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stable/tutorials/HOLDER_TEMPLATE.html | 16 ++++++---- stable/tutorials/TEST3.html | 32 ++++++++++--------- .../createMeIntrcNetworkTutorial.html | 15 +++++---- stable/tutorials/index.html | 2 +- stable/tutorials/practica_COBRA_primer.html | 18 ++++++----- stable/tutorials/practica_FBA.html | 18 ++++++----- .../practica_alternateOptimalSolutions.html | 16 ++++++---- .../practica_sensitivityAnalysis.html | 18 ++++++----- ...rialAdditionalConstraintsAndVariables.html | 16 ++++++---- .../tutorialAlternateOptimalSolutions.html | 16 ++++++---- .../tutorialAnalyseCombinedModel.html | 16 ++++++---- .../tutorialAnalyseComponentContribution.html | 16 ++++++---- .../tutorialAnalyseConservedMoieties.html | 16 ++++++---- ...torialAtomicallyResolveReconstruction.html | 16 ++++++---- stable/tutorials/tutorialBrowseNetwork.html | 16 ++++++---- ...tutorialBuildAtomTransitionMultigraph.html | 16 ++++++---- .../tutorialCOBRA_Toolbox_intro.html | 16 ++++++---- stable/tutorials/tutorialCOBRA_primer.html | 16 ++++++---- stable/tutorials/tutorialCOBRA_primer_2.html | 16 ++++++---- stable/tutorials/tutorialCOBRAconcepts.html | 16 ++++++---- stable/tutorials/tutorialCellDesigner.html | 16 ++++++---- .../tutorials/tutorialConstrainingModels.html | 16 ++++++---- stable/tutorials/tutorialContribute.html | 16 ++++++---- .../tutorialCreateSubnetworkRecon.html | 16 ++++++---- stable/tutorials/tutorialDemeter.html | 16 ++++++---- .../tutorialEcoliCoreModel_part1.html | 16 ++++++---- .../tutorialEcoliCoreModel_part2.html | 16 ++++++---- .../tutorialEcoliCoreModel_part3.html | 16 ++++++---- stable/tutorials/tutorialEfmviz_ecoli.html | 16 ++++++---- stable/tutorials/tutorialEfmviz_recon.html | 16 ++++++---- stable/tutorials/tutorialEngaging.html | 16 ++++++---- .../tutorialEssentialRxns4MultipleModels.html | 16 ++++++---- .../tutorialExtractionTranscriptomic.html | 16 ++++++---- stable/tutorials/tutorialFBA.html | 16 ++++++---- stable/tutorials/tutorialFBA_variants.html | 16 ++++++---- stable/tutorials/tutorialFVA.html | 16 ++++++---- stable/tutorials/tutorialFastGapFill.html | 16 ++++++---- stable/tutorials/tutorialFidelityTesting.html | 16 ++++++---- stable/tutorials/tutorialGMCS.html | 16 ++++++---- stable/tutorials/tutorialGeneKO.html | 16 ++++++---- .../tutorialHostMicrobeInteractions.html | 16 ++++++---- stable/tutorials/tutorialIO.html | 16 ++++++---- .../tutorialIdentifyConservedMoieties.html | 16 ++++++---- .../tutorialInitConservedMoietyPaths.html | 16 ++++++---- stable/tutorials/tutorialInitialize.html | 16 ++++++---- .../tutorialInitializeAndVerify.html | 16 ++++++---- stable/tutorials/tutorialLeakSiphonModes.html | 16 ++++++---- stable/tutorials/tutorialMATLAB_intro.html | 16 ++++++---- .../tutorialMetabolicCartography_part1.html | 16 ++++++---- .../tutorialMetabolicCartography_part2.html | 16 ++++++---- .../tutorialMetabolicCartogrphy_part3.html | 16 ++++++---- stable/tutorials/tutorialMetabotoolsI.html | 16 ++++++---- stable/tutorials/tutorialMetabotoolsII.html | 16 ++++++---- stable/tutorials/tutorialMgPipe.html | 16 ++++++---- .../tutorialMicrobeMicrobeInteractions.html | 16 ++++++---- stable/tutorials/tutorialMinSpan.html | 16 ++++++---- stable/tutorials/tutorialModelATPYield.html | 16 ++++++---- stable/tutorials/tutorialModelBorgifier.html | 16 ++++++---- stable/tutorials/tutorialModelCreation.html | 16 ++++++---- .../tutorials/tutorialModelManipulation.html | 16 ++++++---- stable/tutorials/tutorialModelProperties.html | 16 ++++++---- .../tutorials/tutorialModelSanityChecks.html | 16 ++++++---- stable/tutorials/tutorialNumCharact.html | 16 ++++++---- stable/tutorials/tutorialOptForce.html | 16 ++++++---- stable/tutorials/tutorialOptForceGAMS.html | 16 ++++++---- stable/tutorials/tutorialOptGene.html | 16 ++++++---- stable/tutorials/tutorialOptKnock.html | 16 ++++++---- stable/tutorials/tutorialPFBA.html | 16 ++++++---- stable/tutorials/tutorialPaint4net.html | 16 ++++++---- .../tutorials/tutorialQuadPrecisionFBA.html | 16 ++++++---- stable/tutorials/tutorialRBioNet.html | 16 ++++++---- stable/tutorials/tutorialRMTA.html | 16 ++++++---- stable/tutorials/tutorialReconToFBAmodel.html | 16 ++++++---- .../tutorials/tutorialReconToFBAmodel2.html | 16 ++++++---- .../tutorialReconToFBAmodel_old.html | 16 ++++++---- .../tutorials/tutorialReconstructionSOP.html | 16 ++++++---- stable/tutorials/tutorialRelaxedFBA.html | 16 ++++++---- .../tutorials/tutorialRelaxedFBABounds.html | 16 ++++++---- .../tutorialRemoteVisualisation.html | 16 ++++++---- stable/tutorials/tutorialRobustnessPhPP.html | 16 ++++++---- stable/tutorials/tutorialSammi.html | 16 ++++++---- .../tutorialSensitivityAnalysis.html | 16 ++++++---- .../tutorialSimulateAGORAGrowthInDiets.html | 16 ++++++---- stable/tutorials/tutorialSparseFBA.html | 16 ++++++---- .../tutorialSparseFBA_freeATPtest.html | 16 ++++++---- .../tutorialSparseFBA_protonShuttle.html | 16 ++++++---- stable/tutorials/tutorialSparseLP.html | 16 ++++++---- stable/tutorials/tutorialSteadyCom.html | 16 ++++++---- stable/tutorials/tutorialTemplate.html | 18 ++++++----- stable/tutorials/tutorialUFBA.html | 16 ++++++---- stable/tutorials/tutorialUniformSampling.html | 18 +++++------ .../tutorialUniformSampling_Ecore.html | 16 ++++++---- .../tutorialUniformSampling_genomeScale.html | 16 ++++++---- .../tutorialVariationalKinetics.html | 16 ++++++---- stable/tutorials/tutorialVerify.html | 16 ++++++---- .../tutorialVisualiseConservedMoieties.html | 16 ++++++---- stable/tutorials/tutorialVonBertalanffy.html | 16 ++++++---- ...torialVonBertalanffy_Recon3DModel_301.html | 16 ++++++---- .../tutorialVonBertalanffy_iAF1260.html | 16 ++++++---- stable/tutorials/tutorialtutorial_pFBA4.html | 16 ++++++---- .../tutorialtutorial_pFBA4_test2.html | 16 ++++++---- .../tutorialtutorial_reconToFBAmodel.html | 16 ++++++---- .../tutorialtutorial_steadyCom2.html | 16 ++++++---- 103 files changed, 930 insertions(+), 729 deletions(-) diff --git a/stable/tutorials/HOLDER_TEMPLATE.html b/stable/tutorials/HOLDER_TEMPLATE.html index ab4bb2b193..7fd1824850 100644 --- a/stable/tutorials/HOLDER_TEMPLATE.html +++ b/stable/tutorials/HOLDER_TEMPLATE.html @@ -122,7 +122,7 @@

The COBRA Toolbox

template: { type: "custom", method: function(value, item) { - return "" + value + "" + ""; + return "" + value + "" + ""; } }, @@ -157,6 +157,8 @@

The COBRA Toolbox

  • Funding
  • Development Plan
  • Contact
    • +
  • Citations
    • +
  • Citations
    • @@ -195,36 +197,36 @@

    The COBRA Toolbox

    • - - PDF file + + PDF file
      Download PDF
      •     
    • - live Script + live Script
      Download live Script
      •     
    • - m file + m file
      Download m file
      •     
    • - GitHub + GitHub
      View on GitHub
      •     
    • - tutorials + tutorials
      Tutorials
      • diff --git a/stable/tutorials/TEST3.html b/stable/tutorials/TEST3.html index 946a8828e1..31384e7b0d 100644 --- a/stable/tutorials/TEST3.html +++ b/stable/tutorials/TEST3.html @@ -80,7 +80,7 @@

      The COBRA Toolbox

      template: { type: "custom", method: function(value, item) { - return "" + value + "" + ""; + return "" + value + "" + ""; } }, @@ -126,6 +126,8 @@

      The COBRA Toolbox

    • Funding
    • Development Plan
    • Contact
      • +
    • Citations
      • +
    • Citations
    @@ -153,7 +155,7 @@

    The COBRA Toolbox

    Analysis

    - +

    Analysis

      QWERTYtutorialAtomicallyResolveReconstruction.html @@ -206,7 +208,7 @@

      Analysis

      Base

      - +

      Base

        QWERTYtutorialContribute.html @@ -227,7 +229,7 @@

        Base

        Data integration

        - +

        Data integration

          QWERTYtutorialExtractionTranscriptomic.html @@ -241,7 +243,7 @@

          Data integration

          Design

          - +

          Design

            QWERTYtutorialOptForceGAMS.html @@ -255,7 +257,7 @@

            Design

            Reconstruction

            - +

            Reconstruction

              QWERTYtutorialCOBRAconcepts.html @@ -288,7 +290,7 @@

              Reconstruction - +

                QWERTYtutorialTemplate.html @@ -299,7 +301,7 @@

                Reconstruction

                Visualization

                - +

                Visualization

                  QWERTYtutorialCellDesigner.html @@ -414,7 +416,7 @@

                  Other

                  Analysis

                  - +

                  Analysis

                    QWERTYtutorialAtomicallyResolveReconstruction.html @@ -467,7 +469,7 @@

                    Analysis

                    Base

                    - +

                    Base

                      QWERTYtutorialContribute.html @@ -488,7 +490,7 @@

                      Base¶<

                      Data integration

                      - +

                      Data integration

                        QWERTYtutorialExtractionTranscriptomic.html @@ -502,7 +504,7 @@

                        Data integration

                        Design

                        - +

                        Design

                          QWERTYtutorialOptForceGAMS.html @@ -516,7 +518,7 @@

                          Design

                          Reconstruction

                          - +

                          Reconstruction

                            QWERTYtutorialCOBRAconcepts.html @@ -549,7 +551,7 @@

                            Reconstruction - +

                              QWERTYtutorialTemplate.html @@ -560,7 +562,7 @@

                              Reconstruction

                              Visualization

                              - +

                              Visualization

                                QWERTYtutorialCellDesigner.html diff --git a/stable/tutorials/createMeIntrcNetworkTutorial.html b/stable/tutorials/createMeIntrcNetworkTutorial.html index ab00a5dfdb..f2f2237bda 100644 --- a/stable/tutorials/createMeIntrcNetworkTutorial.html +++ b/stable/tutorials/createMeIntrcNetworkTutorial.html @@ -78,7 +78,7 @@

                                The COBRA Toolbox

                                template: { type: "custom", method: function(value, item) { - return "" + value + "" + ""; + return "" + value + "" + ""; } }, @@ -109,6 +109,7 @@

                                The COBRA Toolbox

                              • Funding
                              • Development Plan
                              • Contact
                                • +
                              • Citations
                              @@ -136,36 +137,36 @@

                              The COBRA Toolbox

                              • - -PDF file + +PDF file
                                Download PDF
                                •     
                              • -live Script +live Script
                                Download live Script
                                •     
                              • -m file +m file
                                Download m file
                                •     
                              • -GitHub +GitHub
                                View on GitHub
                                •     
                              • -tutorials +tutorials
                                Tutorials
                                • diff --git a/stable/tutorials/index.html b/stable/tutorials/index.html index fe24f362bf..e0d77a31e2 100644 --- a/stable/tutorials/index.html +++ b/stable/tutorials/index.html @@ -86,7 +86,7 @@

                                template: { type: "custom", method: function(value, item) { - return "" + value + "" + ""; + return "" + value + "" + ""; } }, diff --git a/stable/tutorials/practica_COBRA_primer.html b/stable/tutorials/practica_COBRA_primer.html index 2b178b1133..073b8f127d 100644 --- a/stable/tutorials/practica_COBRA_primer.html +++ b/stable/tutorials/practica_COBRA_primer.html @@ -78,7 +78,7 @@

                                The COBRA Toolbox

                                template: { type: "custom", method: function(value, item) { - return "" + value + "" + ""; + return "" + value + "" + ""; } }, @@ -109,6 +109,8 @@

                                The COBRA Toolbox

                              • Funding
                              • Development Plan
                              • Contact
                                • +
                              • Citations
                                • +
                              • Citations
                            @@ -136,36 +138,36 @@

                            The COBRA Toolbox

                            • - -PDF file + +PDF file
                              Download PDF
                              •     
                            • -live Script +live Script
                              Download live Script
                              •     
                            • -m file +m file
                              Download m file
                              •     
                            • -GitHub +GitHub
                              View on GitHub
                              •     
                            • -tutorials +tutorials
                              Tutorials
                              • @@ -175,7 +177,7 @@

                              The COBRA Toolbox

                              h1 {font-size:0px}
                              - +