Mercurial > repos > fubar > jbrowse2
comparison jbrowse2.xml @ 116:b55199c56abd draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 7b9eed035bb929af8907bb9f810b0c201562cdf2
| author | bgruening |
|---|---|
| date | Wed, 28 Aug 2024 07:34:43 +0000 |
| parents | 75f01bd05bd8 |
| children | c4b77883c0a7 |
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| 115:4aec47f872b3 | 116:b55199c56abd |
|---|---|
| 103 <dataset | 103 <dataset |
| 104 dname = "${assembly.reference_genome.genome.fields.name}" /> | 104 dname = "${assembly.reference_genome.genome.fields.name}" /> |
| 105 </metadata> | 105 </metadata> |
| 106 </genome> | 106 </genome> |
| 107 #else | 107 #else |
| 108 <genome path="$assembly.reference_genome.genome" label="${assembly.reference_genome.genome.name}" useuri="no"> | 108 <genome path="$assembly.reference_genome.genome" label="${assembly.reference_genome.genome.element_identifier}" useuri="no"> |
| 109 <metadata> | 109 <metadata> |
| 110 | 110 |
| 111 <dataset id="${__app__.security.encode_id($assembly.reference_genome.genome.id)}" | 111 <dataset id="${__app__.security.encode_id($assembly.reference_genome.genome.id)}" |
| 112 hid="${assembly.reference_genome.genome.hid}" | 112 hid="${assembly.reference_genome.genome.hid}" |
| 113 size="${assembly.reference_genome.genome.get_size(nice_size=True)}" | 113 size="${assembly.reference_genome.genome.get_size(nice_size=True)}" |
| 169 #if $track.data_format.useuri.annotation: | 169 #if $track.data_format.useuri.annotation: |
| 170 #set input_exists = "True" | 170 #set input_exists = "True" |
| 171 <track cat="${tg.category}" format="${track.data_format.data_format_select}" visibility="${track.data_format.track_visibility}"> | 171 <track cat="${tg.category}" format="${track.data_format.data_format_select}" visibility="${track.data_format.track_visibility}"> |
| 172 <files> | 172 <files> |
| 173 #for $dataset in $track.data_format.useuri.annotation: | 173 #for $dataset in $track.data_format.useuri.annotation: |
| 174 <trackFile path="${dataset}" ext="${dataset.ext}" label="${dataset.name}" useuri="no"> | 174 <trackFile path="${dataset}" ext="${dataset.ext}" label="${dataset.element_identifier}" useuri="no"> |
| 175 <metadata> | 175 <metadata> |
| 176 <dataset id="${__app__.security.encode_id($dataset.id)}" hid="${dataset.hid}" | 176 <dataset id="${__app__.security.encode_id($dataset.id)}" hid="${dataset.hid}" |
| 177 size="${dataset.get_size(nice_size=True)}" | 177 size="${dataset.get_size(nice_size=True)}" |
| 178 edam_format="${dataset.datatype.edam_format}" | 178 edam_format="${dataset.datatype.edam_format}" |
| 179 file_ext="${dataset.ext}" /> | 179 file_ext="${dataset.ext}" /> |