Mercurial > repos > lomereiter > sambamba_filter
diff sambamba_filter.xml @ 5:123168c85390
updated to 0.4.7; use precompiled binaries
author | lomereiter <lomereiter@gmail.com> |
---|---|
date | Tue, 04 Nov 2014 18:34:37 +0300 |
parents | a03e95059256 |
children |
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--- a/sambamba_filter.xml Wed Jul 24 13:33:50 2013 -0400 +++ b/sambamba_filter.xml Tue Nov 04 18:34:37 2014 +0300 @@ -1,6 +1,6 @@ -<tool id="sambamba_filter" name="Filter BAM or SAM" version="1.0"> +<tool id="sambamba_filter" name="Filter BAM or SAM" version="1.1"> <requirements> - <requirement type="package" version="0.3.3">sambamba</requirement> + <requirement type="package" version="0.4.7">sambamba</requirement> </requirements> <description> on flags, fields, and tags using Sambamba @@ -20,7 +20,7 @@ #set $input1 = 'input.bam' ln -s $input $input1 && ln -s $input.metadata.bam_index input.bai && - sambamba view + sambamba view -t \${GALAXY_SLOTS:-8} #if $query != "": --filter="$query" #end if @@ -71,8 +71,6 @@ Filter Syntax ============= -Complete documentation of filter syntax is available at https://github.com/lomereiter/sambamba/wiki/%5Bsambamba-view%5D-Filter-expression-syntax. - A *filter expression* is a number of *basic conditions* linked by ``and``, ``or``, ``not`` logical operators, and enclosed in parentheses where needed. *Basic condition* is a one for a single record field, tag, or flag. @@ -157,7 +155,6 @@ ----- .. _sambamba: http://github.com/lomereiter/sambamba -.. _filter-syntax: https://github.com/lomereiter/sambamba/wiki/%5Bsambamba-view%5D-Filter-expression-syntax </help> </tool>