diff truncate_fasta_qual_files.xml @ 0:e5c3175506b7 default tip

Initial tool configs for qiime, most need work.

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/truncate_fasta_qual_files.xml	Sun Jul 17 10:30:11 2011 -0500
@@ -0,0 +1,32 @@
+<tool id="truncate_fasta_qual_files" name="truncate_fasta_qual_files" version="1.2.0">
+ <description>Generates filtered fasta and quality score files by truncating at the specified base position.</description>
+ <requirements>
+  <requirement type="binary">truncate_fasta_qual_files.py</requirement>
+ </requirements>
+ <command interpreter="python">
+  qiime_wrapper.py
+  --galaxy_tmpdir='$__new_file_path__'
+  truncate_fasta_qual_files.py
+  --fasta_fp=$fasta_fp
+  --qual_fp=$qual_fp
+  --base_pos=$base_pos
+  --output_dir=$__new_file_path__
+ </command>
+ <inputs>
+  <param name="fasta_fp" type="data" format="fasta" label="fasta_fp"
+   help="Fasta file.  Needed to test for congruety between the number of nucleotides in the fasta file and quality scores in the qual file. [REQUIRED]"/>
+  <param name="qual_fp" type="data" format="qual" label="qual_fp"
+   help="Quality score file used to generate histogram data. [REQUIRED]"/>
+  <param name="base_pos" type="text"  label="base_pos"
+   help="Nucleotide position to truncate the fasta and quality score files at. [REQUIRED]"/>
+ </inputs>
+ <outputs>
+  
+ </outputs>
+ <tests>
+ </tests>
+ <help>
+  
+ </help>
+</tool>
+