• Resource: panther/Hedgehog_signaling_pathway.owl; different types of problem: 12
    • number of genes : 0  number of interactions : 35  number of pathways : 1  number of physical entities : 84 
    • auto-fix: true; normalize:
    • errors/warnings: 195 - not fixed: 184;  errors not fixed: 10
    • Modified BioPAX  ("escaped" RDF in HTML; choose BioPAX or XML as return if you plan to process it)
    • ERROR: cardinality.violated , category: SPECIFICATION,  cases: 8,  not fixed: 8
      Cardinality violation
      • object: DISSOCIATION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: HETERODIMER_ASSOCIATION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: INHIBITION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: KNOWN_TRANSITION_OMITTED
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: PHYSICAL_STIMULATION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: STATE_TRANSITION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: TRANSCRIPTION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: TRANSPORT
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)

    • ERROR: no.xrefs , category: RECOMMENDATION,  cases: 2,  not fixed: 2
      EntityReference does not have any xrefs
      • object: _Costal2_PROTEIN
        (found by: org.biopax.validator.rules.EntityReferenceXrefRule)
      • object: _Sap18_PROTEIN
        (found by: org.biopax.validator.rules.EntityReferenceXrefRule)

    • WARNING: cardinality.violated , category: SPECIFICATION,  cases: 79,  not fixed: 79
      Cardinality violation
      • object: _Costal2_PROTEIN
        property: organism requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ProteinReferenceOrganismRule)
      • object: _Costal2_s12_sa8_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Costal2_s15_sa11_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Costal2_s33_sa14_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Costal2_s43_sa23_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Costal2_s6_sa5_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s130_a202_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s130_a202_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s130_a202_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s130_a202_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s163_sa32_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s163_sa32_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s163_sa32_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s163_sa32_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s19_sa26_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s19_sa26_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s19_sa26_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s19_sa26_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s23_sa30_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s23_sa30_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s23_sa30_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s23_sa30_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s25_sa33_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s25_sa33_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s25_sa33_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s25_sa33_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s32_sa38_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s32_sa38_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s32_sa38_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s32_sa38_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s36_sa17_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s36_sa17_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s36_sa17_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s36_sa17_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s42_sa22_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s42_sa22_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s42_sa22_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s42_sa22_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s47_sa47_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s47_sa47_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s47_sa47_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s47_sa47_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a223_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a223_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a223_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a223_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a46_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a46_rs2_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a46_rs3_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Cubitus_interruptus_s70_a46_rs4_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Fused_s14_sa10_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Fused_s16_sa12_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Fused_s34_sa15_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Fused_s41_sa21_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Fused_s8_sa6_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Receiving_cell_c1_
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: _Sap18_PROTEIN
        property: organism requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ProteinReferenceOrganismRule)
      • object: _Smoothened_s11_sa7_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Smoothened_s13_sa9_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Smoothened_s17_sa13_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Smoothened_s37_sa18_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: _Smoothened_s44_sa24_rs1_
        property: featureLocation requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=DISSOCIATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=HETERODIMER_ASSOCIATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=KNOWN_TRANSITION_OMITTED
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=STATE_TRANSITION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRANSCRIPTION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRANSPORT
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=DISSOCIATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=HETERODIMER_ASSOCIATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=INHIBITION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=KNOWN_TRANSITION_OMITTED
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=PHYSICAL_STIMULATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=STATE_TRANSITION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRANSCRIPTION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRANSPORT
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: MODIFICATION_FEATURE_phosphorylated
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: MODIFICATION_FEATURE_ubiquitinated
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: PANTHER_GROUPING_9
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)

    • WARNING: illegal.conversion , category: INFORMATION,  cases: 2,  not fixed: 2
      A bio-polymer (i.e., not a complex or small molecule) is either missing or "becomes" another type on the other side of the same Conversion interaction (except for Degradation and ComplexAssembly)
      • object: _Debra_s107_a161_
        conversion: STATE_TRANSITION_LEFT__Debra-RIGHT__Debra-_re25
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _Debra_s107_sa87_
        conversion: STATE_TRANSITION_LEFT__Debra-RIGHT__Debra-_re25
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)

    • WARNING: illegal.cv.term , category: SPECIFICATION,  cases: 14,  not fixed: 14
      Term is not found in the recommended controlled vocabulary (- wrong name/spelling or the identifier/accession is used instead of the term)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=DISSOCIATION
        Illegal term(s): [DISSOCIATION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=HETERODIMER_ASSOCIATION
        Illegal term(s): [HETERODIMER_ASSOCIATION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=KNOWN_TRANSITION_OMITTED
        Illegal term(s): [KNOWN_TRANSITION_OMITTED]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=STATE_TRANSITION
        Illegal term(s): [STATE_TRANSITION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRANSCRIPTION
        Illegal term(s): [TRANSCRIPTION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRANSPORT
        Illegal term(s): [TRANSPORT]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=DISSOCIATION
        Illegal term(s): [DISSOCIATION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=HETERODIMER_ASSOCIATION
        Illegal term(s): [HETERODIMER_ASSOCIATION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=INHIBITION
        Illegal term(s): [INHIBITION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=KNOWN_TRANSITION_OMITTED
        Illegal term(s): [KNOWN_TRANSITION_OMITTED]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=PHYSICAL_STIMULATION
        Illegal term(s): [PHYSICAL_STIMULATION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=STATE_TRANSITION
        Illegal term(s): [STATE_TRANSITION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRANSCRIPTION
        Illegal term(s): [TRANSCRIPTION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRANSPORT
        Illegal term(s): [TRANSPORT]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)

    • WARNING: min.cardinality.violated , category: SPECIFICATION,  cases: 7,  not fixed: 7
      Minimal cardinality violation
      • object: _Casein_space_kinase_I_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Cubitus_space_interruptus_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _PKA_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Receiving_cell_c1_
        property: term requires at least 1 value(s).
        (found by: org.biopax.validator.rules.ControlledVocabularyTermCRRule)
      • object: _Slimb_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: MODIFICATION_FEATURE_phosphorylated
        property: term requires at least 1 value(s).
        (found by: org.biopax.validator.rules.ControlledVocabularyTermCRRule)
      • object: MODIFICATION_FEATURE_ubiquitinated
        property: term requires at least 1 value(s).
        (found by: org.biopax.validator.rules.ControlledVocabularyTermCRRule)

    • WARNING: multiple.location , category: INFORMATION,  cases: 8,  not fixed: 8
      Participants span multiple cellular locations. This may be an error e.g. if the cellular locations do not connect to each other. Check that this information makes sense
      • object: DISSOCIATION_LEFT__Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule_-RIGHT__Complex__Su_fu__Fused__Cubitus_interruptus_Costal2__Smoothened_-_Microtubule-_r23
        participants: _Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule__s84_a115_, _Microtubule_s68_a94_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: DISSOCIATION_LEFT__Complex__Su_fu__Fused__Cubitus_interruptus_Costal2__Smoothened_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_Complex__Costal2_Fused__Smoothened_-_r25
        participants: _Complex__Su_fu__Cubitus_interruptus__s89_a124_, _Complex__Costal2_Fused__Smoothened__s69_a95_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Patched-_Hedgehog-RIGHT__Complex__Patched_Hedgehog_-_r7
        participants: _Complex__Patched_Hedgehog__s21_a30_, _Hedgehog_s7_a26_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: KNOWN_TRANSITION_OMITTED_LEFT__Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_r48
        participants: _Complex__Su_fu__Cubitus_interruptus__s89_a124_, _Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule__s84_a115_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: r10
        participants: _Complex__Patched_Hedgehog__s22_a31_, _a31_degraded_s27_a36_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: r44
        participants: _a202_degraded_s131_a203_, _Cubitus_interruptus_s130_a202_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRANSPORT_LEFT__Complex__Su_fu__Cubitus_interruptus_-RIGHT__Cubitus_interruptus-_r26
        participants: _Complex__Su_fu__Cubitus_interruptus__s89_a124_, _Cubitus_interruptus_s70_a46_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRANSPORT_LEFT__Complex__Su_fu__Cubitus_interruptus_-RIGHT__Cubitus_interruptus-_r56
        participants: _Complex__Su_fu__Cubitus_interruptus__s89_a124_, _Cubitus_interruptus_s130_a202_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)

    • WARNING: no.display.name , category: RECOMMENDATION,  cases: 10,  all fixed!
      No display name is specified. It is useful to have one for the visualization purposes
      • [FIXED!]  object: http://identifiers.org/uniprot/P08151
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P10644
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P13861
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P31321
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P31323
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P48729
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P49674
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q8N752
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q9UKB1
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q9Y297
        (found by: org.biopax.validator.rules.DisplayNameRule)

    • WARNING: no.xref.cv.terms , category: RECOMMENDATION,  cases: 1,  all fixed!
      Controlled vocabulary(-ies) without unification xrefs for some of the (valid) terms
      • [FIXED!]  object: PANTHER_GROUPING_9
        terms: {By Homology=[OntologyTermImpl{acc='MI:2163', name='by homology'}]}; MI:2163 added!; info: [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)

    • WARNING: no.xrefs , category: RECOMMENDATION,  cases: 4,  not fixed: 4
      EntityReference does not have any xrefs
      • object: _Casein_space_kinase_I_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Cubitus_space_interruptus_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _PKA_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Slimb_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)

    • WARNING: null.entity.reference , category: RECOMMENDATION,  cases: 8,  not fixed: 8
      A Protein, SmallMolecule, etc. (but not a complex) has neither 'entityReference' (highly recommended) nor 'memberPhysicalEntity' values set
      • object: _Debra_s107_a161_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)
      • object: _Debra_s107_sa87_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)
      • object: _Hedgehog_target_gene_s145_sa86_
        entityReference (range: RnaRegionReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.RnaRegionEntityReferenceRule)
      • object: _Hedgehog_target_gene_s75_a102_
        entityReference (range: DnaRegionReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.DnaRegionEntityReferenceRule)
      • object: _MIcrotubule_s38_sa19_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)
      • object: _Microtubule_s68_a94_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)
      • object: _Proteasome_s106_a160_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)
      • object: _Ubiquitin_s119_a184_
        entityReference (range: SmallMoleculeReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.SmallMoleculeEntityReferenceRule)

    • WARNING: too.long.display.name , category: RECOMMENDATION,  cases: 52,  not fixed: 52
      'displayName' exceeds the recommended maximum. These names should be kept short so they can easily be displayed, e.g., in a pathway diagram
      • object: _Complex__CBP_Cubitus_interruptus__s143_a227_
        Complex (CBP/Cubitus interruptus), length=33 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Costal2_Fused__Smoothened__s46_a55_
        Complex (Costal2/Fused/ Smoothened), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Costal2_Fused__Smoothened__s69_a95_
        Complex (Costal2/Fused/ Smoothened), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule__s84_a115_
        Complex (Costal2/Fused/ Su(fu)/Cubitus interruptus/ Smoothened/MIcrotubule), length=75 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Costal2_Smoothened__Fused__s48_a57_
        Complex (Costal2/Smoothened/ Fused), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Cubitus_interruptus_repressor_Su_fu___s127_a199_
        Complex (Cubitus interruptus repressor/Su(fu)), length=46 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Cubitus_interruptus_repressor_Su_fu___s128_a200_
        Complex (Cubitus interruptus repressor/Su(fu)), length=46 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Cubitus_interruptus_Su_fu___Slimb__s113_a175_
        Complex (Cubitus interruptus/Su(fu)/ Slimb), length=43 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Patched_Hedgehog__s21_a30_
        Complex (Patched/Hedgehog), length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Patched_Hedgehog__s22_a31_
        Complex (Patched/Hedgehog), length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Sap18_Su_fu___Cubitus_interruptus_repressor__s140_a222_
        Complex (Sap18/Su(fu)/ Cubitus interruptus repressor), length=53 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Su_fu__Cubitus_interruptus__s102_a150_
        Complex (Su(fu)/Cubitus interruptus), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Su_fu__Cubitus_interruptus__s103_a151_
        Complex (Su(fu)/Cubitus interruptus), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Su_fu__Cubitus_interruptus__s89_a124_
        Complex (Su(fu)/Cubitus interruptus), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Su_fu__Fused__Cubitus_interruptus_Costal2__Smoothened__s88_a123_
        Complex (Su(fu)/Fused/ Cubitus interruptus/Costal2/ Smoothened), length=63 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Su_fu__Slimb__Cubitus_interruptus__s118_a183_
        Complex (Su(fu)/Slimb/ Cubitus interruptus), length=43 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Cubitus_interruptus_repressor_s149_sa39_
        Cubitus interruptus repressor, length=29 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Cubitus_interruptus_repressor_s150_sa41_
        Cubitus interruptus repressor, length=29 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Cubitus_interruptus_repressor_s151_sa45_
        Cubitus interruptus repressor, length=29 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: DISSOCIATION_LEFT__Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule_-RIGHT__Complex__Su_fu__Fused__Cubitus_interruptus_Costal2__Smoothened_-_Microtubule-_r23
        DISSOCIATION_LEFT__Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule_-RIGHT__Complex__Su_fu__Fused__Cubitus_interruptus_Costal2__Smoothened_-_Microtubule-_r23, length=183 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: DISSOCIATION_LEFT__Complex__Su_fu__Fused__Cubitus_interruptus_Costal2__Smoothened_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_Complex__Costal2_Fused__Smoothened_-_r25
        DISSOCIATION_LEFT__Complex__Su_fu__Fused__Cubitus_interruptus_Costal2__Smoothened_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_Complex__Costal2_Fused__Smoothened_-_r25, length=168 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Complex__Cubitus_interruptus_repressor_Su_fu__-_Sap18-RIGHT__Complex__Sap18_Su_fu___Cubitus_interruptus_repressor_-_r51
        HETERODIMER_ASSOCIATION_LEFT__Complex__Cubitus_interruptus_repressor_Su_fu__-_Sap18-RIGHT__Complex__Sap18_Su_fu___Cubitus_interruptus_repressor_-_r51, length=149 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Cubitus_interruptus-_CBP-RIGHT__Complex__CBP_Cubitus_interruptus_-_r54
        HETERODIMER_ASSOCIATION_LEFT__Cubitus_interruptus-_CBP-RIGHT__Complex__CBP_Cubitus_interruptus_-_r54, length=100 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Patched-_Hedgehog-RIGHT__Complex__Patched_Hedgehog_-_r7
        HETERODIMER_ASSOCIATION_LEFT__Patched-_Hedgehog-RIGHT__Complex__Patched_Hedgehog_-_r7, length=85 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Slimb-_Complex__Su_fu__Cubitus_interruptus_-RIGHT__Complex__Cubitus_interruptus_Su_fu___Slimb_-_r38
        HETERODIMER_ASSOCIATION_LEFT__Slimb-_Complex__Su_fu__Cubitus_interruptus_-RIGHT__Complex__Cubitus_interruptus_Su_fu___Slimb_-_r38, length=129 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/panther.pathway/P00025
        Hedgehog signaling pathway, length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P10071
        Cubitus interruptus repressor, length=29 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P10644
        cAMP-dependent protein kinase type I-alpha regulatory subunit(auto-created form other names!), length=61 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P13861
        cAMP-dependent protein kinase type II-alpha regulatory subunit(auto-created form other names!), length=62 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P31321
        cAMP-dependent protein kinase type I-beta regulatory subunit(auto-created form other names!), length=60 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P31323
        cAMP-dependent protein kinase type II-beta regulatory subunit(auto-created form other names!), length=61 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P48729
        Casein kinase I isoform alpha(auto-created form other names!), length=29 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P49674
        Casein kinase I isoform epsilon(auto-created form other names!), length=31 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q8N752
        Casein kinase I isoform alpha-like(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q9UKB1
        F-box/WD repeat-containing protein 11(auto-created form other names!), length=37 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q9Y297
        F-box/WD repeat-containing protein 1A(auto-created form other names!), length=37 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: KNOWN_TRANSITION_OMITTED_LEFT__Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_r48
        KNOWN_TRANSITION_OMITTED_LEFT__Complex__Costal2_Fused__Su_fu__Cubitus_interruptus__Smoothened_MIcrotubule_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_r48, length=155 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: r10
        STATE_TRANSITION_LEFT__Complex__Patched_Hedgehog_-RIGHT__a31_degraded-_r10, length=74 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: r44
        STATE_TRANSITION_LEFT__Cubitus_interruptus-RIGHT__a202_degraded-_r44, length=68 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__ATP-_Complex__Costal2_Fused__Smoothened_-RIGHT__ADP-_Complex__Costal2_Smoothened__Fused_-_r15
        STATE_TRANSITION_LEFT__ATP-_Complex__Costal2_Fused__Smoothened_-RIGHT__ADP-_Complex__Costal2_Smoothened__Fused_-_r15, length=116 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__ATP-_Complex__Su_fu__Cubitus_interruptus_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_ADP-_r30
        STATE_TRANSITION_LEFT__ATP-_Complex__Su_fu__Cubitus_interruptus_-RIGHT__Complex__Su_fu__Cubitus_interruptus_-_ADP-_r30, length=118 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__Complex__Cubitus_interruptus_Su_fu___Slimb_-_Ubiquitin-RIGHT__Complex__Su_fu__Slimb__Cubitus_interruptus_-_r40
        STATE_TRANSITION_LEFT__Complex__Cubitus_interruptus_Su_fu___Slimb_-_Ubiquitin-RIGHT__Complex__Su_fu__Slimb__Cubitus_interruptus_-_r40, length=133 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__Complex__Su_fu__Cubitus_interruptus_-_ATP-RIGHT__ADP-_Complex__Su_fu__Cubitus_interruptus_-_r29
        STATE_TRANSITION_LEFT__Complex__Su_fu__Cubitus_interruptus_-_ATP-RIGHT__ADP-_Complex__Su_fu__Cubitus_interruptus_-_r29, length=118 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__Complex__Su_fu__Slimb__Cubitus_interruptus_-RIGHT__Complex__Cubitus_interruptus_repressor_Su_fu__-_r41
        STATE_TRANSITION_LEFT__Complex__Su_fu__Slimb__Cubitus_interruptus_-RIGHT__Complex__Cubitus_interruptus_repressor_Su_fu__-_r41, length=125 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__Cubitus_interruptus-RIGHT__Cubitus_interruptus-_r53
        STATE_TRANSITION_LEFT__Cubitus_interruptus-RIGHT__Cubitus_interruptus-_r53, length=74 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__Debra-RIGHT__Debra-_re25
        STATE_TRANSITION_LEFT__Debra-RIGHT__Debra-_re25, length=47 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSCRIPTION_LEFT__Hedgehog_target_gene-RIGHT__Hedgehog_target_gene-_re24
        TRANSCRIPTION_LEFT__Hedgehog_target_gene-RIGHT__Hedgehog_target_gene-_re24, length=74 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__Costal2_Fused__Smoothened_-RIGHT__Complex__Costal2_Fused__Smoothened_-_r14
        TRANSPORT_LEFT__Complex__Costal2_Fused__Smoothened_-RIGHT__Complex__Costal2_Fused__Smoothened_-_r14, length=99 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__Cubitus_interruptus_repressor_Su_fu__-RIGHT__Complex__Cubitus_interruptus_repressor_Su_fu__-_r42
        TRANSPORT_LEFT__Complex__Cubitus_interruptus_repressor_Su_fu__-RIGHT__Complex__Cubitus_interruptus_repressor_Su_fu__-_r42, length=121 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__Patched_Hedgehog_-RIGHT__Complex__Patched_Hedgehog_-_r8
        TRANSPORT_LEFT__Complex__Patched_Hedgehog_-RIGHT__Complex__Patched_Hedgehog_-_r8, length=80 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__Su_fu__Cubitus_interruptus_-RIGHT__Cubitus_interruptus-_r26
        TRANSPORT_LEFT__Complex__Su_fu__Cubitus_interruptus_-RIGHT__Cubitus_interruptus-_r26, length=84 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__Su_fu__Cubitus_interruptus_-RIGHT__Cubitus_interruptus-_r56
        TRANSPORT_LEFT__Complex__Su_fu__Cubitus_interruptus_-RIGHT__Cubitus_interruptus-_r56, length=84 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)