Mercurial > repos > jackcurragh > ribogalaxy_get_chrom_sizes
comparison get_chrom_sizes/get_chrom_sizes.xml @ 9:8c5c2953c097 draft
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| author | jackcurragh |
|---|---|
| date | Tue, 17 May 2022 13:21:57 +0000 |
| parents | 84664985411c |
| children | 5ee507e2c4a2 |
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| 8:84664985411c | 9:8c5c2953c097 |
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| 1 <tool id="get_chrom_sizes" name="Get Chromosome Sizes" version="2.2"> | 1 <tool id="get_chrom_sizes" name="Get Chromosome Sizes" version="2.2"> |
| 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 ${refGenomeSource.genomeSource} ${refGenomeSource.genomeSource.input1_file} ${refGenomeSource.genomeSource.input1_builtin} ${input2} ${output1} | 4 python $__tool_directory__/calculating_chrom.sizes.py ${refGenomeSource.genomeSource} |
| 5 #if $refGenomeSource.genomeSource == "history": | |
| 6 ${refGenomeSource.genomeSource.input1_file} | |
| 7 #else: | |
| 8 ${refGenomeSource.genomeSource.input1_builtin} | |
| 9 ${input2} ${output1} | |
| 5 </command> | 10 </command> |
| 6 <inputs> | 11 <inputs> |
| 7 <conditional name="refGenomeSource"> | 12 <conditional name="refGenomeSource"> |
| 8 <param name="genomeSource" type="select" label="Will you select a reference from your history or use a built-in FASTA?"> | 13 <param name="genomeSource" type="select" label="Will you select a reference from your history or use a built-in FASTA?"> |
| 9 <option value="builtin">Use a built-in FASTA</option> | 14 <option value="builtin">Use a built-in FASTA</option> |