Mercurial > repos > jjohnson > qiime

diff quality_scores_plot.xml @ 0:e5c3175506b7 default tip
Initial tool configs for qiime, most need work.
author: Jim Johnson <jj@umn.edu>
date: Sun, 17 Jul 2011 10:30:11 -0500
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/quality_scores_plot.xml	Sun Jul 17 10:30:11 2011 -0500
@@ -0,0 +1,30 @@
+<tool id="quality_scores_plot" name="quality_scores_plot" version="1.2.1">
+ <description>Generates histograms of sequence quality scores and number of nucleotides recorded at a particular index</description>
+ <requirements>
+  <requirement type="binary">quality_scores_plot.py</requirement>
+ </requirements>
+ <command interpreter="python">
+  qiime_wrapper.py
+  --galaxy_tmpdir='$__new_file_path__'
+  quality_scores_plot.py
+  --qual_fp=$qual_fp
+  --output_dir=$__new_file_path__
+  --score_min=$score_min
+  --verbose
+ </command>
+ <inputs>
+  <param name="qual_fp" type="data" format="qual" label="qual_fp"
+   help="Quality score file used to generate histogram data. [REQUIRED]"/>
+  <param name="score_min" type="text" value="25" label="score_min"
+   help="Minimum quality score to be considered acceptable.  Used to draw dotted line on histogram for easy visualization of poor quality scores. [default: 25]"/>
+ </inputs>
+ <outputs>
+  
+ </outputs>
+ <tests>
+ </tests>
+ <help>
+  
+ </help>
+</tool>
+