annotate rapsodyn/SplitFile10x.xml @ 14:93e6f2af1ce2 draft

Uploaded
author mcharles
date Mon, 26 Jan 2015 18:10:52 -0500
parents 3f7b0788a1c4
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
7
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
1 <tool id="SplitFile10x" name="SplitFile10x" version="1.00">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
2 <description>Split file in 10</description>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
3 <command interpreter="perl">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
4 SplitFile10x.pl $input_file $line_number $output_file1 $output_file2 $output_file3 $output_file4 $output_file5 $output_file6 $output_file7 $output_file8 $output_file9 $output_file10
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
5 </command>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
6 <inputs>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
7 <param name="out_format" type="select" label="Format">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
8 <option value="pileup">pileup</option>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
9 <option value="fastq">fastq</option>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
10 <option value="fastqsanger">fastqsanger</option>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
11 <option value="sam">sam</option>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
12 <option value="fasta">fasta</option>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
13 </param>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
14 <param name="input_file" type="data" format="fastq,fastqsanger,fastqillumina,pileup,sam,fasta" label="Select a suitable input file from your history"/>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
15 <param name="line_number" type="integer" value="4" label="Number of line read at a time before splitting"/>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
16 </inputs>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
17 <outputs>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
18 <data name="output_file1" format="txt" label="PART1 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
19 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
20 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
21 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
22 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
23 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
24 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
25 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
26 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
27 <data name="output_file2" format="txt" label="PART2 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
28 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
29 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
30 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
31 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
32 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
33 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
34 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
35 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
36 <data name="output_file3" format="txt" label="PART3 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
37 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
38 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
39 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
40 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
41 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
42 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
43 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
44 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
45 <data name="output_file4" format="txt" label="PART4 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
46 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
47 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
48 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
49 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
50 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
51 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
52 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
53 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
54 <data name="output_file5" format="txt" label="PART5 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
55 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
56 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
57 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
58 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
59 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
60 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
61 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
62 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
63 <data name="output_file6" format="txt" label="PART6 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
64 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
65 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
66 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
67 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
68 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
69 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
70 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
71 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
72 <data name="output_file7" format="txt" label="PART7 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
73 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
74 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
75 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
76 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
77 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
78 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
79 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
80 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
81 <data name="output_file8" format="txt" label="PART8 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
82 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
83 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
84 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
85 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
86 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
87 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
88 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
89 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
90 <data name="output_file9" format="txt" label="PART9 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
91 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
92 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
93 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
94 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
95 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
96 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
97 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
98 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
99 <data name="output_file10" format="txt" label="PART10 on ${on_string}">
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
100 <change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
101 <when input="out_format" value="pileup" format="pileup" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
102 <when input="out_format" value="fastq" format="fastq" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
103 <when input="out_format" value="sam" format="sam" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
104 <when input="out_format" value="fasta" format="fasta" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
105 <when input="out_format" value="fastqsanger" format="fastqsanger" />
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
106 </change_format>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
107 </data>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
108
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
109 </outputs>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
110
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
111 <help>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
112
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
113
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
114
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
115 </help>
3f7b0788a1c4 Uploaded
mcharles
parents:
diff changeset
116 </tool>