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view test-data/rp_003_0001.xml @ 1:b8242cf18cc0 draft

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"planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
author tduigou
date Wed, 09 Feb 2022 16:05:48 +0000
parents 98d925a75257
children e8d56cb2be03
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<?xml version="1.0" encoding="UTF-8"?>
<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">
  <model metaid="d4bfc4fec7c42e9de20c2ade1a21933a8c1ca015d4ca77b2b5f95790e798931c" id="RP_model_003_0001" name="003_0001" substanceUnits="mole" timeUnits="second" extentUnits="mole" fbc:strict="true">
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                  <rdf:li rdf:resource="http://identifiers.org/bigg.compartment/c"/>
                  <rdf:li rdf:resource="http://identifiers.org/bigg.compartment/c_c"/>
                  <rdf:li rdf:resource="http://identifiers.org/metanetx.compartment/MNXC3"/>
                  <rdf:li rdf:resource="http://identifiers.org/seed/c"/>
                  <rdf:li rdf:resource="http://identifiers.org/seed/c0"/>
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                  <rdf:li rdf:resource="http://identifiers.org/name/cytosol"/>
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    </listOfSpecies>
    <listOfParameters>
      <parameter metaid="dc937b59892604f5a86ac96936cd7ff09e25f18ae6b758e8014a24c7fa039e91" sboTerm="SBO:0000625" id="BRS_FBC_999999" value="999999" units="mmol_per_gDW_per_hr" constant="true"/>
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    </listOfParameters>
    <listOfReactions>
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        <listOfProducts>
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                  <brsynth:RR-02-bedda4e2f5001e0c-14-F/>
                </brsynth:rule_ids>
                <brsynth:tmpl_rxn_ids>
                  <brsynth:MNXR111250/>
                  <brsynth:MNXR111499/>
                  <brsynth:MNXR113543/>
                  <brsynth:MNXR118024/>
                  <brsynth:MNXR139549/>
                </brsynth:tmpl_rxn_ids>
                <brsynth:rule_score value="0.5518755963407151"/>
                <brsynth:idx_in_path value="2"/>
              </brsynth:brsynth>
            </rdf:BRSynth>
          </rdf:RDF>
        </annotation>
        <listOfReactants>
          <speciesReference species="CMPD_0000000003" stoichiometry="1" constant="true"/>
        </listOfReactants>
        <listOfProducts>
          <speciesReference species="CMPD_0000000001" stoichiometry="1" constant="true"/>
          <speciesReference species="MNXM11" stoichiometry="2" constant="true"/>
        </listOfProducts>
      </reaction>
      <reaction metaid="_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4" sboTerm="SBO:0000176" id="rxn_1" reversible="false" fast="false" fbc:lowerFluxBound="BRS_FBC_0" fbc:upperFluxBound="BRS_FBC_999999">
        <annotation>
          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
            <rdf:Description rdf:about="#_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4">
              <bqbiol:is>
                <rdf:Bag>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.92"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.85"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.84"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.31"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.81"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.88"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.-"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.29"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.68"/>
                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.10"/>
                </rdf:Bag>
              </bqbiol:is>
            </rdf:Description>
            <rdf:BRSynth rdf:about="#_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4">
              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
                <brsynth:smiles value="[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H].[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])([H])C(=C([H])[H])C([H])([H])[H]&gt;&gt;[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H].O=P(O)(O)OP(=O)(O)O"/>
                <brsynth:rp2_transfo_id value="TRS_0_2_742"/>
                <brsynth:rule_ids>
                  <brsynth:RR-02-07adee9ac9c42c7d-14-F/>
                  <brsynth:RR-02-1494429c7e6e0694-14-F/>
                  <brsynth:RR-02-1d50852f3f343682-14-F/>
                  <brsynth:RR-02-3bf131230c6b2bf2-14-F/>
                  <brsynth:RR-02-58d0f0d25e47b74a-14-F/>
                  <brsynth:RR-02-b3db29f084fc7a81-14-F/>
                  <brsynth:RR-02-f9759fe03c57b29f-14-F/>
                </brsynth:rule_ids>
                <brsynth:tmpl_rxn_ids>
                  <brsynth:MNXR100137/>
                  <brsynth:MNXR112247/>
                  <brsynth:MNXR116653/>
                  <brsynth:MNXR100621/>
                  <brsynth:MNXR99634/>
                  <brsynth:MNXR112069/>
                  <brsynth:MNXR99650/>
                  <brsynth:MNXR109677/>
                  <brsynth:MNXR113141/>
                  <brsynth:MNXR105052/>
                  <brsynth:MNXR109713/>
                  <brsynth:MNXR110950/>
                  <brsynth:MNXR110952/>
                  <brsynth:MNXR112246/>
                  <brsynth:MNXR112250/>
                  <brsynth:MNXR112251/>
                  <brsynth:MNXR112252/>
                  <brsynth:MNXR116656/>
                  <brsynth:MNXR117266/>
                  <brsynth:MNXR139515/>
                  <brsynth:MNXR139637/>
                  <brsynth:MNXR112249/>
                  <brsynth:MNXR116655/>
                  <brsynth:MNXR103150/>
                  <brsynth:MNXR112248/>
                  <brsynth:MNXR116654/>
                </brsynth:tmpl_rxn_ids>
                <brsynth:rule_score value="0.7358363677022237"/>
                <brsynth:idx_in_path value="1"/>
              </brsynth:brsynth>
            </rdf:BRSynth>
          </rdf:RDF>
        </annotation>
        <listOfReactants>
          <speciesReference species="MNXM34" stoichiometry="1" constant="true"/>
          <speciesReference species="MNXM83" stoichiometry="1" constant="true"/>
        </listOfReactants>
        <listOfProducts>
          <speciesReference species="CMPD_0000000003" stoichiometry="1" constant="true"/>
          <speciesReference species="MNXM11" stoichiometry="1" constant="true"/>
        </listOfProducts>
      </reaction>
    </listOfReactions>
    <groups:listOfGroups>
      <groups:group metaid="_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299" groups:id="rp_pathway" groups:kind="collection">
        <annotation>
          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
            <rdf:BRSynth rdf:about="#_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299">
              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
                <brsynth:global_score value="-1"/>
              </brsynth:brsynth>
            </rdf:BRSynth>
          </rdf:RDF>
        </annotation>
        <groups:listOfMembers>
          <groups:member groups:idRef="rxn_1"/>
          <groups:member groups:idRef="rxn_2"/>
          <groups:member groups:idRef="rxn_3"/>
        </groups:listOfMembers>
      </groups:group>
      <groups:group metaid="_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a" groups:id="rp_intermediate_species" groups:kind="collection">
        <annotation>
          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
            <rdf:BRSynth rdf:about="#_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a">
              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
            </rdf:BRSynth>
          </rdf:RDF>
        </annotation>
        <groups:listOfMembers>
          <groups:member groups:idRef="CMPD_0000000003"/>
          <groups:member groups:idRef="CMPD_0000000001"/>
        </groups:listOfMembers>
      </groups:group>
      <groups:group metaid="_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579" groups:id="rp_trunk_species" groups:kind="collection">
        <annotation>
          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
            <rdf:BRSynth rdf:about="#_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579">
              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
            </rdf:BRSynth>
          </rdf:RDF>
        </annotation>
        <groups:listOfMembers>
          <groups:member groups:idRef="TARGET_0000000001"/>
          <groups:member groups:idRef="CMPD_0000000001"/>
          <groups:member groups:idRef="MNXM83"/>
          <groups:member groups:idRef="CMPD_0000000003"/>
          <groups:member groups:idRef="MNXM34"/>
        </groups:listOfMembers>
      </groups:group>
      <groups:group metaid="_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378" groups:id="rp_completed_species" groups:kind="collection">
        <annotation>
          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
            <rdf:BRSynth rdf:about="#_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378">
              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
            </rdf:BRSynth>
          </rdf:RDF>
        </annotation>
        <groups:listOfMembers>
          <groups:member groups:idRef="MNXM11"/>
          <groups:member groups:idRef="MNXM8975"/>
          <groups:member groups:idRef="MNXM24"/>
        </groups:listOfMembers>
      </groups:group>
      <groups:group metaid="_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3" groups:id="rp_sink_species" groups:kind="collection">
        <annotation>
          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
            <rdf:BRSynth rdf:about="#_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3">
              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
            </rdf:BRSynth>
          </rdf:RDF>
        </annotation>
        <groups:listOfMembers>
          <groups:member groups:idRef="MNXM11"/>
          <groups:member groups:idRef="MNXM83"/>
          <groups:member groups:idRef="MNXM34"/>
        </groups:listOfMembers>
      </groups:group>
    </groups:listOfGroups>
  </model>
</sbml>