Mercurial > repos > ebi-gxa > gtf2gene_list
comparison gtf2featureAnnotation.xml @ 4:b6354c917ef9 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/util/.shed.yml commit ab0f820986e34953ac7a309d76adb178a315b98f
| author | ebi-gxa |
|---|---|
| date | Fri, 25 Oct 2019 09:25:20 -0400 |
| parents | b95e6a9bb15c |
| children | 00ee933b08fd |
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| 3:b95e6a9bb15c | 4:b6354c917ef9 |
|---|---|
| 1 <tool id="_ensembl_gtf2gene_list" name="GTF2GeneList" version="1.42.1+galaxy3"> | 1 <tool id="_ensembl_gtf2gene_list" name="GTF2GeneList" version="1.42.1+galaxy4"> |
| 2 <description>extracts a complete annotation table or subsets thereof from an Ensembl GTF using rtracklayer</description> | 2 <description>extracts a complete annotation table or subsets thereof from an Ensembl GTF using rtracklayer</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.42.1">bioconductor-rtracklayer</requirement> | 4 <requirement type="package" version="1.42.1">bioconductor-rtracklayer</requirement> |
| 5 <requirement type="package">bioconductor-biostrings</requirement> | 5 <requirement type="package">bioconductor-biostrings</requirement> |
| 6 <requirement type="package">r-optparse</requirement> | 6 <requirement type="package">r-optparse</requirement> |
| 49 </inputs> | 49 </inputs> |
| 50 | 50 |
| 51 <outputs> | 51 <outputs> |
| 52 <data name="feature_annotation" format="tsv" from_work_dir="annotation.txt" label="${tool.name} on ${on_string}: annotation table"/> | 52 <data name="feature_annotation" format="tsv" from_work_dir="annotation.txt" label="${tool.name} on ${on_string}: annotation table"/> |
| 53 <data name="fasta_output" format="fasta.gz" from_work_dir="filtered.fa.gz" label="${tool.name} on ${on_string}: annotation-matched sequences"> | 53 <data name="fasta_output" format="fasta.gz" from_work_dir="filtered.fa.gz" label="${tool.name} on ${on_string}: annotation-matched sequences"> |
| 54 <filter>filter_cdnas</filter> | 54 <filter>cdnas['filter_cdnas']</filter> |
| 55 </data> | 55 </data> |
| 56 </outputs> | 56 </outputs> |
| 57 <tests> | 57 <tests> |
| 58 <test> | 58 <test> |
| 59 <param name="gtf_input" ftype="gtf" value="test.gtf"/> | 59 <param name="gtf_input" ftype="gtf" value="test.gtf"/> |