Mercurial > repos > iuc > mothur_list_seqs
diff list.seqs.xml @ 1:8fc365d239a2 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit ea40e3d84e7850eb4226d6c85f709dcad18d4ba9
| author | iuc |
|---|---|
| date | Thu, 18 May 2017 18:31:19 -0400 |
| parents | 1fdda3adf67e |
| children | 8fc97e7b351c |
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--- a/list.seqs.xml Fri Jun 24 16:36:48 2016 -0400 +++ b/list.seqs.xml Thu May 18 18:31:19 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 "$search.input" search.input.dat && @@ -30,6 +33,7 @@ )' | sed 's/ //g' ## mothur trips over whitespace | mothur + | tee mothur.out.log ]]></command> <inputs> <conditional name="search"> @@ -92,16 +96,16 @@ @MOTHUR_OVERVIEW@ -**Command Documenation** +**Command Documentation** The list.seqs_ command writes out the names of the sequences found within a fasta, name_, group_, list_, align.report_ or taxonomy_ file. -.. _name: http://www.mothur.org/wiki/Name_file -.. _group: http://www.mothur.org/wiki/Group_file -.. _list: http://www.mothur.org/wiki/List_file -.. _align.report: http://www.mothur.org/wiki/Align.seqs -.. _taxonomy: http://www.mothur.org/wiki/Taxonomy_outline -.. _list.seqs: http://www.mothur.org/wiki/list.seqs +.. _name: https://www.mothur.org/wiki/Name_file +.. _group: https://www.mothur.org/wiki/Group_file +.. _list: https://www.mothur.org/wiki/List_file +.. _align.report: https://www.mothur.org/wiki/Align.seqs +.. _taxonomy: https://www.mothur.org/wiki/Taxonomy_outline +.. _list.seqs: https://www.mothur.org/wiki/list.seqs v.1.20.0: Updated to mothur 1.33, added count and fastq option ]]>