Mercurial > repos > mvdbeek > r_goseq_1_22_0
comparison get_length_and_gc_content.xml @ 7:15ce6435ab83 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/goseq_1_22_0 commit fdd0811efc61c31f88ff17096fbe8ee8cfacd766-dirty
| author | mvdbeek |
|---|---|
| date | Thu, 25 Feb 2016 06:09:34 -0500 |
| parents | a6198fc1116f |
| children | f036e2d66c85 |
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| 6:d4b5942ed347 | 7:15ce6435ab83 |
|---|---|
| 4 <requirement type="package" version="3.2.1">R</requirement> | 4 <requirement type="package" version="3.2.1">R</requirement> |
| 5 <requirement type="package" version="1.22.0">goseq</requirement> | 5 <requirement type="package" version="1.22.0">goseq</requirement> |
| 6 </requirements> | 6 </requirements> |
| 7 <command interpreter="Rscript"> | 7 <command interpreter="Rscript"> |
| 8 get_length_and_gc_content.r --gtf "$gtf" | 8 get_length_and_gc_content.r --gtf "$gtf" |
| 9 --fasta "$fastaSource.fasta" | 9 #if $fastaSource.genomeSource == "indexed": |
| 10 --fasta "$fastaSource.fasta.fields.path" | |
| 11 #else: | |
| 12 --fasta "$fastaSource.fasta" | |
| 10 --output "output" | 13 --output "output" |
| 11 </command> | 14 </command> |
| 12 <inputs> | 15 <inputs> |
| 13 <param help="The GTF must match the FASTA file" label="GTF file for length and GC calculation" name="gtf" type="data" /> | 16 <param help="The GTF must match the FASTA file" label="GTF file for length and GC calculation" name="gtf" type="data" /> |
| 14 <conditional name="fastaSource"> | 17 <conditional name="fastaSource"> |