Mercurial > repos > yating-l > jbrowse_hub
comparison jbrowse_hub.xml @ 32:f45a253f7c6a draft
planemo upload for repository https://github.com/Yating-L/jbrowse_hub commit faeedda55e23f1197bc454d3db2d52af29d786e8-dirty
| author | yating-l |
|---|---|
| date | Fri, 17 Mar 2017 12:37:08 -0400 |
| parents | d8049deb0c97 |
| children | 39a214ac35a7 |
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| 31:d8049deb0c97 | 32:f45a253f7c6a |
|---|---|
| 54 #end if | 54 #end if |
| 55 #if $f.formatChoice.format_select == 'gff3' | 55 #if $f.formatChoice.format_select == 'gff3' |
| 56 #if $f.formatChoice.gff3Choice.gff3_select == 'gff3_transcript' | 56 #if $f.formatChoice.gff3Choice.gff3_select == 'gff3_transcript' |
| 57 --gff3_transcript $f.formatChoice.gff3Choice.GFF3_transcript | 57 --gff3_transcript $f.formatChoice.gff3Choice.GFF3_transcript |
| 58 #silent $prepare_json($f.formatChoice.gff3Choice.GFF3_transcript, extra_data_dict) | 58 #silent $prepare_json($f.formatChoice.gff3Choice.GFF3_transcript, extra_data_dict) |
| 59 #end if | |
| 60 #elif $f.formatChoice.gff3Choice.gff3_select == 'gff3_mrna' | 59 #elif $f.formatChoice.gff3Choice.gff3_select == 'gff3_mrna' |
| 61 --gff3_mrna $f.formatChoice.gff3Choice.GFF3_mrna | 60 --gff3_mrna $f.formatChoice.gff3Choice.GFF3_mrna |
| 62 #silent $prepare_json($f.formatChoice.gff3Choice.GFF3_mrna, extra_data_dict) | 61 #silent $prepare_json($f.formatChoice.gff3Choice.GFF3_mrna, extra_data_dict) |
| 63 #end if | 62 #end if |
| 64 #end if | 63 #end if |
| 75 #silent $prepare_json($f.formatChoice.BIGWIG, extra_data_dict) | 74 #silent $prepare_json($f.formatChoice.BIGWIG, extra_data_dict) |
| 76 #end if | 75 #end if |
| 77 #end for | 76 #end for |
| 78 | 77 |
| 79 #set all_data_json = json.dumps($data_parameter_dict) | 78 #set all_data_json = json.dumps($data_parameter_dict) |
| 80 -j '$all_data_json' | 79 -j '$all_data_json' |
| 81 -e '$output.extra_files_path' | 80 -e '$output.extra_files_path' |
| 82 -o '$output' | 81 -o '$output' |
| 83 | 82 |
| 84 ]]></command> | 83 ]]></command> |
| 85 | 84 |
| 86 <inputs> | 85 <inputs> |
| 87 <param name="reference" type="data" format="fasta" label="Reference Genome" /> | 86 <param name="reference" type="data" format="fasta" label="Reference Genome" /> |