annotate SMART/galaxy/WrappGetLetterDistribution.xml @ 8:4dded8b1fbc4

Deleted selected files
author m-zytnicki
date Fri, 18 Jan 2013 09:01:47 -0500
parents 769e306b7933
children 440ceca58672
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
6
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
1 <tool id="getLetterDistribution1" name="Get Letter Distribution">
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
2 <description>Calculate distribution for each nucleotide per position for all short reads (S-MART)</description>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
3 <command interpreter="python">
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
4 WrappGetLetterDistribution.py -i $inputFileName
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
5 #if $formatType.FormatInputFileName == 'fasta':
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
6 -f fasta
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
7 #else :
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
8 -f fastq
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
9 #end if
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
10 -c $ouputFileNameCSV -a $ouputFileNamePNG1 -b $ouputFileNamePNG2
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
11 </command>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
12 <inputs>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
13 <conditional name="formatType">
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
14 <param name="FormatInputFileName" type="select" label="Input File Format">
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
15 <option value="fasta">fasta</option>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
16 <option value="fastq" selected="true">fastq</option>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
17 </param>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
18 <when value="fasta">
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
19 <param name="inputFileName" format="fasta" type="data" label="Fasta Input File"/>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
20 </when>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
21 <when value="fastq">
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
22 <param name="inputFileName" format="fastq" type="data" label="Fastq Input File"/>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
23 </when>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
24 </conditional>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
25 </inputs>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
26
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
27 <outputs>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
28 <data name="ouputFileNameCSV" format="tabular" label="[getLetterDistribution] CSV File"/>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
29 <data name="ouputFileNamePNG1" format="png" label="[getLetterDistribution] PNG File 1"/>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
30 <data name="ouputFileNamePNG2" format="png" label="[getLetterDistribution] PNG File 2"/>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
31 </outputs>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
32 </tool>
769e306b7933 Change the repository level.
yufei-luo
parents:
diff changeset
33