Mercurial > repos > rnateam > intarna

comparison intarna.xml @ 2:4616bc52f157 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/intarna commit d9a176f273a0d50e10b3bd81884436d4974e8c70-dirty
author rnateam
date Thu, 07 Sep 2017 17:55:09 -0400
parents 34de9855c962
children 03c09b961567
comparison
equal deleted inserted replaced
1:34de9855c962 2:4616bc52f157
11 <option value="E">ED values in RNAplfold Pu-like format from --qAccFile</option> 11 <option value="E">ED values in RNAplfold Pu-like format from --qAccFile</option>
12 </param> 12 </param>
13 <when value="N"/> 13 <when value="N"/>
14 <when value="C"/> 14 <when value="C"/>
15 <when value="P"> 15 <when value="P">
16 <param argument="--qAccFile" format="text" type="data" label="Accessibility computation" help="" /> 16 <param argument="--qAccFile" format="txt" type="data" label="Accessibility computation" help="" />
17 </when> 17 </when>
18 <when value="E"> 18 <when value="E">
19 <param argument="--qAccFile" format="text" type="data" label="Accessibility computation" help="" /> 19 <param argument="--qAccFile" format="txt" type="data" label="Accessibility computation" help="" />
20 </when> 20 </when>
21 </conditional> 21 </conditional>
22 <param argument="--qAccW" type="integer" value="150" min="0" max="99999" 22 <param argument="--qAccW" type="integer" value="150" min="0" max="99999"
23 label="Max. interaction length" help="... for query accessibility computation. Set to 0 to use full sequence length"/> 23 label="Max. interaction length" help="... for query accessibility computation. Set to 0 to use full sequence length"/>
24 <param argument="--qAccL" type="integer" value="100" min="0" max="99999" 24 <param argument="--qAccL" type="integer" value="100" min="0" max="99999"
34 <option value="E">ED values in RNAplfold Pu-like format from --qAccFile</option> 34 <option value="E">ED values in RNAplfold Pu-like format from --qAccFile</option>
35 </param> 35 </param>
36 <when value="N"/> 36 <when value="N"/>
37 <when value="C"/> 37 <when value="C"/>
38 <when value="P"> 38 <when value="P">
39 <param argument="--tAccFile" format="text" type="data" label="The file to be parsed" help="... for accessibility computation" /> 39 <param argument="--tAccFile" format="txt" type="data" label="The file to be parsed" help="... for accessibility computation" />
40 </when> 40 </when>
41 <when value="E"> 41 <when value="E">
42 <param argument="--tAccFile" format="text" type="data" label="Accessibility computation" help="" /> 42 <param argument="--tAccFile" format="txt" type="data" label="Accessibility computation" help="" />
43 </when> 43 </when>
44 </conditional> 44 </conditional>
45 <param argument="--tAccW" type="integer" value="150" min="0" max="99999" 45 <param argument="--tAccW" type="integer" value="150" min="0" max="99999"
46 label="Max. interaction length" help="... for query accessibility computation. Set to 0 to use full sequence length"/> 46 label="Max. interaction length" help="... for query accessibility computation. Set to 0 to use full sequence length"/>
47 <param argument="--tAccL" type="integer" value="100" min="0" max="99999" 47 <param argument="--tAccL" type="integer" value="100" min="0" max="99999"
317 </section> 317 </section>
318 </when> 318 </when>
319 </conditional> 319 </conditional>
320 </inputs> 320 </inputs>
321 <outputs> 321 <outputs>
322 <data name="outfile" format="text" label="IntaRNA on ${on_string}"> 322 <data name="outfile" format="txt" label="IntaRNA on ${on_string}">
323 <change_format> 323 <change_format>
324 <when input="advancedOptions.output.outMode" value="C" format="tabular" /> 324 <when input="advancedOptions.output.outMode" value="C" format="tabular" />
325 </change_format> 325 </change_format>
326 </data> 326 </data>
327 <data name="outQAccFile" format="text" label="Query's ED values, on ${on_string}"> 327 <data name="outQAccFile" format="txt" label="Query's ED values, on ${on_string}">
328 <filter> 328 <filter>
329 (( 329 ((
330 advancedOptions['advancedSelector'] == "advanced" and 330 advancedOptions['advancedSelector'] == "advanced" and
331 advancedOptions['output']['add_output_cond']['selector'] == "add" and 331 advancedOptions['output']['add_output_cond']['selector'] == "add" and
332 'outQAccFile' in advancedOptions['output']['add_output_cond']['add_output'] 332 'outQAccFile' in advancedOptions['output']['add_output_cond']['add_output']
333 )) 333 ))
334 </filter> 334 </filter>
335 </data> 335 </data>
336 <data name="outTAccFile" format="text" label="Target's ED values, on ${on_string}"> 336 <data name="outTAccFile" format="txt" label="Target's ED values, on ${on_string}">
337 <filter> 337 <filter>
338 (( 338 ((
339 advancedOptions['advancedSelector'] == "advanced" and 339 advancedOptions['advancedSelector'] == "advanced" and
340 advancedOptions['output']['add_output_cond']['selector'] == "add" and 340 advancedOptions['output']['add_output_cond']['selector'] == "add" and
341 'outTAccFile' in advancedOptions['output']['add_output_cond']['add_output'] 341 'outTAccFile' in advancedOptions['output']['add_output_cond']['add_output']
342 )) 342 ))
343 </filter> 343 </filter>
344 </data> 344 </data>
345 <data name="outQPuFile" format="text" label="Query's unpaired probabilities used for ED values, on ${on_string}"> 345 <data name="outQPuFile" format="txt" label="Query's unpaired probabilities used for ED values, on ${on_string}">
346 <filter> 346 <filter>
347 (( 347 ((
348 advancedOptions['advancedSelector'] == "advanced" and 348 advancedOptions['advancedSelector'] == "advanced" and
349 advancedOptions['output']['add_output_cond']['selector'] == "add" and 349 advancedOptions['output']['add_output_cond']['selector'] == "add" and
350 'outQPuFile' in advancedOptions['output']['add_output_cond']['add_output'] 350 'outQPuFile' in advancedOptions['output']['add_output_cond']['add_output']
351 )) 351 ))
352 </filter> 352 </filter>
353 </data> 353 </data>
354 <data name="outTPuFile" format="text" label="Target's unpaired probabilities used for ED values, on ${on_string}"> 354 <data name="outTPuFile" format="txt" label="Target's unpaired probabilities used for ED values, on ${on_string}">
355 <filter> 355 <filter>
356 (( 356 ((
357 advancedOptions['advancedSelector'] == "advanced" and 357 advancedOptions['advancedSelector'] == "advanced" and
358 advancedOptions['output']['add_output_cond']['selector'] == "add" and 358 advancedOptions['output']['add_output_cond']['selector'] == "add" and
359 'outTPuFile' in advancedOptions['output']['add_output_cond']['add_output'] 359 'outTPuFile' in advancedOptions['output']['add_output_cond']['add_output']