@apollo-annotation/shared 0.3.6 → 0.3.7

package/dist/Changes/index.d.ts

@@ -1,3 +1,4 @@
+import { AddAssemblyAliasesChange } from './AddAssemblyAliasesChange';
 import { AddAssemblyAndFeaturesFromFileChange } from './AddAssemblyAndFeaturesFromFileChange';
 import { AddAssemblyFromExternalChange } from './AddAssemblyFromExternalChange';
 import { AddAssemblyFromFileChange } from './AddAssemblyFromFileChange';
@@ -11,8 +12,14 @@ import { FeatureAttributeChange } from './FeatureAttributeChange';
 import { ImportJBrowseConfigChange } from './ImportJBrowseConfigChange';
 import { LocationEndChange } from './LocationEndChange';
 import { LocationStartChange } from './LocationStartChange';
+import { MergeExonsChange } from './MergeExonsChange';
+import { MergeTranscriptsChange } from './MergeTranscriptsChange';
+import { SplitExonChange } from './SplitExonChange';
 import { StrandChange } from './StrandChange';
 import { TypeChange } from './TypeChange';
+import { UndoMergeExonsChange } from './UndoMergeExonsChange';
+import { UndoMergeTranscriptsChange } from './UndoMergeTranscriptsChange';
+import { UndoSplitExonChange } from './UndoSplitExonChange';
 import { UserChange } from './UserChange';
 export declare const changes: {
     AddAssemblyAndFeaturesFromFileChange: typeof AddAssemblyAndFeaturesFromFileChange;
@@ -27,10 +34,17 @@ export declare const changes: {
     ImportJBrowseConfigChange: typeof ImportJBrowseConfigChange;
     LocationEndChange: typeof LocationEndChange;
     LocationStartChange: typeof LocationStartChange;
+    MergeExonsChange: typeof MergeExonsChange;
+    SplitExonChange: typeof SplitExonChange;
+    MergeTranscriptsChange: typeof MergeTranscriptsChange;
+    UndoMergeExonsChange: typeof UndoMergeExonsChange;
+    UndoSplitExonChange: typeof UndoSplitExonChange;
+    UndoMergeTranscriptsChange: typeof UndoMergeTranscriptsChange;
     StrandChange: typeof StrandChange;
     TypeChange: typeof TypeChange;
     UserChange: typeof UserChange;
     AddRefSeqAliasesChange: typeof AddRefSeqAliasesChange;
+    AddAssemblyAliasesChange: typeof AddAssemblyAliasesChange;
 };
 export * from './AddAssemblyAndFeaturesFromFileChange';
 export * from './AddAssemblyFromFileChange';
@@ -44,7 +58,14 @@ export * from './FeatureAttributeChange';
 export * from './ImportJBrowseConfigChange';
 export * from './LocationEndChange';
 export * from './LocationStartChange';
+export * from './MergeExonsChange';
+export * from './SplitExonChange';
+export * from './MergeTranscriptsChange';
+export * from './UndoMergeExonsChange';
+export * from './UndoSplitExonChange';
+export * from './UndoMergeTranscriptsChange';
 export * from './StrandChange';
 export * from './TypeChange';
 export * from './UserChange';
 export * from './AddRefSeqAliasesChange';
+export * from './AddAssemblyAliasesChange';

package/dist/Changes/index.js

@@ -2,6 +2,7 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.changes = void 0;
 const tslib_1 = require("tslib");
+const AddAssemblyAliasesChange_1 = require("./AddAssemblyAliasesChange");
 const AddAssemblyAndFeaturesFromFileChange_1 = require("./AddAssemblyAndFeaturesFromFileChange");
 const AddAssemblyFromExternalChange_1 = require("./AddAssemblyFromExternalChange");
 const AddAssemblyFromFileChange_1 = require("./AddAssemblyFromFileChange");
@@ -15,8 +16,14 @@ const FeatureAttributeChange_1 = require("./FeatureAttributeChange");
 const ImportJBrowseConfigChange_1 = require("./ImportJBrowseConfigChange");
 const LocationEndChange_1 = require("./LocationEndChange");
 const LocationStartChange_1 = require("./LocationStartChange");
+const MergeExonsChange_1 = require("./MergeExonsChange");
+const MergeTranscriptsChange_1 = require("./MergeTranscriptsChange");
+const SplitExonChange_1 = require("./SplitExonChange");
 const StrandChange_1 = require("./StrandChange");
 const TypeChange_1 = require("./TypeChange");
+const UndoMergeExonsChange_1 = require("./UndoMergeExonsChange");
+const UndoMergeTranscriptsChange_1 = require("./UndoMergeTranscriptsChange");
+const UndoSplitExonChange_1 = require("./UndoSplitExonChange");
 const UserChange_1 = require("./UserChange");
 exports.changes = {
     AddAssemblyAndFeaturesFromFileChange: AddAssemblyAndFeaturesFromFileChange_1.AddAssemblyAndFeaturesFromFileChange,
@@ -31,10 +38,17 @@ exports.changes = {
     ImportJBrowseConfigChange: ImportJBrowseConfigChange_1.ImportJBrowseConfigChange,
     LocationEndChange: LocationEndChange_1.LocationEndChange,
     LocationStartChange: LocationStartChange_1.LocationStartChange,
+    MergeExonsChange: MergeExonsChange_1.MergeExonsChange,
+    SplitExonChange: SplitExonChange_1.SplitExonChange,
+    MergeTranscriptsChange: MergeTranscriptsChange_1.MergeTranscriptsChange,
+    UndoMergeExonsChange: UndoMergeExonsChange_1.UndoMergeExonsChange,
+    UndoSplitExonChange: UndoSplitExonChange_1.UndoSplitExonChange,
+    UndoMergeTranscriptsChange: UndoMergeTranscriptsChange_1.UndoMergeTranscriptsChange,
     StrandChange: StrandChange_1.StrandChange,
     TypeChange: TypeChange_1.TypeChange,
     UserChange: UserChange_1.UserChange,
     AddRefSeqAliasesChange: AddRefSeqAliasesChange_1.AddRefSeqAliasesChange,
+    AddAssemblyAliasesChange: AddAssemblyAliasesChange_1.AddAssemblyAliasesChange,
 };
 tslib_1.__exportStar(require("./AddAssemblyAndFeaturesFromFileChange"), exports);
 tslib_1.__exportStar(require("./AddAssemblyFromFileChange"), exports);
@@ -48,8 +62,15 @@ tslib_1.__exportStar(require("./FeatureAttributeChange"), exports);
 tslib_1.__exportStar(require("./ImportJBrowseConfigChange"), exports);
 tslib_1.__exportStar(require("./LocationEndChange"), exports);
 tslib_1.__exportStar(require("./LocationStartChange"), exports);
+tslib_1.__exportStar(require("./MergeExonsChange"), exports);
+tslib_1.__exportStar(require("./SplitExonChange"), exports);
+tslib_1.__exportStar(require("./MergeTranscriptsChange"), exports);
+tslib_1.__exportStar(require("./UndoMergeExonsChange"), exports);
+tslib_1.__exportStar(require("./UndoSplitExonChange"), exports);
+tslib_1.__exportStar(require("./UndoMergeTranscriptsChange"), exports);
 tslib_1.__exportStar(require("./StrandChange"), exports);
 tslib_1.__exportStar(require("./TypeChange"), exports);
 tslib_1.__exportStar(require("./UserChange"), exports);
 tslib_1.__exportStar(require("./AddRefSeqAliasesChange"), exports);
+tslib_1.__exportStar(require("./AddAssemblyAliasesChange"), exports);
 //# sourceMappingURL=index.js.map

package/dist/Changes/index.js.map

@@ -1 +1 @@
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package/dist/GFF3/annotationFeatureToGFF3.js

@@ -205,7 +205,13 @@ function getTranscriptParts(feature) {
     return transcriptParts;
 }
 function getCdsLocations(feature) {
-    const transcriptParts = getTranscriptParts(feature);
+    let transcriptParts = [];
+    try {
+        transcriptParts = getTranscriptParts(feature);
+    }
+    catch {
+        return [];
+    }
     return transcriptParts.map((transcript) => transcript.filter((transcriptPart) => transcriptPart.type === 'CDS'));
 }
 //# sourceMappingURL=annotationFeatureToGFF3.js.map

package/dist/GFF3/annotationFeatureToGFF3.js.map

@@ -1 +1 @@
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package/dist/Validations/ParentChildValidation.js

@@ -1,7 +1,9 @@
 "use strict";
+/* eslint-disable @typescript-eslint/no-unnecessary-condition */
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.ParentChildValidation = void 0;
 const Changes_1 = require("../Changes");
+const util_1 = require("../util");
 const Validation_1 = require("./Validation");
 class ParentChildValidation extends Validation_1.Validation {
     name = 'ParentChildValidation';
@@ -51,7 +53,7 @@ class ParentChildValidation extends Validation_1.Validation {
                 childFeature.min !== null &&
                 childFeature.max !== null &&
                 (childFeature.max > feature.max || childFeature.min < feature.min)) {
-                throw new Error(`Feature "${childFeature._id}" exceeds the bounds of its parent, "${feature._id}"`);
+                throw new Error(`Feature ${(0, util_1.getPrintableId)(childFeature)} exceeds the bounds of its parent, ${(0, util_1.getPrintableId)(feature)}`);
             }
             this.checkChildFeatureBoundaries(childFeature);
         }

package/dist/Validations/ParentChildValidation.js.map

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