Mercurial > repos > jackcurragh > ribogalaxy_get_chrom_sizes
comparison get_chrom_sizes/get_chrom_sizes.xml @ 3:cfdf764b9226 draft
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author | jackcurragh |
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date | Thu, 21 Apr 2022 10:39:18 +0000 |
parents | 27f3669eda60 |
children | c6a297d05c8e |
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2:a244b29ce89a | 3:cfdf764b9226 |
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1 <tool id="get_chrom_sizes" name="Get Chromosome Sizes" version="2.0"> | 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> | 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 <command> |
4 python $__tool_directory__/calculating_chrom.sizes.py ${input1} ${output1} | 4 python $__tool_directory__/calculating_chrom.sizes.py ${input1} ${input2} ${output1} |
5 </command> | 5 </command> |
6 <inputs> | 6 <inputs> |
7 <param name="input1" type="data" format="fasta" label="FASTA File" /> | 7 <param name="input1" type="data" format="fasta" label="FASTA File" /> |
8 <param name="input2" type="text" label="Chromosome Column Prefix (eg. chr)" /> | |
9 | |
8 </inputs> | 10 </inputs> |
9 <outputs> | 11 <outputs> |
10 <data name="output1" format="tabular"/> | 12 <data name="output1" format="tabular"/> |
11 </outputs> | 13 </outputs> |
12 <tests> | 14 <tests> |
13 <test> | 15 <test> |
14 <param name="input1" value="test.fasta" ftype="fasta" /> | 16 <param name="input1" value="test.fasta" ftype="fasta" /> |
17 <param name="input2" value="chr"/> | |
15 <output name="output1" file="test.fasta.sizes" ftype="tabular" lines_diff="4" /> | 18 <output name="output1" file="test.fasta.sizes" ftype="tabular" lines_diff="4" /> |
16 </test> | 19 </test> |
17 </tests> | 20 </tests> |
18 <help> | 21 <help> |
19 **What it does** | 22 **What it does** |