1
|
1 <tool id="get_chrom_sizes" name="Get Chromosome Sizes" version="2.0">
|
|
2 <description>Chromosome sizes are needed for the creation of ribosome profiles. This tool generates a tab delimited chrom.sizes file from an inputted fasta</description>
|
|
3 <command>
|
3
|
4 python $__tool_directory__/calculating_chrom.sizes.py ${input1} ${input2} ${output1}
|
1
|
5 </command>
|
0
|
6 <inputs>
|
1
|
7 <param name="input1" type="data" format="fasta" label="FASTA File" />
|
3
|
8 <param name="input2" type="text" label="Chromosome Column Prefix (eg. chr)" />
|
|
9
|
0
|
10 </inputs>
|
|
11 <outputs>
|
|
12 <data name="output1" format="tabular"/>
|
|
13 </outputs>
|
|
14 <tests>
|
|
15 <test>
|
1
|
16 <param name="input1" value="test.fasta" ftype="fasta" />
|
3
|
17 <param name="input2" value="chr"/>
|
0
|
18 <output name="output1" file="test.fasta.sizes" ftype="tabular" lines_diff="4" />
|
|
19 </test>
|
|
20 </tests>
|
|
21 <help>
|
|
22 **What it does**
|
|
23
|
1
|
24 creates a chromosome sizes file from a fasta file
|
0
|
25 </help>
|
|
26 <citations/>
|
|
27 </tool>
|