react-msaview 3.1.8 → 3.1.10

package/bundle/index.js

@@ -286,7 +286,7 @@ var WD=function(e,t){return WD=Object.setPrototypeOf||{__proto__:[]}instanceof A
    * This source code is licensed under the MIT license found in the
    * LICENSE file in the root directory of this source tree.
    */
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aCe=qo((function({onClose:e,model:r}){const[n,o]=t.useState([{name:"NCBIfam",description:"NCBI RefSeq FAMs including TIGRFAMs",category:"Families, domains, sites & repeats",checked:!0},{name:"SFLD",description:"Structure function linkage database",category:"Families, domains, sites & repeats",checked:!0},{name:"Phobius",checked:!0,description:"A combined transmembrane topology and signal peptide predictor",category:"Other sequence features"},{name:"SignalP",checked:!0,category:"Other sequence features"},{name:"SignalP_EUK",category:"Other category",checked:!0},{name:"SignalP_GRAM_POSITIVE",category:"Other category",checked:!0},{name:"SignalP_GRAM_NEGATIVE",checked:!0,category:"Other category"},{name:"SUPERFAMILY",category:"Structural domains",checked:!0},{name:"PANTHER",category:"Families, domains, sites & repeats",checked:!0},{name:"Gene3D",category:"Structural domains",checked:!0},{name:"Hamap",category:"Families, domains, sites & 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(",t.createElement(ak,{href:"https://github.com/gmod/jbrowse-plugin-msaview"},"Github"),")"),t.createElement("ul",null,t.createElement("li",null,t.createElement(hb,null,"We use some color schemes from the"," ",t.createElement(ak,{href:"https://github.com/biotite-dev/biotite"},"biotite")," ","project, and their license is reproduced"," ",t.createElement(ak,{href:"https://github.com/biotite-dev/biotite/blob/master/LICENSE.rst"},"here"))),t.createElement("li",null,t.createElement(hb,null,"See this page for some information on jalview colorings"," ",t.createElement(ak,{href:"https://www.jalview.org/help/html/colourSchemes/"},"here"))),t.createElement("li",null,t.createElement(hb,null,"See this page for some info on the clustal, cinema, maeditor, and lesk color schemes"," ",t.createElement(ak,{href:"http://www.bioinformatics.nl/~berndb/aacolour.html"},"here"))),t.createElement("li",null,t.createElement(hb,null,"See this paper about the flower color scheme"," 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mae({model:e,offsetY:a,ctx:p,theme:r,blockSizeYOverride:o,highResScaleFactorOverride:1}),Jie({model:e,theme:r,offsetY:a,offsetX:i,contrastScheme:d,ctx:f,blockSizeXOverride:h,blockSizeYOverride:o,highResScaleFactorOverride:1}),t.createElement(t.Fragment,null,t.createElement("defs",null,t.createElement("clipPath",{id:s},t.createElement("rect",{x:0,y:0,width:c,height:o}))),t.createElement("defs",null,t.createElement("clipPath",{id:"msa"},t.createElement("rect",{x:0,y:0,width:h,height:o}))),t.createElement("g",{clipPath:`url(#${s})`,dangerouslySetInnerHTML:{__html:p.getSvg().innerHTML}}),t.createElement("g",{clipPath:"url(#msa)",transform:`translate(${c} 0)`,dangerouslySetInnerHTML:{__html:f.getSvg().innerHTML}}))}function gCe({model:e,children:r}){const{minimapHeight:n,treeAreaWidth:o}=e;return t.createElement(t.Fragment,null,t.createElement("g",{transform:`translate(${o} 0)`},t.createElement(fCe,{model:e})),t.createElement("g",{transform:`translate(0 ${n})`},r))}function 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o=document.createElement("canvas");o.width=t,o.height=r;return o.getContext("2d").drawImage(n,0,0),o}toDataURL(e,t,r,n,o,i){var a=(new XMLSerializer).serializeToString(e);if(document.documentMode){/xmlns="http:\/\/www\.w3\.org\/2000\/svg".+xmlns="http:\/\/www\.w3\.org\/2000\/svg/gi.test(a)&&(a=a.replace('xmlns="http://www.w3.org/2000/svg','xmlns:xlink="http://www.w3.org/1999/xlink'))}i||(i={});var l="data:image/svg+xml;charset=utf-8,"+encodeURIComponent(a);if("image/svg+xml"===n||!n)return i.async?Promise.resolve(l):l;if("image/jpeg"===n||"image/png"===n){if(!i.async)throw new Error("svgcanvas: options.async must be set to true if type is image/jpeg | image/png");return(async()=>{const e=await this.svg2canvas(l,t,r),i=e.toDataURL(n,o);return e.remove(),i})()}throw new Error("svgcanvas: Unknown type for toDataURL, please use image/jpeg | image/png | image/svg+xml.")}getImageData(e,t,r,n,o,i,a,l){if(l||(l={}),!l.async)throw new Error("svgcanvas: options.async must be set to true for 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package/dist/model.d.ts

@@ -8,7 +8,7 @@ import ClustalMSA from './parsers/ClustalMSA';
 import StockholmMSA from './parsers/StockholmMSA';
 import FastaMSA from './parsers/FastaMSA';
 import { InterProScanResults } from './launchInterProScan';
-interface Accession {
+export interface Accession {
     accession: string;
     name: string;
     description: string;
@@ -77,17 +77,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         locationType: "UriLocation";
         uri: string;
         internetAccountId: string | undefined;
-        /**
-         * #volatile
-         * a dummy variable that is incremented when ref changes so autorun for
-         * drawing canvas commands will run
-         */
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }> | undefined; /**
-         * #volatile
-         */
+        }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
         name: import("mobx-state-tree").ISimpleType<string>;
@@ -101,9 +94,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | import("mobx-state-tree").ModelInstanceType<{
         locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
-        localPath: import("mobx-state-tree").ISimpleType<string>; /**
-         * #action
-         */
+        localPath: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | ({
         locationType: "UriLocation";
         uri: string;
@@ -114,7 +105,9 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
-            authInfo: import("mobx-state-tree").IType<any, any, any>;
+            authInfo: import("mobx-state-tree").IType<any, any, any>; /**
+             * #action
+             */
         }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }>> & import("mobx-state-tree/dist/internal").NonEmptyObject)>, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     msaFilehandle: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISnapshotProcessor<import("mobx-state-tree").ITypeUnion<import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
@@ -137,17 +130,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         locationType: "UriLocation";
         uri: string;
         internetAccountId: string | undefined;
-        /**
-         * #volatile
-         * a dummy variable that is incremented when ref changes so autorun for
-         * drawing canvas commands will run
-         */
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }> | undefined; /**
-         * #volatile
-         */
+        }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
         name: import("mobx-state-tree").ISimpleType<string>;
@@ -161,9 +147,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | import("mobx-state-tree").ModelInstanceType<{
         locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
-        localPath: import("mobx-state-tree").ISimpleType<string>; /**
-         * #action
-         */
+        localPath: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | ({
         locationType: "UriLocation";
         uri: string;
@@ -174,7 +158,9 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
-            authInfo: import("mobx-state-tree").IType<any, any, any>;
+            authInfo: import("mobx-state-tree").IType<any, any, any>; /**
+             * #action
+             */
         }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }>> & import("mobx-state-tree/dist/internal").NonEmptyObject)>, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     treeMetadataFilehandle: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISnapshotProcessor<import("mobx-state-tree").ITypeUnion<import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
@@ -197,17 +183,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         locationType: "UriLocation";
         uri: string;
         internetAccountId: string | undefined;
-        /**
-         * #volatile
-         * a dummy variable that is incremented when ref changes so autorun for
-         * drawing canvas commands will run
-         */
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }> | undefined; /**
-         * #volatile
-         */
+        }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
         name: import("mobx-state-tree").ISimpleType<string>;
@@ -221,9 +200,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | import("mobx-state-tree").ModelInstanceType<{
         locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
-        localPath: import("mobx-state-tree").ISimpleType<string>; /**
-         * #action
-         */
+        localPath: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | ({
         locationType: "UriLocation";
         uri: string;
@@ -234,7 +211,9 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
-            authInfo: import("mobx-state-tree").IType<any, any, any>;
+            authInfo: import("mobx-state-tree").IType<any, any, any>; /**
+             * #action
+             */
         }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }>> & import("mobx-state-tree/dist/internal").NonEmptyObject)>, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     currentAlignment: import("mobx-state-tree").IType<number | undefined, number, number>;
@@ -791,17 +770,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         locationType: "UriLocation";
         uri: string;
         internetAccountId: string | undefined;
-        /**
-         * #volatile
-         * a dummy variable that is incremented when ref changes so autorun for
-         * drawing canvas commands will run
-         */
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }> | undefined; /**
-         * #volatile
-         */
+        }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
         name: import("mobx-state-tree").ISimpleType<string>;
@@ -814,17 +786,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         locationType: "UriLocation";
         uri: string;
         internetAccountId: string | undefined;
-        /**
-         * #volatile
-         * a dummy variable that is incremented when ref changes so autorun for
-         * drawing canvas commands will run
-         */
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }> | undefined; /**
-         * #volatile
-         */
+        }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
         name: import("mobx-state-tree").ISimpleType<string>;
@@ -837,17 +802,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         locationType: "UriLocation";
         uri: string;
         internetAccountId: string | undefined;
-        /**
-         * #volatile
-         * a dummy variable that is incremented when ref changes so autorun for
-         * drawing canvas commands will run
-         */
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }> | undefined; /**
-         * #volatile
-         */
+        }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
         name: import("mobx-state-tree").ISimpleType<string>;

package/dist/version.d.ts

@@ -1 +1 @@
-export declare const version = "3.1.8";
+export declare const version = "3.1.10";

package/dist/version.js

@@ -1,2 +1,2 @@
-export const version = '3.1.8';
+export const version = '3.1.10';
 //# sourceMappingURL=version.js.map

package/dist/version.js.map

@@ -1 +1 @@
-{"version":3,"file":"version.js","sourceRoot":"","sources":["../src/version.ts"],"names":[],"mappings":"AAAA,MAAM,CAAC,MAAM,OAAO,GAAG,OAAO,CAAA"}
+{"version":3,"file":"version.js","sourceRoot":"","sources":["../src/version.ts"],"names":[],"mappings":"AAAA,MAAM,CAAC,MAAM,OAAO,GAAG,QAAQ,CAAA"}

package/package.json

@@ -1,7 +1,7 @@
 {
   "name": "react-msaview",
   "author": "Colin",
-  "version": "3.1.8",
+  "version": "3.1.10",
   "license": "MIT",
   "main": "dist/index.js",
   "module": "dist/index.js",
@@ -37,10 +37,6 @@
     "react-dom": ">=16.8.0"
   },
   "dependencies": {
-    "@types/react": "^18.2.55",
-    "@types/react-dom": "^18.2.19",
-    "@typescript-eslint/eslint-plugin": "^7.1.0",
-    "@typescript-eslint/parser": "^7.1.0",
     "clustal-js": "^2.0.0",
     "colord": "^2.9.3",
     "copy-to-clipboard": "^3.3.1",
@@ -52,9 +48,6 @@
     "react-error-boundary": "^4.0.13",
     "rollup": "^4.9.1",
     "stockholm-js": "^1.0.10",
-    "svgcanvas": "^2.5.0",
-    "tss-react": "^4.8.3",
-    "typescript": "^5.3.3",
-    "vite": "^5.0.10"
+    "svgcanvas": "^2.5.0"
   }
 }

package/src/model.ts

@@ -58,7 +58,7 @@ import {
   loadInterProScanResults,
 } from './launchInterProScan'
 
-interface Accession {
+export interface Accession {
   accession: string
   name: string
   description: string

package/src/version.ts

@@ -1 +1 @@
-export const version = '3.1.8'
+export const version = '3.1.10'