@n8n-dev/n8n-nodes-monarchinitiative 1.0.0

package/dist/nodes/Monarchinitiative/resources/index.js

@@ -0,0 +1,56 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.metadataDescription = exports.mmeDescription = exports.simDescription = exports.variationSetDescription = exports.searchDescription = exports.relationUsageDescription = exports.individualDescription = exports.pairSimDescription = exports.owlOntologyDescription = exports.ontologyDescription = exports.ontolIdentifierDescription = exports.ontolLabelerDescription = exports.ontolDescription = exports.nlpAnnotateDescription = exports.martDescription = exports.identifierPrefixesDescription = exports.identifierMapperDescription = exports.graphDescription = exports.genomeFeaturesDescription = exports.evidenceGraphDescription = exports.bioentitysetSlimmerDescription = exports.bioentitysetHomologsDescription = exports.bioentitysetDescription = exports.camDescription = exports.associationDescription = exports.bioentityDescription = void 0;
+var bioentity_1 = require("./bioentity");
+Object.defineProperty(exports, "bioentityDescription", { enumerable: true, get: function () { return bioentity_1.bioentityDescription; } });
+var association_1 = require("./association");
+Object.defineProperty(exports, "associationDescription", { enumerable: true, get: function () { return association_1.associationDescription; } });
+var cam_1 = require("./cam");
+Object.defineProperty(exports, "camDescription", { enumerable: true, get: function () { return cam_1.camDescription; } });
+var bioentityset_1 = require("./bioentityset");
+Object.defineProperty(exports, "bioentitysetDescription", { enumerable: true, get: function () { return bioentityset_1.bioentitysetDescription; } });
+var bioentityset_homologs_1 = require("./bioentityset-homologs");
+Object.defineProperty(exports, "bioentitysetHomologsDescription", { enumerable: true, get: function () { return bioentityset_homologs_1.bioentitysetHomologsDescription; } });
+var bioentityset_slimmer_1 = require("./bioentityset-slimmer");
+Object.defineProperty(exports, "bioentitysetSlimmerDescription", { enumerable: true, get: function () { return bioentityset_slimmer_1.bioentitysetSlimmerDescription; } });
+var evidence_graph_1 = require("./evidence-graph");
+Object.defineProperty(exports, "evidenceGraphDescription", { enumerable: true, get: function () { return evidence_graph_1.evidenceGraphDescription; } });
+var genome_features_1 = require("./genome-features");
+Object.defineProperty(exports, "genomeFeaturesDescription", { enumerable: true, get: function () { return genome_features_1.genomeFeaturesDescription; } });
+var graph_1 = require("./graph");
+Object.defineProperty(exports, "graphDescription", { enumerable: true, get: function () { return graph_1.graphDescription; } });
+var identifier_mapper_1 = require("./identifier-mapper");
+Object.defineProperty(exports, "identifierMapperDescription", { enumerable: true, get: function () { return identifier_mapper_1.identifierMapperDescription; } });
+var identifier_prefixes_1 = require("./identifier-prefixes");
+Object.defineProperty(exports, "identifierPrefixesDescription", { enumerable: true, get: function () { return identifier_prefixes_1.identifierPrefixesDescription; } });
+var mart_1 = require("./mart");
+Object.defineProperty(exports, "martDescription", { enumerable: true, get: function () { return mart_1.martDescription; } });
+var nlp_annotate_1 = require("./nlp-annotate");
+Object.defineProperty(exports, "nlpAnnotateDescription", { enumerable: true, get: function () { return nlp_annotate_1.nlpAnnotateDescription; } });
+var ontol_1 = require("./ontol");
+Object.defineProperty(exports, "ontolDescription", { enumerable: true, get: function () { return ontol_1.ontolDescription; } });
+var ontol_labeler_1 = require("./ontol-labeler");
+Object.defineProperty(exports, "ontolLabelerDescription", { enumerable: true, get: function () { return ontol_labeler_1.ontolLabelerDescription; } });
+var ontol_identifier_1 = require("./ontol-identifier");
+Object.defineProperty(exports, "ontolIdentifierDescription", { enumerable: true, get: function () { return ontol_identifier_1.ontolIdentifierDescription; } });
+var ontology_1 = require("./ontology");
+Object.defineProperty(exports, "ontologyDescription", { enumerable: true, get: function () { return ontology_1.ontologyDescription; } });
+var owl_ontology_1 = require("./owl-ontology");
+Object.defineProperty(exports, "owlOntologyDescription", { enumerable: true, get: function () { return owl_ontology_1.owlOntologyDescription; } });
+var pair_sim_1 = require("./pair-sim");
+Object.defineProperty(exports, "pairSimDescription", { enumerable: true, get: function () { return pair_sim_1.pairSimDescription; } });
+var individual_1 = require("./individual");
+Object.defineProperty(exports, "individualDescription", { enumerable: true, get: function () { return individual_1.individualDescription; } });
+var relation_usage_1 = require("./relation-usage");
+Object.defineProperty(exports, "relationUsageDescription", { enumerable: true, get: function () { return relation_usage_1.relationUsageDescription; } });
+var search_1 = require("./search");
+Object.defineProperty(exports, "searchDescription", { enumerable: true, get: function () { return search_1.searchDescription; } });
+var variation_set_1 = require("./variation-set");
+Object.defineProperty(exports, "variationSetDescription", { enumerable: true, get: function () { return variation_set_1.variationSetDescription; } });
+var sim_1 = require("./sim");
+Object.defineProperty(exports, "simDescription", { enumerable: true, get: function () { return sim_1.simDescription; } });
+var mme_1 = require("./mme");
+Object.defineProperty(exports, "mmeDescription", { enumerable: true, get: function () { return mme_1.mmeDescription; } });
+var metadata_1 = require("./metadata");
+Object.defineProperty(exports, "metadataDescription", { enumerable: true, get: function () { return metadata_1.metadataDescription; } });
+//# sourceMappingURL=index.js.map

package/dist/nodes/Monarchinitiative/resources/index.js.map

@@ -0,0 +1 @@
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package/dist/nodes/Monarchinitiative/resources/individual/index.d.ts

@@ -0,0 +1,2 @@
+import type { INodeProperties } from 'n8n-workflow';
+export declare const individualDescription: INodeProperties[];

package/dist/nodes/Monarchinitiative/resources/individual/index.js

@@ -0,0 +1,84 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.individualDescription = void 0;
+exports.individualDescription = [
+    {
+        "displayName": "Operation",
+        "name": "operation",
+        "type": "options",
+        "noDataExpression": true,
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Individual"
+                ]
+            }
+        },
+        "options": [
+            {
+                "name": "Get Pedigree",
+                "value": "Get Pedigree",
+                "action": "Returns list of matches",
+                "description": "Returns list of matches",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/individual/pedigree/{{$parameter[\"id\"]}}"
+                    }
+                }
+            },
+            {
+                "name": "Get Individual",
+                "value": "Get Individual",
+                "action": "Returns list of matches",
+                "description": "Returns list of matches",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/individual/{{$parameter[\"id\"]}}"
+                    }
+                }
+            }
+        ],
+        "default": ""
+    },
+    {
+        "displayName": "GET /individual/pedigree/{id}",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Individual"
+                ],
+                "operation": [
+                    "Get Pedigree"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "GET /individual/{id}",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Individual"
+                ],
+                "operation": [
+                    "Get Individual"
+                ]
+            }
+        }
+    },
+];
+//# sourceMappingURL=index.js.map

package/dist/nodes/Monarchinitiative/resources/individual/index.js.map

@@ -0,0 +1 @@
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package/dist/nodes/Monarchinitiative/resources/mart/index.d.ts

@@ -0,0 +1,2 @@
+import type { INodeProperties } from 'n8n-workflow';
+export declare const martDescription: INodeProperties[];

package/dist/nodes/Monarchinitiative/resources/mart/index.js

@@ -0,0 +1,252 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.martDescription = void 0;
+exports.martDescription = [
+    {
+        "displayName": "Operation",
+        "name": "operation",
+        "type": "options",
+        "noDataExpression": true,
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ]
+            }
+        },
+        "options": [
+            {
+                "name": "Get Mart Case Associations Resource",
+                "value": "Get Mart Case Associations Resource",
+                "action": "Bulk download of case associations",
+                "description": "NOTE: this route has a limiter on it, you may be restricted in the number of downloads per hour. Use carefully.",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/mart/case/{{$parameter[\"object_category\"]}}/{{$parameter[\"taxon\"]}}"
+                    }
+                }
+            },
+            {
+                "name": "Get Mart Disease Associations Resource",
+                "value": "Get Mart Disease Associations Resource",
+                "action": "Bulk download of disease associations",
+                "description": "NOTE: this route has a limiter on it, you may be restricted in the number of downloads per hour. Use carefully.",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/mart/disease/{{$parameter[\"object_category\"]}}/{{$parameter[\"taxon\"]}}"
+                    }
+                }
+            },
+            {
+                "name": "Get Mart Gene Associations Resource",
+                "value": "Get Mart Gene Associations Resource",
+                "action": "Bulk download of gene associations",
+                "description": "NOTE: this route has a limiter on it, you may be restricted in the number of downloads per hour. Use carefully.",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/mart/gene/{{$parameter[\"object_category\"]}}/{{$parameter[\"taxon\"]}}"
+                    }
+                }
+            },
+            {
+                "name": "Get Mart Ortholog Associations Resource",
+                "value": "Get Mart Ortholog Associations Resource",
+                "action": "Bulk download of orthologs",
+                "description": "Bulk download of orthologs",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/mart/ortholog/{{$parameter[\"taxon1\"]}}/{{$parameter[\"taxon2\"]}}"
+                    }
+                }
+            },
+            {
+                "name": "Get Mart Paralog Associations Resource",
+                "value": "Get Mart Paralog Associations Resource",
+                "action": "Bulk download of paralogs",
+                "description": "Bulk download of paralogs",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/mart/paralog/{{$parameter[\"taxon1\"]}}/{{$parameter[\"taxon2\"]}}"
+                    }
+                }
+            }
+        ],
+        "default": ""
+    },
+    {
+        "displayName": "GET /mart/case/{object_category}/{taxon}",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Case Associations Resource"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "Slim",
+        "name": "slim",
+        "description": "Map objects up (slim) to a higher level category. Value can be ontology class ID or subset ID",
+        "default": "[\n  null\n]",
+        "type": "json",
+        "routing": {
+            "send": {
+                "type": "query",
+                "property": "slim",
+                "value": "={{ $value }}",
+                "propertyInDotNotation": false
+            }
+        },
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Case Associations Resource"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "GET /mart/disease/{object_category}/{taxon}",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Disease Associations Resource"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "Slim",
+        "name": "slim",
+        "description": "Map objects up (slim) to a higher level category. Value can be ontology class ID or subset ID",
+        "default": "[\n  null\n]",
+        "type": "json",
+        "routing": {
+            "send": {
+                "type": "query",
+                "property": "slim",
+                "value": "={{ $value }}",
+                "propertyInDotNotation": false
+            }
+        },
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Disease Associations Resource"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "GET /mart/gene/{object_category}/{taxon}",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Gene Associations Resource"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "Slim",
+        "name": "slim",
+        "description": "Map objects up (slim) to a higher level category. Value can be ontology class ID or subset ID",
+        "default": "[\n  null\n]",
+        "type": "json",
+        "routing": {
+            "send": {
+                "type": "query",
+                "property": "slim",
+                "value": "={{ $value }}",
+                "propertyInDotNotation": false
+            }
+        },
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Gene Associations Resource"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "GET /mart/ortholog/{taxon1}/{taxon2}",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Ortholog Associations Resource"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "GET /mart/paralog/{taxon1}/{taxon2}",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mart"
+                ],
+                "operation": [
+                    "Get Mart Paralog Associations Resource"
+                ]
+            }
+        }
+    },
+];
+//# sourceMappingURL=index.js.map

package/dist/nodes/Monarchinitiative/resources/mart/index.js.map

@@ -0,0 +1 @@
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package/dist/nodes/Monarchinitiative/resources/metadata/index.d.ts

@@ -0,0 +1,2 @@
+import type { INodeProperties } from 'n8n-workflow';
+export declare const metadataDescription: INodeProperties[];

package/dist/nodes/Monarchinitiative/resources/metadata/index.js

@@ -0,0 +1,53 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.metadataDescription = void 0;
+exports.metadataDescription = [
+    {
+        "displayName": "Operation",
+        "name": "operation",
+        "type": "options",
+        "noDataExpression": true,
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Metadata"
+                ]
+            }
+        },
+        "options": [
+            {
+                "name": "Get Metadata For Datasets",
+                "value": "Get Metadata For Datasets",
+                "action": "Get metadata for all datasets from SciGraph",
+                "description": "Get metadata for all datasets from SciGraph",
+                "routing": {
+                    "request": {
+                        "method": "GET",
+                        "url": "=/metadata/datasets"
+                    }
+                }
+            }
+        ],
+        "default": ""
+    },
+    {
+        "displayName": "GET /metadata/datasets",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Metadata"
+                ],
+                "operation": [
+                    "Get Metadata For Datasets"
+                ]
+            }
+        }
+    },
+];
+//# sourceMappingURL=index.js.map

package/dist/nodes/Monarchinitiative/resources/metadata/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../../../nodes/Monarchinitiative/resources/metadata/index.ts"],"names":[],"mappings":";;;AAEa,QAAA,mBAAmB,GAAsB;IACpD;QACC,aAAa,EAAE,WAAW;QAC1B,MAAM,EAAE,WAAW;QACnB,MAAM,EAAE,SAAS;QACjB,kBAAkB,EAAE,IAAI;QACxB,gBAAgB,EAAE;YACjB,MAAM,EAAE;gBACP,UAAU,EAAE;oBACX,UAAU;iBACV;aACD;SACD;QACD,SAAS,EAAE;YACV;gBACC,MAAM,EAAE,2BAA2B;gBACnC,OAAO,EAAE,2BAA2B;gBACpC,QAAQ,EAAE,6CAA6C;gBACvD,aAAa,EAAE,6CAA6C;gBAC5D,SAAS,EAAE;oBACV,SAAS,EAAE;wBACV,QAAQ,EAAE,KAAK;wBACf,KAAK,EAAE,qBAAqB;qBAC5B;iBACD;aACD;SACD;QACD,SAAS,EAAE,EAAE;KACb;IACD;QACC,aAAa,EAAE,wBAAwB;QACvC,MAAM,EAAE,WAAW;QACnB,MAAM,EAAE,QAAQ;QAChB,aAAa,EAAE;YACd,OAAO,EAAE,MAAM;SACf;QACD,SAAS,EAAE,EAAE;QACb,gBAAgB,EAAE;YACjB,MAAM,EAAE;gBACP,UAAU,EAAE;oBACX,UAAU;iBACV;gBACD,WAAW,EAAE;oBACZ,2BAA2B;iBAC3B;aACD;SACD;KACD;CACF,CAAC"}

package/dist/nodes/Monarchinitiative/resources/mme/index.d.ts

@@ -0,0 +1,2 @@
+import type { INodeProperties } from 'n8n-workflow';
+export declare const mmeDescription: INodeProperties[];

package/dist/nodes/Monarchinitiative/resources/mme/index.js

@@ -0,0 +1,177 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.mmeDescription = void 0;
+exports.mmeDescription = [
+    {
+        "displayName": "Operation",
+        "name": "operation",
+        "type": "options",
+        "noDataExpression": true,
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mme"
+                ]
+            }
+        },
+        "options": [
+            {
+                "name": "Post Disease Mme",
+                "value": "Post Disease Mme",
+                "action": "Match a patient to diseases based on their phenotypes",
+                "description": "Match a patient to diseases based on their phenotypes",
+                "routing": {
+                    "request": {
+                        "method": "POST",
+                        "url": "=/mme/disease"
+                    }
+                }
+            },
+            {
+                "name": "Post Fly Mme",
+                "value": "Post Fly Mme",
+                "action": "Match a patient to fruit fly genes based on similar phenotypes",
+                "description": "Match a patient to fruit fly genes based on similar phenotypes",
+                "routing": {
+                    "request": {
+                        "method": "POST",
+                        "url": "=/mme/fly"
+                    }
+                }
+            },
+            {
+                "name": "Post Mouse Mme",
+                "value": "Post Mouse Mme",
+                "action": "Match a patient to mouse genes based on similar phenotypes",
+                "description": "Match a patient to mouse genes based on similar phenotypes",
+                "routing": {
+                    "request": {
+                        "method": "POST",
+                        "url": "=/mme/mouse"
+                    }
+                }
+            },
+            {
+                "name": "Post Nematode Mme",
+                "value": "Post Nematode Mme",
+                "action": "Match a patient to nematode genes based on similar phenotypes",
+                "description": "Match a patient to nematode genes based on similar phenotypes",
+                "routing": {
+                    "request": {
+                        "method": "POST",
+                        "url": "=/mme/nematode"
+                    }
+                }
+            },
+            {
+                "name": "Post Zebrafish Mme",
+                "value": "Post Zebrafish Mme",
+                "action": "Match a patient to zebrafish genes based on similar phenotypes",
+                "description": "Match a patient to zebrafish genes based on similar phenotypes",
+                "routing": {
+                    "request": {
+                        "method": "POST",
+                        "url": "=/mme/zebrafish"
+                    }
+                }
+            }
+        ],
+        "default": ""
+    },
+    {
+        "displayName": "POST /mme/disease",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mme"
+                ],
+                "operation": [
+                    "Post Disease Mme"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "POST /mme/fly",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mme"
+                ],
+                "operation": [
+                    "Post Fly Mme"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "POST /mme/mouse",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mme"
+                ],
+                "operation": [
+                    "Post Mouse Mme"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "POST /mme/nematode",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mme"
+                ],
+                "operation": [
+                    "Post Nematode Mme"
+                ]
+            }
+        }
+    },
+    {
+        "displayName": "POST /mme/zebrafish",
+        "name": "operation",
+        "type": "notice",
+        "typeOptions": {
+            "theme": "info"
+        },
+        "default": "",
+        "displayOptions": {
+            "show": {
+                "resource": [
+                    "Mme"
+                ],
+                "operation": [
+                    "Post Zebrafish Mme"
+                ]
+            }
+        }
+    },
+];
+//# sourceMappingURL=index.js.map