Mercurial > repos > fubar > jbrowse2
comparison jbrowse2.xml @ 53:bdfa6a7c4543 draft
planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 44df75b3714aa9e02983e0b67ef43fc0eee4a8d4-dirty
| author | fubar |
|---|---|
| date | Thu, 07 Mar 2024 09:23:06 +0000 |
| parents | 460d5b6c5d98 |
| children | d6b0feb22584 |
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| 52:ae12977c0e5e | 53:bdfa6a7c4543 |
|---|---|
| 273 <when value="indexed"> | 273 <when value="indexed"> |
| 274 <param | 274 <param |
| 275 help="If your genome of interest is not listed, contact the Galaxy team" | 275 help="If your genome of interest is not listed, contact the Galaxy team" |
| 276 label="Select a reference genome" | 276 label="Select a reference genome" |
| 277 name="genome" | 277 name="genome" |
| 278 type="select"> | 278 type="select" |
| 279 optional="true"> | |
| 279 <options from_data_table="all_fasta"> | 280 <options from_data_table="all_fasta"> |
| 280 <filter column="2" type="sort_by"/> | 281 <filter column="2" type="sort_by"/> |
| 281 <validator message="No genomes are available for the selected input dataset" type="no_options"> | 282 <validator message="No genomes are available for the selected input dataset" type="no_options"> |
| 282 </validator> | 283 </validator> |
| 283 </options> | 284 </options> |
| 286 <when value="history"> | 287 <when value="history"> |
| 287 <param | 288 <param |
| 288 format="fasta" | 289 format="fasta" |
| 289 label="Select the reference genome" | 290 label="Select the reference genome" |
| 290 name="genome" | 291 name="genome" |
| 291 type="data"> | 292 type="data" |
| 293 optional="true"> | |
| 292 </param> | 294 </param> |
| 293 </when> | 295 </when> |
| 294 <when value="uri"> | 296 <when value="uri"> |
| 295 <param | 297 <param |
| 296 label="URI pointing to tabix compressed fasta" | 298 label="URI pointing to tabix compressed fasta" |
| 316 <param type="select" label="Track Type" name="data_format_select"> | 318 <param type="select" label="Track Type" name="data_format_select"> |
| 317 <option value="bam">BAM Pileup track</option> | 319 <option value="bam">BAM Pileup track</option> |
| 318 <option value="bed">BED track</option> | 320 <option value="bed">BED track</option> |
| 319 <option value="bigwig">BigWig track</option> | 321 <option value="bigwig">BigWig track</option> |
| 320 <option value="blastxml">Blast XML track - converted to GFF</option> | 322 <option value="blastxml">Blast XML track - converted to GFF</option> |
| 323 <option value="cram">CRAM</option> | |
| 321 <option value="cool">HiC as cool/mcool/scool format files</option> | 324 <option value="cool">HiC as cool/mcool/scool format files</option> |
| 322 <option value="cram">CRAM</option> | 325 <option value="gff">GFF/GFF3 feature track</option> |
| 323 <option value="gff" selected="true">GFF/GFF3 feature track</option> | |
| 324 <option value="hic">HiC as juicebox_hic format file. Tabular hic_matrix will NOT work.</option> | 326 <option value="hic">HiC as juicebox_hic format file. Tabular hic_matrix will NOT work.</option> |
| 325 <option value="maf">Multiple alignment format. Reference name must match the MAF name exactly to work correctly</option> | 327 <option value="maf">Multiple alignment format. Reference name must match the MAF name exactly to work correctly</option> |
| 326 <option value="paf">PAF - approximate mapping positions between two set of sequences</option> | 328 <option value="paf">PAF - approximate mapping positions between two set of sequences</option> |
| 327 <option value="vcf">VCF SNP</option> | 329 <option value="vcf">VCF SNP</option> |
| 328 </param> | 330 </param> |