Mercurial > repos > jjohnson > mothur_toolsuite
comparison mothur/tools/mothur/pairwise.seqs.xml @ 1:fcc0778f6987
Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository
| author | jjohnson |
|---|---|
| date | Tue, 07 Jun 2011 17:35:35 -0400 |
| parents | 3202a38e44d9 |
| children | e990ac8a0f58 |
comparison
equal
deleted
inserted
replaced
| 0:3202a38e44d9 | 1:fcc0778f6987 |
|---|---|
| 1 <tool id="mothur_pairwise_seqs" name="Pairwise.seqs" version="1.15.0"> | 1 <tool id="mothur_pairwise_seqs" name="Pairwise.seqs" version="1.16.0"> |
| 2 <description>calculate uncorrected pairwise distances between sequences</description> | 2 <description>calculate uncorrected pairwise distances between sequences</description> |
| 3 <command interpreter="python"> | 3 <command interpreter="python"> |
| 4 mothur_wrapper.py | 4 mothur_wrapper.py |
| 5 --cmd='pairwise.seqs' | 5 --cmd='pairwise.seqs' |
| 6 --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.dist$:'$out_dist | 6 --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.dist$:'$out_dist |
| 19 --gapopen=$scoring.gapopen | 19 --gapopen=$scoring.gapopen |
| 20 --gapextend=$scoring.gapextend | 20 --gapextend=$scoring.gapextend |
| 21 #if len($output.__str__) > 0: | 21 #if len($output.__str__) > 0: |
| 22 --output=$output | 22 --output=$output |
| 23 #end if | 23 #end if |
| 24 --processors=2 | |
| 24 </command> | 25 </command> |
| 25 <inputs> | 26 <inputs> |
| 26 <param name="fasta" type="data" format="fasta" label="fasta - Fasta"/> | 27 <param name="fasta" type="data" format="fasta" label="fasta - Fasta"/> |
| 27 <param name="align" type="select" label="align - Select a pairwise alignment method" help=""> | 28 <param name="align" type="select" label="align - Select a pairwise alignment method" help=""> |
| 28 <option value="needleman">needleman (default)</option> | 29 <option value="needleman">needleman (default)</option> |