Mercurial > repos > tduigou > rptools_rpfba

comparison test-data/rp_013_0001.xml @ 2:082cd90e7254 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rptools commit 2333b7b56422febf439cd9f4cd3e6eda858b2690
author tduigou
date Tue, 28 Mar 2023 12:10:05 +0000
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1:5d35eea4f75d 2:082cd90e7254
1 <?xml version="1.0" encoding="UTF-8"?>
2 <sbml xmlns="http://www.sbml.org/sbml/level3/version1/core" xmlns:groups="http://www.sbml.org/sbml/level3/version1/groups/version1" xmlns:fbc="http://www.sbml.org/sbml/level3/version1/fbc/version2" level="3" version="1" groups:required="false" fbc:required="false">
3 <model metaid="_2db93def850b5b412e9c6bfb2f3ae31a33b90fb03a3777278e0e69de0adbd9b8" id="RP_model_013_0001" name="013_0001" substanceUnits="mole" timeUnits="second" extentUnits="mole" fbc:strict="true">
4 <listOfCompartments>
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14 <rdf:li rdf:resource="http://identifiers.org/seed/c"/>
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272 <listOfProducts>
273 <speciesReference species="MNXM1" stoichiometry="1" constant="true"/>
274 <speciesReference species="TARGET_0000000001" stoichiometry="1" constant="true"/>
275 </listOfProducts>
276 </reaction>
277 <reaction metaid="_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4" sboTerm="SBO:0000176" id="rxn_1" reversible="false" fast="false" fbc:lowerFluxBound="BRS_FBC__10000" fbc:upperFluxBound="BRS_FBC_10000">
278 <annotation>
279 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
280 <rdf:Description rdf:about="#_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4">
281 <bqbiol:is>
282 <rdf:Bag>
283 <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.61"/>
284 </rdf:Bag>
285 </bqbiol:is>
286 </rdf:Description>
287 <rdf:BRSynth rdf:about="#_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4">
288 <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
289 <brsynth:smiles value="[H+].[H]OC(=O)c1c([H])c([H])c(O[H])c([H])c1[H]&gt;&gt;[H]Oc1c([H])c([H])c([H])c([H])c1[H].O=C=O"/>
290 <brsynth:rp2_transfo_id value="TRS_0_2_60"/>
291 <brsynth:rule_id value="RR-02-d3b162f199b260fc-16-F"/>
292 <brsynth:tmpl_rxn_id value="MNXR106877"/>
293 <brsynth:rule_score value="0.7023718970192103"/>
294 <brsynth:idx_in_path value="1"/>
295 <brsynth:selenzy/>
296 </brsynth:brsynth>
297 </rdf:BRSynth>
298 </rdf:RDF>
299 </annotation>
300 <listOfReactants>
301 <speciesReference species="MNXM188" stoichiometry="1" constant="true"/>
302 <speciesReference species="MNXM4" stoichiometry="1" constant="true"/>
303 <speciesReference species="MNXM6" stoichiometry="1" constant="true"/>
304 <speciesReference species="MNXM1" stoichiometry="3" constant="true"/>
305 </listOfReactants>
306 <listOfProducts>
307 <speciesReference species="CMPD_0000000004" stoichiometry="1" constant="true"/>
308 <speciesReference species="CMPD_0000000003" stoichiometry="1" constant="true"/>
309 <speciesReference species="MNXM13" stoichiometry="1" constant="true"/>
310 <speciesReference species="MNXM15" stoichiometry="1" constant="true"/>
311 <speciesReference species="MNXM5" stoichiometry="1" constant="true"/>
312 </listOfProducts>
313 </reaction>
314 </listOfReactions>
315 <groups:listOfGroups>
316 <groups:group metaid="_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299" groups:id="rp_pathway" groups:kind="collection">
317 <annotation>
318 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
319 <rdf:BRSynth rdf:about="#_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299">
320 <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
321 <brsynth:global_score value="-1"/>
322 </brsynth:brsynth>
323 </rdf:BRSynth>
324 </rdf:RDF>
325 </annotation>
326 <groups:listOfMembers>
327 <groups:member groups:idRef="rxn_1"/>
328 <groups:member groups:idRef="rxn_2"/>
329 <groups:member groups:idRef="rxn_3"/>
330 </groups:listOfMembers>
331 </groups:group>
332 <groups:group metaid="_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a" groups:id="rp_intermediate_species" groups:kind="collection">
333 <annotation>
334 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
335 <rdf:BRSynth rdf:about="#_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a">
336 <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
337 </rdf:BRSynth>
338 </rdf:RDF>
339 </annotation>
340 <groups:listOfMembers>
341 <groups:member groups:idRef="CMPD_0000000004"/>
342 <groups:member groups:idRef="CMPD_0000000003"/>
343 </groups:listOfMembers>
344 </groups:group>
345 <groups:group metaid="_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579" groups:id="rp_trunk_species" groups:kind="collection">
346 <annotation>
347 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
348 <rdf:BRSynth rdf:about="#_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579">
349 <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
350 </rdf:BRSynth>
351 </rdf:RDF>
352 </annotation>
353 <groups:listOfMembers>
354 <groups:member groups:idRef="TARGET_0000000001"/>
355 <groups:member groups:idRef="MNXM4"/>
356 <groups:member groups:idRef="MNXM164"/>
357 <groups:member groups:idRef="CMPD_0000000004"/>
358 <groups:member groups:idRef="CMPD_0000000003"/>
359 <groups:member groups:idRef="MNXM6"/>
360 </groups:listOfMembers>
361 </groups:group>
362 <groups:group metaid="_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378" groups:id="rp_completed_species" groups:kind="collection">
363 <annotation>
364 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
365 <rdf:BRSynth rdf:about="#_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378">
366 <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
367 </rdf:BRSynth>
368 </rdf:RDF>
369 </annotation>
370 <groups:listOfMembers>
371 <groups:member groups:idRef="MNXM5"/>
372 <groups:member groups:idRef="MNXM13"/>
373 <groups:member groups:idRef="MNXM2"/>
374 <groups:member groups:idRef="MNXM1"/>
375 </groups:listOfMembers>
376 </groups:group>
377 <groups:group metaid="_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3" groups:id="rp_sink_species" groups:kind="collection">
378 <annotation>
379 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
380 <rdf:BRSynth rdf:about="#_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3">
381 <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
382 </rdf:BRSynth>
383 </rdf:RDF>
384 </annotation>
385 <groups:listOfMembers>
386 <groups:member groups:idRef="MNXM2"/>
387 <groups:member groups:idRef="MNXM13"/>
388 <groups:member groups:idRef="MNXM4"/>
389 <groups:member groups:idRef="MNXM1"/>
390 <groups:member groups:idRef="MNXM164"/>
391 <groups:member groups:idRef="MNXM5"/>
392 <groups:member groups:idRef="MNXM6"/>
393 </groups:listOfMembers>
394 </groups:group>
395 </groups:listOfGroups>
396 </model>
397 </sbml>