="data" format="fasta" label="fasta - Fasta"/> @@ -294,13 +298,13 @@ @MOTHUR_OVERVIEW@ -**Command Documenation** +**Command Documentation** The split.abund_ command reads a fasta file and a list_ or a name_ file and splits the sequences into rare and abundant groups. -.. _list: http://www.mothur.org/wiki/List_file -.. _name: http://www.mothur.org/wiki/Name_file -.. _split.abund: http://www.mothur.org/wiki/Split.abund +.. _list: https://www.mothur.org/wiki/List_file +.. _name: https://www.mothur.org/wiki/Name_file +.. _split.abund: https://www.mothur.org/wiki/Split.abund ]]> </help> <expand macro="citations"/>