Mercurial > repos > jjohnson > cdhit
diff cd_hit_est.xml @ 2:cca0838c1597
Add an environment variable for the -M and -T options for memory and thread allocation
author | Jim Johnson <jj@umn.edu> |
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date | Tue, 26 Feb 2013 12:11:36 -0600 |
parents | 34a799d173f7 |
children | 43724ea1c85f |
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--- a/cd_hit_est.xml Fri Sep 07 13:52:03 2012 -0500 +++ b/cd_hit_est.xml Tue Feb 26 12:11:36 2013 -0600 @@ -1,10 +1,10 @@ -<tool id="cd_hit_est" name="CD-HIT-EST" version="1.1"> +<tool id="cd_hit_est" name="CD-HIT-EST" version="1.2"> <description>Cluster a nucleotide dataset into representative sequences</description> <requirements> <requirement type="package" version="4.6.1">cd-hit</requirement> </requirements> <command> - cd-hit-est -i $fasta_in -o rep_seq -c $similarity -n $wordsize $strand + cd-hit-est \$CDHIT_SITE_OPTIONS -i "$fasta_in" -o rep_seq -c $similarity -n $wordsize $strand </command> <inputs> <param name="fasta_in" type="data" format="fasta" label="EST Sequences to cluster"/>