Mercurial > repos > rnateam > rbpbench
comparison rbpbench.xml @ 2:26c64157456b draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/rbpbench commit 3bd486da76a7a55cc5a57cb88f446a11cbc3826d
| author | rnateam |
|---|---|
| date | Mon, 11 Dec 2023 18:55:41 +0000 |
| parents | 7dd2835ce566 |
| children |
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| 1:b022c6591515 | 2:26c64157456b |
|---|---|
| 98 --plotly-js-mode 7 | 98 --plotly-js-mode 7 |
| 99 #else: | 99 #else: |
| 100 --plotly-js-mode 4 | 100 --plotly-js-mode 4 |
| 101 #end if | 101 #end if |
| 102 #end if | 102 #end if |
| 103 --meme-no-check | |
| 104 --meme-no-pgc | |
| 103 | 105 |
| 104 #if $action_type.search_output_options.search_report: | 106 #if $action_type.search_output_options.search_report: |
| 105 && | 107 && |
| 106 sed -i 's/html_report_plots\///g' ./report.rbpbench_search.html | 108 sed -i 's/html_report_plots\///g' ./report.rbpbench_search.html |
| 107 && | 109 && |
| 144 --method-list | 146 --method-list |
| 145 #for $i in $action_type.dataset_inputs: | 147 #for $i in $action_type.dataset_inputs: |
| 146 $i.dataset_method_id | 148 $i.dataset_method_id |
| 147 #end for | 149 #end for |
| 148 @COMMON_PARAMS@ | 150 @COMMON_PARAMS@ |
| 151 --meme-no-check | |
| 152 --meme-no-pgc | |
| 149 | 153 |
| 150 #elif $action_type.action_type_selector == 'batch_table_search_motifs': | 154 #elif $action_type.action_type_selector == 'batch_table_search_motifs': |
| 151 @PREPARE_REF@ | 155 @PREPARE_REF@ |
| 152 batch_table_wrapper_rbpbench.py | 156 batch_table_wrapper_rbpbench.py |
| 153 --out ./ | 157 --out ./ |
| 160 --ids | 164 --ids |
| 161 #for $i in $action_type.batch_table_bed_collection: | 165 #for $i in $action_type.batch_table_bed_collection: |
| 162 $i.element_identifier | 166 $i.element_identifier |
| 163 #end for | 167 #end for |
| 164 @COMMON_PARAMS@ | 168 @COMMON_PARAMS@ |
| 169 --meme-no-check | |
| 170 --meme-no-pgc | |
| 165 | 171 |
| 166 #elif $action_type.action_type_selector == 'plot_nt_dist': | 172 #elif $action_type.action_type_selector == 'plot_nt_dist': |
| 167 @PREPARE_REF@ | 173 @PREPARE_REF@ |
| 168 rbpbench dist | 174 rbpbench dist |
| 169 --in '$action_type.dist_bed_file' | 175 --in '$action_type.dist_bed_file' |