From 9ffa7c3e23b86fc2b7db4536545e53e46ac6d56d Mon Sep 17 00:00:00 2001 From: RichardBruskiewich Date: Mon, 4 Sep 2023 19:10:00 +0000 Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20NCATSTra?= =?UTF-8?q?nslator/reasoner-validator@45f58a5db7c60789089ab2be0b0c0aeba281?= =?UTF-8?q?8e3f=20=F0=9F=9A=80?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- _sources/validation_codes_dictionary.md.txt | 28 ++++++++++- genindex.html | 16 +++++- objects.inv | Bin 1741 -> 1778 bytes reasoner_validator.biolink.html | 52 +++++++++++++++++--- reasoner_validator.html | 22 +++++++-- reasoner_validator.report.html | 6 +++ searchindex.js | 2 +- validation_codes_dictionary.html | 28 ++++++++++- 8 files changed, 136 insertions(+), 18 deletions(-) diff --git a/_sources/validation_codes_dictionary.md.txt b/_sources/validation_codes_dictionary.md.txt index a0f98fd..325d7aa 100644 --- a/_sources/validation_codes_dictionary.md.txt +++ b/_sources/validation_codes_dictionary.md.txt @@ -172,6 +172,18 @@ **Description:** Predicate specified in Input Edge is not defined as a predicate in specified version of Biolink. Replace with a proper predicate! +### error.query_graph.nodes.uninformative + +**Message:** Missing informative node information + +**Description:** Query graph must have at least one node with identifiers and/or categories available for query! + +### error.query_graph.nodes.dangling + +**Message:** Dangling nodes + +**Description:** At least one query node is unused in the query graph! + ### error.query_graph.node.category.missing **Message:** Category is missing from node @@ -350,13 +362,25 @@ ### error.knowledge_graph.nodes.empty -**Message:** No nodes found! +**Message:** No nodes found **Description:** Knowledge graph in TRAPI messages must have a 'nodes' key and non-empty associated value! +### error.knowledge_graph.nodes.uninformative + +**Message:** Missing informative node information! + +**Description:** All nodes in a knowledge graph must have categories! + +### error.knowledge_graph.nodes.dangling + +**Message:** Dangling nodes + +**Description:** At least one query node is unused in the knowledge graph! + ### error.knowledge_graph.edges.empty -**Message:** No edges found! +**Message:** No edges found **Description:** Knowledge graph in TRAPI messages must have a 'edges' key and non-empty associated value! diff --git a/genindex.html b/genindex.html index b6a8a62..18bc3ea 100644 --- a/genindex.html +++ b/genindex.html @@ -144,10 +144,10 @@

C

  • check_biolink_model_compliance() (reasoner_validator.biolink.BiolinkValidator method)
    • - - + @@ -273,6 +275,8 @@

    H

    • has_valid_knowledge_graph() (reasoner_validator.validator.TRAPIResponseValidator method) +
      • +
    • has_valid_node_information() (reasoner_validator.biolink.BiolinkValidator method)
    • has_valid_query_graph() (reasoner_validator.validator.TRAPIResponseValidator method)
      • @@ -321,6 +327,10 @@

      K

      L

      + diff --git a/objects.inv b/objects.inv index d01741a1c296ee00c5419b9fe6af4bf1a0a41ad3..ef40b679e1e7173b1596a33878ade23679144418 100644 GIT binary patch delta 1646 zcmV-!29f#A4e||;mw&Bam1L(mVIXoPAtnI^03EBpzIc!#rPv}Q67VHbsO5fmEEbDh zm;)A!0!Pm{BPo`QkCudGgg!;Z_G8Y{GK1)kh`%W|+Q>Zn%?e)r9$j7>5&d+t_{won z0N2Ws3=0u`=+y13bhHMEs>kRVxFC$0UVz-Nba+xOJ!&UZ_kRFT!679Hmf(p+1QOd^ zDdr^cgy0}NPmKM1tbZ8Nx(-y2#*4*l`sra2qs6!T7)`Ix^mcOnFrVJt&NUZHHImCx z&DZek$#@Zexto0ph+LK=OOaqDPXI}dN#=9nM#%<}r=6)NuL2oLSYBiV(*)iTjo3;p z$)c19(zWM?uz!+DL{$U4V%A~Tq~YmKA??i8j1v%Hcq9cX$%?2xdIu_3S7y>XMq;i% z3eKK^dS4kEEKrK+T0LExAr;`--@;7O$+D^-4uvk5N)_R!Dq@(3jg4>LXYuG zXRQVutyiEpO;HX);B~ia>IW){Y+Fk@oN{`>(tk29yaQ0eiBthW=AQ(dGcNpdT#khO zDM9SbkbYuL30?aq`6cLmK8UetPyk!AMH|nirXiK3AzAI!!C*+@bts_!xeBt3bS^W9 zk!w%@BiEP{60*HnL99W8f>?vDwdy*n3>7js<+OVdTE{8B2*=EIFOmeI_9QF-?P?H4 zAb-Tla?JQTFr+#;kgfx+5pp@-T0s-Oj}vv&7qK1-tsY(yDBeDdw+P*;=g9_g>{`I@ zquSQb^v|xPiC#2P*Rm|~hdwfT1v)MHo`l9Hcbww-aSqF6;byJiup%$MJ9v^~>q!zp zt^U5#&C*+8IIwU=D0ut z@@H%MgXt_(6z8`2Rl@F@VEw|4{XA{A+M}I?sctCkZel1O1steD`hBn#ob37sV4moU z2OysBy-tVQIW<=oOwzh~E?n1yJCPMYwf|SH^1G54dN~(ZCYu4BL@WAEcGoSAtbgf4 zd6#AV%R3YG?-eoa#x_nnvaVkzo`)Ju?yh2VHJvP`cemr&H}rXW9Xpuaz-_o)#Q!cr zW3S@*WH!BDxD^HlMc>5p`S?rlfz}UAywccNNPJ2}k>So`$e_#>$)u^m7hAO4q7_a+ z25o>zHybzWQjPb67UfcMfZ%ZTIDg@!a7i}}&aM;438NBTXFGZnuu>nXzG%A z?vJw<%vP+Vsrs((sv9Z)U=!XNu78%jfggfqBKQ5j5V0ASAOqXnl7HIWcz;>fS5X2` zO(rua(ax;jbwWfnhab?NUO@sYy9qI46)42u2~3G3|G|*Uz$PmlaypHqlk0D!=a4^k z-hn#Q?yA=Q{haDORsz^1&_5Tn;w(4SMcTdLp3BJbce^Y4>O@YcUx3L{cm=p-tNIW) zWJ(e|Qe2CC=jwl;sd`jEqJJ+dr(Qrh_SONvknNJk@wC)ylr^aTr|=R9nSQi)F)u$v z^;07kP4(A{Ml5BC7HUb%Dp<60mlw)Iy`s3-Ue-U@H*c)dvxwHO9k1PQl>?yrZ~xlk zc5B~o&5`l;QSI)drgnYg7I%l<_C@Wex?SF(xVmU?TyLv7-VAh9*Js$@E|wqH+9WHh zv9Oh)jt1{nBwPsXTy8V!`lff4qISxY9w)te*lP78niwU`iLPT;?x5|jr>NR%ADj0d sB*|3J0OCRb=E^tkS+#vuziWQKS7+&q!(OzLX{{C=5$o>v|CRkis6;!>2?LQU2{8yT0O(l#^~Hk{Da96Hi9jxvOfL5$fW_`& z0SUm8GZ5$rQ&M2X#b`k|CG0V&Ht$Pb)D)6G67j0oXst^6n-jeJJ-NI%BKqMv`yy~v zfiTK*ilt26_3HLkI$D83&1LiiLK4nwD?qJzF+8bM0ksomT7Lkj5>SvFD+t6Q63I=e z6$_FFLI{w72gZFqY;O!{T?eX1<1Cv^Kip?2%D&#EXnKXFHEtWJz=zg9Eh>s;LT&QCOIdO7JIO!A-UV z5!e<>!bn+{y8FJ@L`R~ihAE)pLZLO_!etBrNs%MeNH&uotmP|?bn+0^>>Ck4yD+5P zCX*&sFeM|SBk{T^a&TDVmN#)|K%vxb8A*jz9jQB4I)71IhYzd=JTv{`@CaLS5z98) zEG1$K!>m${;G)FW9q)UsznMfOzH4jIdRE4A0y}7=M!NOIps;Qh?UH%LIejEH7%pp; zD-+^R#<<+1uSVjed`cvZc_MIoMz|fLU19& zb4;2Qo)X30Ea?XpjIdRBQdokC#8HgRfFjtMtAEZ1HZ=ojEDfn9nnr^mg;%kF;m0b< zG+JXB$H)yRf{`1HUAC6t7CHO2tXTcK|;aTrJi=;s6 zn1m%DV-oEc#h6*1HCYda(n|)?w*<99J}XcsXw&y`t{3AnHGN^!!*dSR>&xX1pPuRZ$e)K-gFO(|Yb7)~qYxIof& z$8btZTp=e4{TOfOxw1dOO^WsXg~%%gW7l={qOhm7=TZB%9vejAvib$A9VP z)WhrseutYZ{Wpt^y-Mek+4L^++ZY%WeVxwd<4@5$+FZ2xN^55^@dc3;#l6drL77WJ zmE9+=HfXUyOPqs>`U1AxY~8HSet8(QtQSfEM2G9kxgeEKxoL3rwt$>-rr=rqGQNUR z8@+;G_W~Z}`a$6(7LNu05qHQB?tlAi8Jxm*N%ygQz(4%!Z+5*m16k?32z>K;uh)D< z^~hEkZN|4CtnjHkpO14#z?Qsbh5l~NK3l2qV4L1rZg`eE(H(n;0Y3fMRr>#EdBNAAbxv4P3F( zqo&hJdb$2qdJg47?-{5=?Y?T=52bYLu@=BSiTw@LV=>TY=)FH5~dS%Ln) zfagT2;yuL+pvmRCWP8=hC4W=%^`aFkcy5F`60-)D?A+yr_E0YTikuyS6p*qy?wHE_er~VedL^VkKXQ4>ZCdU-J`fUXmDI_XLr2q z=w!Rc{`zM5ajk8!vgr%AGt~3K`#Taogl;Xj?R9e&yD3q7)k%+&UP4@Kby|{4tde#` z*Ata{X#4XiX=3d|`~1BkR3{A}FC<{0ee<4GyKCEL?fpBwmcBS_MYovNd7~p@{q6oA H%(|9E=Zz;O diff --git a/reasoner_validator.biolink.html b/reasoner_validator.biolink.html index 9acad38..bb88838 100644 --- a/reasoner_validator.biolink.html +++ b/reasoner_validator.biolink.html @@ -61,15 +61,19 @@
    • BiolinkValidator.build_source_trail()
    • BiolinkValidator.check_biolink_model_compliance()
    • BiolinkValidator.check_biolink_model_compliance_of_input_edge()
      • +
    • BiolinkValidator.count_node()
    • BiolinkValidator.get_biolink_version()
    • BiolinkValidator.get_node_categories()
    • BiolinkValidator.get_node_identifiers()
    • BiolinkValidator.get_result()
    • BiolinkValidator.get_target_provenance()
      • +
    • BiolinkValidator.has_dangling_nodes()
      • +
    • BiolinkValidator.has_valid_node_information()
    • BiolinkValidator.merge()
    • BiolinkValidator.minimum_required_biolink_version()
    • BiolinkValidator.report_header()
    • BiolinkValidator.reset_biolink_version()
      • +
    • BiolinkValidator.reset_node_info()
    • BiolinkValidator.set_nodes()
    • BiolinkValidator.to_dict()
    • BiolinkValidator.validate_attribute_constraints()
      • @@ -273,7 +277,7 @@       - +
      +
    • reset_node_info() (reasoner_validator.biolink.BiolinkValidator method) +
    • reset_trapi_version() (reasoner_validator.trapi.TRAPISchemaValidator method)

      • Get copy of all messages as a Python data structure.

      get_node_categories(node_id)

      Categories by 'node_id'.

      Categories by 'node_id'. :param node_id: :return: For a given node_id, returns the associated categories; None if node_id is currently unknown or has no categories.

      get_node_identifiers()

      @@ -415,13 +419,25 @@
      - + + + + - + - + + + + + + + + + + @@ -490,6 +506,11 @@ +
      +
      +count_node(node_id: str)
      +
      +
      @@ -508,7 +529,10 @@ get_node_categories(node_id: str) → List[str] | None

      Categories by ‘node_id’. :param node_id: -:return: For a given node_id, returns the associated categories; None if node_id is currently unknown

      +:return: For a given node_id, returns the associated categories;

      +
      +

      None if node_id is currently unknown or has no categories.

      +
      @@ -540,6 +564,16 @@ :return: Tuple[Optional[str], Optional[str], Optional[str]] of ara_source, kp_source, kp_source_type

      +
      +
      +has_dangling_nodes() → bool
      +
      + +
      +
      +has_valid_node_information(graph_type: TRAPIGraphType) → bool
      +
      +
      merge(reporter)
      @@ -578,11 +612,17 @@ :return: None

      +
      +
      +reset_node_info(graph_type: TRAPIGraphType)
      +
      +
      set_nodes(nodes: Dict)

      Records additional nodes, uniquely by node_id, with specified categories. -:param nodes: Dict, node_id indexed node categories +:param nodes: Dict, node_id indexed node categories. A given node_id is +tagged with “None” if the categories are missing? :return: None

      diff --git a/reasoner_validator.html b/reasoner_validator.html index 75e12f1..187ba61 100644 --- a/reasoner_validator.html +++ b/reasoner_validator.html @@ -183,7 +183,7 @@ - +

      get_bmt

      count_node

      get_bmt

      get_message_type_tag

      get_message_type_tag

      report_header

      has_dangling_nodes

      has_valid_node_information

      report_header

      reset_node_info

      validate_input_edge_node

      Get copy of all messages as a Python data structure.

      get_node_categories(node_id)

      Categories by 'node_id'.

      Categories by 'node_id'. :param node_id: :return: For a given node_id, returns the associated categories; None if node_id is currently unknown or has no categories.

      get_node_identifiers()

      @@ -343,16 +343,28 @@
      - + - + - + - + + + + + + + + + + + + + diff --git a/reasoner_validator.report.html b/reasoner_validator.report.html index bab9112..788bf7d 100644 --- a/reasoner_validator.report.html +++ b/reasoner_validator.report.html @@ -56,6 +56,7 @@
    • TRAPIGraphType.Input_Edge
    • TRAPIGraphType.Knowledge_Graph
    • TRAPIGraphType.Query_Graph
      • +
    • TRAPIGraphType.label()
    • ValidationReporter
        @@ -184,6 +185,11 @@ Query_Graph = 'Query Graph'
        +
        +
        +label() → str
        +
        +
        diff --git a/searchindex.js b/searchindex.js index 40c6b9e..55bcec1 100644 --- a/searchindex.js +++ b/searchindex.js @@ -1 +1 @@ -Search.setIndex({"docnames": ["index", "reasoner_validator", "reasoner_validator.biolink", "reasoner_validator.report", "reasoner_validator.trapi", "reasoner_validator.trapi.mapping", "reasoner_validator.validation_codes", "reasoner_validator.versioning", "validation_codes_dictionary"], "filenames": ["index.rst", "reasoner_validator.rst", "reasoner_validator.biolink.rst", "reasoner_validator.report.rst", "reasoner_validator.trapi.rst", "reasoner_validator.trapi.mapping.rst", "reasoner_validator.validation_codes.rst", "reasoner_validator.versioning.rst", "validation_codes_dictionary.md"], "titles": ["Reasoner Validator", "TRAPI Response Validation", "Biolink Validation", "Validator Reporter", "TRAPI Schema Validation", "TRAPI Result Mapping", "Validation Codes Dictionary", "SemVer Versioning Utilities", "Validation Codes Dictionary"], "terms": {"thi": 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"reasoner_validator.trapi.mapping.MappingValidator"]], "check_dangling_references() (reasoner_validator.trapi.mapping.mappingvalidator method)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.check_dangling_references"]], "check_node_edge_mappings() (in module reasoner_validator.trapi.mapping)": [[5, "reasoner_validator.trapi.mapping.check_node_edge_mappings"]], "messages (reasoner_validator.trapi.mapping.mappingvalidator attribute)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.messages"]], "prefix (reasoner_validator.trapi.mapping.mappingvalidator attribute)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.prefix"]], "reasoner_validator.trapi.mapping": [[5, "module-reasoner_validator.trapi.mapping"]], "strict_validation (reasoner_validator.trapi.mapping.mappingvalidator attribute)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.strict_validation"]], "code_dictionary_file (reasoner_validator.validation_codes.codedictionary attribute)": [[6, 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(reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.filter_copy_by_facet"]], "get_code_entry() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_code_entry"]], "get_code_subtree() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_code_subtree"]], "get_description() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_description"]], "get_message_context() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_message_context"]], "get_message_template() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_message_template"]], 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(reasoner_validator.versioning.semver class method)": [[7, "reasoner_validator.versioning.SemVer.from_string"]], "get_latest_version() (in module reasoner_validator.versioning)": [[7, "reasoner_validator.versioning.get_latest_version"]], "major (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.major"]], "minor (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.minor"]], "patch (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.patch"]], "prefix (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.prefix"]], "prerelease (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.prerelease"]], "reasoner_validator.versioning": [[7, "module-reasoner_validator.versioning"]]}}) \ No newline at end of file +Search.setIndex({"docnames": ["index", "reasoner_validator", 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"has_errors() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.has_errors"]], "has_information() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.has_information"]], "has_messages() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.has_messages"]], "has_warnings() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.has_warnings"]], "is_strict_validation() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.is_strict_validation"]], "label() (reasoner_validator.report.trapigraphtype method)": [[3, "reasoner_validator.report.TRAPIGraphType.label"]], "merge() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.merge"]], "reasoner_validator.report": [[3, "module-reasoner_validator.report"]], "report() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.report"]], "report_header() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.report_header"]], "test_case_has_validation_errors() (reasoner_validator.report.validationreporter static method)": [[3, "reasoner_validator.report.ValidationReporter.test_case_has_validation_errors"]], "to_dict() (reasoner_validator.report.validationreporter method)": [[3, "reasoner_validator.report.ValidationReporter.to_dict"]], "trapiaccesserror": [[4, "reasoner_validator.trapi.TRAPIAccessError"]], "trapischemavalidator (class in reasoner_validator.trapi)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator"]], "call_trapi() (in module reasoner_validator.trapi)": [[4, "reasoner_validator.trapi.call_trapi"]], "fix_nullable() (in module reasoner_validator.trapi)": [[4, "reasoner_validator.trapi.fix_nullable"]], "get_trapi_version() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.get_trapi_version"]], "is_valid_trapi_query() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.is_valid_trapi_query"]], "load_schema() (in module reasoner_validator.trapi)": [[4, "reasoner_validator.trapi.load_schema"]], "map_semver() (in module reasoner_validator.trapi)": [[4, "reasoner_validator.trapi.map_semver"]], "merge() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.merge"]], "messages (reasoner_validator.trapi.trapischemavalidator attribute)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.messages"]], "minimum_required_trapi_version() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.minimum_required_trapi_version"]], "openapi_to_jsonschema() (in module reasoner_validator.trapi)": [[4, "reasoner_validator.trapi.openapi_to_jsonschema"]], "patch_schema() (in module reasoner_validator.trapi)": [[4, "reasoner_validator.trapi.patch_schema"]], "prefix (reasoner_validator.trapi.trapischemavalidator attribute)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.prefix"]], "reasoner_validator.trapi": [[4, "module-reasoner_validator.trapi"]], "report_header() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.report_header"]], "reset_trapi_version() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.reset_trapi_version"]], "strict_validation (reasoner_validator.trapi.trapischemavalidator attribute)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.strict_validation"]], "to_dict() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.to_dict"]], "validate() (reasoner_validator.trapi.trapischemavalidator method)": [[4, "reasoner_validator.trapi.TRAPISchemaValidator.validate"]], "mappingvalidator (class in reasoner_validator.trapi.mapping)": [[5, "reasoner_validator.trapi.mapping.MappingValidator"]], "check_dangling_references() (reasoner_validator.trapi.mapping.mappingvalidator method)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.check_dangling_references"]], "check_node_edge_mappings() (in module reasoner_validator.trapi.mapping)": [[5, "reasoner_validator.trapi.mapping.check_node_edge_mappings"]], "messages (reasoner_validator.trapi.mapping.mappingvalidator attribute)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.messages"]], "prefix (reasoner_validator.trapi.mapping.mappingvalidator attribute)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.prefix"]], "reasoner_validator.trapi.mapping": [[5, "module-reasoner_validator.trapi.mapping"]], "strict_validation (reasoner_validator.trapi.mapping.mappingvalidator attribute)": [[5, "reasoner_validator.trapi.mapping.MappingValidator.strict_validation"]], "code_dictionary_file (reasoner_validator.validation_codes.codedictionary attribute)": [[6, "reasoner_validator.validation_codes.CodeDictionary.CODE_DICTIONARY_FILE"]], "context (reasoner_validator.validation_codes.codedictionary attribute)": [[6, "reasoner_validator.validation_codes.CodeDictionary.CONTEXT"]], "codedictionary (class in reasoner_validator.validation_codes)": [[6, "reasoner_validator.validation_codes.CodeDictionary"]], "description (reasoner_validator.validation_codes.codedictionary attribute)": [[6, "reasoner_validator.validation_codes.CodeDictionary.DESCRIPTION"]], "message (reasoner_validator.validation_codes.codedictionary attribute)": [[6, "reasoner_validator.validation_codes.CodeDictionary.MESSAGE"]], "code_dictionary (reasoner_validator.validation_codes.codedictionary attribute)": [[6, "reasoner_validator.validation_codes.CodeDictionary.code_dictionary"]], "display() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.display"]], "filter_copy_by_facet() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.filter_copy_by_facet"]], "get_code_entry() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_code_entry"]], "get_code_subtree() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_code_subtree"]], "get_description() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_description"]], "get_message_context() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_message_context"]], "get_message_template() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_message_template"]], "get_message_type() (reasoner_validator.validation_codes.codedictionary static method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.get_message_type"]], "markdown() (reasoner_validator.validation_codes.codedictionary class method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.markdown"]], "reasoner_validator.validation_codes": [[6, "module-reasoner_validator.validation_codes"]], "validation_code_tag() (reasoner_validator.validation_codes.codedictionary static method)": [[6, "reasoner_validator.validation_codes.CodeDictionary.validation_code_tag"]], "semver (class in reasoner_validator.versioning)": [[7, "reasoner_validator.versioning.SemVer"]], "semvererror": [[7, "reasoner_validator.versioning.SemVerError"]], "semverunderspecified": [[7, "reasoner_validator.versioning.SemVerUnderspecified"]], "buildmetadata (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.buildmetadata"]], "from_string() (reasoner_validator.versioning.semver class method)": [[7, "reasoner_validator.versioning.SemVer.from_string"]], "get_latest_version() (in module reasoner_validator.versioning)": [[7, "reasoner_validator.versioning.get_latest_version"]], "major (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.major"]], "minor (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.minor"]], "patch (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.patch"]], "prefix (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.prefix"]], "prerelease (reasoner_validator.versioning.semver attribute)": [[7, "reasoner_validator.versioning.SemVer.prerelease"]], "reasoner_validator.versioning": [[7, "module-reasoner_validator.versioning"]]}}) \ No newline at end of file diff --git a/validation_codes_dictionary.html b/validation_codes_dictionary.html index d3215e9..b54de41 100644 --- a/validation_codes_dictionary.html +++ b/validation_codes_dictionary.html @@ -77,6 +77,8 @@
      • error.input_edge.predicate.abstract
      • error.input_edge.predicate.mixin
      • error.input_edge.predicate.invalid
        • +
      • error.query_graph.nodes.uninformative
        • +
      • error.query_graph.nodes.dangling
      • error.query_graph.node.category.missing
      • error.query_graph.node.category.not_a_category
      • error.query_graph.node.category.unknown
        • @@ -100,6 +102,8 @@
      • error.query_graph.edge.qualifier_constraints.qualifier_set.qualifier.value.not_a_predicate
      • error.query_graph.edge.qualifier_constraints.qualifier_set.qualifier.invalid
      • error.knowledge_graph.nodes.empty
        • +
      • error.knowledge_graph.nodes.uninformative
        • +
      • error.knowledge_graph.nodes.dangling
      • error.knowledge_graph.edges.empty
      • error.knowledge_graph.node.id.missing
      • error.knowledge_graph.node.category.missing
        • @@ -370,6 +374,16 @@

        error.input_edge.predicate.invalid +

        error.query_graph.nodes.uninformative

        +

        Message: Missing informative node information

        +

        Description: Query graph must have at least one node with identifiers and/or categories available for query!

        + +
        +

        error.query_graph.nodes.dangling

        +

        Message: Dangling nodes

        +

        Description: At least one query node is unused in the query graph!

        +

        error.query_graph.node.category.missing

        Message: Category is missing from node

        @@ -504,12 +518,22 @@

        error.query_graph.edge.qualifier_constraints.qualifier_set.qualifier.invalid

        error.knowledge_graph.nodes.empty

        -

        Message: No nodes found!

        +

        Message: No nodes found

        Description: Knowledge graph in TRAPI messages must have a ‘nodes’ key and non-empty associated value!

        +
        +

        error.knowledge_graph.nodes.uninformative

        +

        Message: Missing informative node information!

        +

        Description: All nodes in a knowledge graph must have categories!

        +
        +
        +

        error.knowledge_graph.nodes.dangling

        +

        Message: Dangling nodes

        +

        Description: At least one query node is unused in the knowledge graph!

        +

        error.knowledge_graph.edges.empty

        -

        Message: No edges found!

        +

        Message: No edges found

        Description: Knowledge graph in TRAPI messages must have a ‘edges’ key and non-empty associated value!

      • get_bmt

      count_node

      get_message_type_tag

      get_bmt

      is_trapi_1_4

      get_message_type_tag

      report_header

      has_dangling_nodes

      has_valid_node_information

      is_trapi_1_4

      report_header

      reset_node_info

      validate_input_edge_node