react-msaview 8.2.0 → 8.4.0

package/dist/components/header/settingsMenuItems.js.map

@@ -1 +1 @@
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package/dist/components/import/ImportForm.js

@@ -1,24 +1,30 @@
 import React, { useState } from 'react';
 import { ErrorMessage, FileSelector } from '@jbrowse/core/ui';
-import { Button, Container, Typography } from '@mui/material';
+import { Box, Button, Container, Typography } from '@mui/material';
 import { observer } from 'mobx-react';
 import ImportFormExamples from './ImportFormExamples.js';
 import { load } from './util.js';
+const phone = '@media (max-width: 640px)';
 const ImportForm = observer(function ({ model }) {
     const [msaFile, setMsaFile] = useState();
     const [treeFile, setTreeFile] = useState();
     const [gffFile, setGffFile] = useState();
     const { error } = model;
     return (React.createElement(Container, null,
-        React.createElement("div", { style: { width: '50%' } },
+        React.createElement(Box, { sx: { width: '50%', [phone]: { width: '100%' } } },
             error ? React.createElement(ErrorMessage, { error: error }) : null,
             React.createElement(Typography, null, "Open an MSA file (FASTA, Stockholm, Clustal, A3M or EMF format) and/or a tree file (Newick format)."),
             React.createElement(Typography, { color: "text.secondary" }, "An MSA alone or a tree alone is enough, and a Stockholm file with an embedded tree needs no separate tree file.")),
-        React.createElement("div", { style: {
+        React.createElement(Box, { sx: {
                 display: 'flex',
                 justifyContent: 'center',
                 alignItems: 'center',
-                gap: 40,
+                gap: '40px',
+                [phone]: {
+                    flexDirection: 'column',
+                    alignItems: 'stretch',
+                    gap: '16px',
+                },
             } },
             React.createElement("div", null,
                 React.createElement("div", null,

package/dist/components/import/ImportForm.js.map

@@ -1 +1 @@
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+{"version":3,"file":"ImportForm.js","sourceRoot":"","sources":["../../../src/components/import/ImportForm.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEvC,OAAO,EAAE,YAAY,EAAE,YAAY,EAAE,MAAM,kBAAkB,CAAA;AAC7D,OAAO,EAAE,GAAG,EAAE,MAAM,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAClE,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,kBAAkB,MAAM,yBAA0B,CAAA;AACzD,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAA;AAKhC,MAAM,KAAK,GAAG,2BAA2B,CAAA;AAEzC,MAAM,UAAU,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACtE,MAAM,CAAC,OAAO,EAAE,UAAU,CAAC,GAAG,QAAQ,EAAgB,CAAA;IACtD,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,EAAgB,CAAA;IACxD,MAAM,CAAC,OAAO,EAAE,UAAU,CAAC,GAAG,QAAQ,EAAgB,CAAA;IACtD,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IAEvB,OAAO,CACL,oBAAC,SAAS;QACR,oBAAC,GAAG,IAAC,EAAE,EAAE,EAAE,KAAK,EAAE,KAAK,EAAE,CAAC,KAAK,CAAC,EAAE,EAAE,KAAK,EAAE,MAAM,EAAE,EAAE;YAClD,KAAK,CAAC,CAAC,CAAC,oBAAC,YAAY,IAAC,KAAK,EAAE,KAAK,GAAI,CAAC,CAAC,CAAC,IAAI;YAC9C,oBAAC,UAAU,8GAGE;YACb,oBAAC,UAAU,IAAC,KAAK,EAAC,gBAAgB,sHAGrB,CACT;QAEN,oBAAC,GAAG,IACF,EAAE,EAAE;gBACF,OAAO,EAAE,MAAM;gBACf,cAAc,EAAE,QAAQ;gBACxB,UAAU,EAAE,QAAQ;gBACpB,GAAG,EAAE,MAAM;gBACX,CAAC,KAAK,CAAC,EAAE;oBACP,aAAa,EAAE,QAAQ;oBACvB,UAAU,EAAE,SAAS;oBACrB,GAAG,EAAE,MAAM;iBACZ;aACF;YAED;gBACE;oBACE,oBAAC,UAAU,0BAA6B;oBACxC,oBAAC,YAAY,IAAC,QAAQ,EAAE,OAAO,EAAE,WAAW,EAAE,UAAU,GAAI,CACxD;gBACN;oBACE,oBAAC,UAAU,2BAA8B;oBACzC,oBAAC,YAAY,IAAC,QAAQ,EAAE,QAAQ,EAAE,WAAW,EAAE,WAAW,GAAI,CAC1D;gBACN;oBACE,oBAAC,UAAU,gDAAmD;oBAC9D,oBAAC,YAAY,IAAC,QAAQ,EAAE,OAAO,EAAE,WAAW,EAAE,UAAU,GAAI,CACxD,CACF;YACN;gBACE,oBAAC,MAAM,IACL,OAAO,EAAE,GAAG,EAAE;wBACZ,IAAI,CAAC;4BACH,IAAI,CAAC,KAAK,EAAE,OAAO,EAAE,QAAQ,EAAE,OAAO,CAAC,CAAA;wBACzC,CAAC;wBAAC,OAAO,CAAC,EAAE,CAAC;4BACX,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;4BAChB,KAAK,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;wBACnB,CAAC;oBACH,CAAC,EACD,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,QAAQ,EAAE,CAAC,OAAO,IAAI,CAAC,QAAQ,WAGxB,CACL;YAEN;gBACE,oBAAC,UAAU,mBAAsB;gBACjC,oBAAC,kBAAkB,IAAC,KAAK,EAAE,KAAK,GAAI,CAChC,CACF,CACI,CACb,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,UAAU,CAAA"}

package/dist/components/import/ImportFormExamples.js

@@ -1,48 +1,40 @@
 import React from 'react';
 import { Link, Typography } from '@mui/material';
 import { observer } from 'mobx-react';
-import { smallMSA, smallMSAOnly, smallTree } from './data/seq2.js';
+import { smallMSA, smallTree } from './data/seq2.js';
 import { load } from './util.js';
 const BASE = 'https://jbrowse.org/genomes/multiple_sequence_alignments';
 const TREES = 'https://jbrowse.org/genomes/newick_trees';
+const DEMO = 'https://gmod.org/JBrowseMSA/demo/data';
 const examples = [
     {
-        label: '230k COVID-19 samples (tree only)',
-        tree: `${TREES}/sarscov2phylo.pub.ft.nh`,
-    },
-    {
-        label: 'Small protein MSA+tree',
-        inline: { msa: smallMSA, tree: smallTree },
-    },
-    {
-        label: 'Small MSA only',
-        inline: { msa: smallMSAOnly },
-    },
-    {
-        label: 'PFAM SARS-CoV2 multi-stockholm with domains',
-        msa: `${BASE}/pfam-cov2.stock`,
-        gff: `${BASE}/pfam-cov2-domains.gff`,
+        label: 'NLRP1 in 12 mammals, with Pfam domains',
+        msa: `${DEMO}/nlrp1.aln`,
+        tree: `${DEMO}/nlrp1.nh`,
+        gff: `${DEMO}/nlrp1-domains.gff`,
     },
     {
-        label: 'Lysine stockholm file',
-        msa: `${BASE}/Lysine.stock`,
+        label: '474 human protein kinase domains, with a FastTree tree',
+        msa: `${DEMO}/kinase-pocket/kinase-pocket.afa`,
+        tree: `${DEMO}/kinase-pocket/kinase-pocket.nwk`,
     },
     {
-        label: 'PF01601 stockholm file (SARS-CoV2 spike protein)',
-        msa: `${BASE}/PF01601_full.txt`,
+        label: 'RSV-A G gene in 1,840 genomes, with the Nextstrain tree',
+        msa: `${DEMO}/scale/rsv-full.aln`,
+        tree: `${DEMO}/scale/rsv-full.nh`,
     },
     {
-        label: 'Europe COVID full genomes (LR883044.1 and 199 other sequences)',
-        msa: `${BASE}/europe_covid.fa`,
+        label: '230k COVID-19 samples (tree only)',
+        tree: `${TREES}/sarscov2phylo.pub.ft.nh`,
     },
     {
-        label: 'MAFFT+VeryFastTree(17.9k samples)',
-        msa: `${BASE}/rhv_test-only.aligned_with_mafft_auto.fa`,
-        tree: `${BASE}/rhv_test-only.aligned_with_mafft_auto.nh`,
+        label: 'Pfam SARS-CoV-2 families, multi-Stockholm with domains',
+        msa: `${BASE}/pfam-cov2.stock`,
+        gff: `${BASE}/pfam-cov2-domains.gff`,
     },
     {
-        label: 'Human BLAST results mfa',
-        msa: 'https://jbrowse.org/demos/ttc39a.mfa',
+        label: 'Small protein alignment and tree',
+        inline: { msa: smallMSA, tree: smallTree },
     },
 ];
 function uri(url) {

package/dist/components/import/ImportFormExamples.js.map

@@ -1 +1 @@
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+{"version":3,"file":"ImportFormExamples.js","sourceRoot":"","sources":["../../../src/components/import/ImportFormExamples.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,IAAI,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAChD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,QAAQ,EAAE,SAAS,EAAE,MAAM,gBAAgB,CAAA;AACpD,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAA;AAIhC,MAAM,IAAI,GAAG,0DAA0D,CAAA;AACvE,MAAM,KAAK,GAAG,0CAA0C,CAAA;AACxD,MAAM,IAAI,GAAG,uCAAuC,CAAA;AAYpD,MAAM,QAAQ,GAAc;IAC1B;QACE,KAAK,EAAE,wCAAwC;QAC/C,GAAG,EAAE,GAAG,IAAI,YAAY;QACxB,IAAI,EAAE,GAAG,IAAI,WAAW;QACxB,GAAG,EAAE,GAAG,IAAI,oBAAoB;KACjC;IACD;QACE,KAAK,EAAE,wDAAwD;QAC/D,GAAG,EAAE,GAAG,IAAI,kCAAkC;QAC9C,IAAI,EAAE,GAAG,IAAI,kCAAkC;KAChD;IACD;QACE,KAAK,EAAE,yDAAyD;QAChE,GAAG,EAAE,GAAG,IAAI,qBAAqB;QACjC,IAAI,EAAE,GAAG,IAAI,oBAAoB;KAClC;IACD;QACE,KAAK,EAAE,mCAAmC;QAC1C,IAAI,EAAE,GAAG,KAAK,0BAA0B;KACzC;IACD;QACE,KAAK,EAAE,wDAAwD;QAC/D,GAAG,EAAE,GAAG,IAAI,kBAAkB;QAC9B,GAAG,EAAE,GAAG,IAAI,wBAAwB;KACrC;IACD;QACE,KAAK,EAAE,kCAAkC;QACzC,MAAM,EAAE,EAAE,GAAG,EAAE,QAAQ,EAAE,IAAI,EAAE,SAAS,EAAE;KAC3C;CACF,CAAA;AAED,SAAS,GAAG,CAAC,GAAY;IACvB,OAAO,GAAG,CAAC,CAAC,CAAC,EAAE,GAAG,EAAE,GAAG,EAAE,YAAY,EAAE,aAAsB,EAAE,CAAC,CAAC,CAAC,SAAS,CAAA;AAC7E,CAAC;AAED,MAAM,kBAAkB,GAAG,QAAQ,CAAC,UAAU,EAC5C,KAAK,GAGN;IACC,OAAO,CACL,gCACG,QAAQ,CAAC,GAAG,CAAC,CAAC,EAAE,KAAK,EAAE,GAAG,EAAE,IAAI,EAAE,GAAG,EAAE,MAAM,EAAE,EAAE,EAAE,CAAC,CACnD,4BAAI,GAAG,EAAE,KAAK;QACZ,oBAAC,IAAI,IACH,IAAI,EAAC,GAAG,EACR,OAAO,EAAE,KAAK,CAAC,EAAE;gBACf,KAAK,CAAC,cAAc,EAAE,CAAA;gBACtB,KAAK,CAAC,QAAQ,CAAC,SAAS,CAAC,CAAA;gBACzB,IAAI,CAAC;oBACH,IAAI,MAAM,EAAE,CAAC;wBACX,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,CAAA;oBACvB,CAAC;yBAAM,CAAC;wBACN,IAAI,CAAC,KAAK,EAAE,GAAG,CAAC,GAAG,CAAC,EAAE,GAAG,CAAC,IAAI,CAAC,EAAE,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA;oBAC5C,CAAC;gBACH,CAAC;gBAAC,OAAO,CAAC,EAAE,CAAC;oBACX,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;oBAChB,KAAK,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;gBACnB,CAAC;YACH,CAAC;YAED,oBAAC,UAAU,IAAC,SAAS,EAAC,MAAM,IAAE,KAAK,CAAc,CAC5C,CACJ,CACN,CAAC,CACC,CACN,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,kBAAkB,CAAA"}

package/dist/components/minimap/Minimap.js

@@ -39,7 +39,12 @@ const Minimap = observer(function ({ model }) {
             width: msaCanvasWidth,
             flexShrink: 0,
         } },
-        React.createElement("canvas", { ref: ref, width: barWidth, height: barHeight, style: {
+        React.createElement("canvas", { ref: ref, width: barWidth, height: barHeight, onMouseDown: event => {
+                if (event.button === 0 && unit > 0) {
+                    const x = event.clientX - event.currentTarget.getBoundingClientRect().left;
+                    model.setScrollX(-x / unit + msaCanvasWidth / 2);
+                }
+            }, style: {
                 display: 'block',
                 width: msaCanvasWidth,
                 height: MINIMAP_BAR_HEIGHT,

package/dist/components/minimap/Minimap.js.map

@@ -1 +1 @@
-{"version":3,"file":"Minimap.js","sourceRoot":"","sources":["../../../src/components/minimap/Minimap.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,WAAW,EAAE,MAAM,OAAO,CAAA;AAE1C,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACxC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,gBAAgB,EAAE,MAAM,2BAA2B,CAAA;AAC5D,OAAO,UAAU,EAAE,EAAE,kBAAkB,EAAE,MAAM,kBAAmB,CAAA;AAClE,OAAO,EAAE,YAAY,EAAE,MAAM,qBAAqB,CAAA;AAClD,OAAO,EAAE,kBAAkB,EAAE,gBAAgB,EAAE,MAAM,oBAAoB,CAAA;AAIzE,MAAM,OAAO,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACnE,MAAM,EAAE,aAAa,EAAE,cAAc,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IACnE,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,EAAE,IAAI,EAAE,CAAC,EAAE,CAAC,EAAE,aAAa,EAAE,aAAa,EAAE,GAAG,gBAAgB,CAAC,KAAK,CAAC,CAAA;IAE5E,+CAA+C;IAC/C,MAAM,QAAQ,GAAG,IAAI,CAAC,KAAK,CAAC,cAAc,GAAG,kBAAkB,CAAC,CAAA;IAChE,MAAM,SAAS,GAAG,IAAI,CAAC,KAAK,CAAC,kBAAkB,GAAG,kBAAkB,CAAC,CAAA;IACrE,MAAM,GAAG,GAAG,gBAAgB,CAAC;QAC3B,IAAI,EAAE,GAAG,CAAC,EAAE;YACV,GAAG,CAAC,cAAc,EAAE,CAAA;YACpB,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,QAAQ,EAAE,SAAS,CAAC,CAAA;YACxC,MAAM,SAAS,GAAG,YAAY,CAAC;gBAC7B,KAAK;gBACL,KAAK;gBACL,MAAM,EAAE,kBAAkB;aAC3B,CAAC,CAAA;YACF,IAAI,SAAS,EAAE,CAAC;gBACd,GAAG,CAAC,qBAAqB,GAAG,IAAI,CAAA;gBAChC,GAAG,CAAC,SAAS,CACX,SAAS,EACT,CAAC,EACD,CAAC,EACD,SAAS,CAAC,KAAK,EACf,SAAS,CAAC,MAAM,EAChB,CAAC,EACD,CAAC,EACD,QAAQ,EACR,SAAS,CACV,CAAA;YACH,CAAC;QACH,CAAC;QACD,KAAK,EAAE,QAAQ;QACf,MAAM,EAAE,SAAS;QACjB,IAAI,EAAE,CAAC,KAAK,EAAE,KAAK,CAAC;KACrB,CAAC,CAAA;IAEF,MAAM,MAAM,GAAG,WAAW,CACxB,CAAC,KAAa,EAAE,WAAmB,EAAE,EAAE;QACrC,KAAK,CAAC,UAAU,CAAC,WAAW,GAAG,KAAK,GAAG,IAAI,CAAC,CAAA;IAC9C,CAAC,EACD,CAAC,KAAK,EAAE,IAAI,CAAC,CACd,CAAA;IAED,OAAO,CAIL,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,MAAM,EAAE,aAAa;YACrB,KAAK,EAAE,cAAc;YACrB,UAAU,EAAE,CAAC;SACd;QAED,gCACE,GAAG,EAAE,GAAG,EACR,KAAK,EAAE,QAAQ,EACf,MAAM,EAAE,SAAS,EACjB,KAAK,EAAE;gBACL,OAAO,EAAE,OAAO;gBAChB,KAAK,EAAE,cAAc;gBACrB,MAAM,EAAE,kBAAkB;gBAC1B,SAAS,EAAE,YAAY;gBACvB,MAAM,EAAE,aAAa,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,SAAS,EAAE;aACpD,GACD;QACF,oBAAC,UAAU,IACT,IAAI,EAAC,GAAG,EACR,OAAO,EAAC,OAAO,EACf,QAAQ,EAAE,GAAG,EAAE,CAAC,KAAK,CAAC,OAAO,EAC7B,MAAM,EAAE,MAAM,EACd,KAAK,EAAE;gBACL,GAAG,EAAE,CAAC;gBACN,IAAI,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC;gBACpB,MAAM,EAAE,kBAAkB;gBAC1B,KAAK,EAAE,CAAC;aACT,GACD;QAEF,6BAAK,MAAM,EAAE,aAAa,EAAE,KAAK,EAAE,cAAc;YAC/C,iCAAS,IAAI,EAAE,kBAAkB,EAAE,MAAM,EAAE,aAAa,GAAI,CACxD,CACF,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,OAAO,CAAA"}
+{"version":3,"file":"Minimap.js","sourceRoot":"","sources":["../../../src/components/minimap/Minimap.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,WAAW,EAAE,MAAM,OAAO,CAAA;AAE1C,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACxC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,gBAAgB,EAAE,MAAM,2BAA2B,CAAA;AAC5D,OAAO,UAAU,EAAE,EAAE,kBAAkB,EAAE,MAAM,kBAAmB,CAAA;AAClE,OAAO,EAAE,YAAY,EAAE,MAAM,qBAAqB,CAAA;AAClD,OAAO,EAAE,kBAAkB,EAAE,gBAAgB,EAAE,MAAM,oBAAoB,CAAA;AAIzE,MAAM,OAAO,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACnE,MAAM,EAAE,aAAa,EAAE,cAAc,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IACnE,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,EAAE,IAAI,EAAE,CAAC,EAAE,CAAC,EAAE,aAAa,EAAE,aAAa,EAAE,GAAG,gBAAgB,CAAC,KAAK,CAAC,CAAA;IAE5E,+CAA+C;IAC/C,MAAM,QAAQ,GAAG,IAAI,CAAC,KAAK,CAAC,cAAc,GAAG,kBAAkB,CAAC,CAAA;IAChE,MAAM,SAAS,GAAG,IAAI,CAAC,KAAK,CAAC,kBAAkB,GAAG,kBAAkB,CAAC,CAAA;IACrE,MAAM,GAAG,GAAG,gBAAgB,CAAC;QAC3B,IAAI,EAAE,GAAG,CAAC,EAAE;YACV,GAAG,CAAC,cAAc,EAAE,CAAA;YACpB,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,QAAQ,EAAE,SAAS,CAAC,CAAA;YACxC,MAAM,SAAS,GAAG,YAAY,CAAC;gBAC7B,KAAK;gBACL,KAAK;gBACL,MAAM,EAAE,kBAAkB;aAC3B,CAAC,CAAA;YACF,IAAI,SAAS,EAAE,CAAC;gBACd,GAAG,CAAC,qBAAqB,GAAG,IAAI,CAAA;gBAChC,GAAG,CAAC,SAAS,CACX,SAAS,EACT,CAAC,EACD,CAAC,EACD,SAAS,CAAC,KAAK,EACf,SAAS,CAAC,MAAM,EAChB,CAAC,EACD,CAAC,EACD,QAAQ,EACR,SAAS,CACV,CAAA;YACH,CAAC;QACH,CAAC;QACD,KAAK,EAAE,QAAQ;QACf,MAAM,EAAE,SAAS;QACjB,IAAI,EAAE,CAAC,KAAK,EAAE,KAAK,CAAC;KACrB,CAAC,CAAA;IAEF,MAAM,MAAM,GAAG,WAAW,CACxB,CAAC,KAAa,EAAE,WAAmB,EAAE,EAAE;QACrC,KAAK,CAAC,UAAU,CAAC,WAAW,GAAG,KAAK,GAAG,IAAI,CAAC,CAAA;IAC9C,CAAC,EACD,CAAC,KAAK,EAAE,IAAI,CAAC,CACd,CAAA;IAED,OAAO,CAIL,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,MAAM,EAAE,aAAa;YACrB,KAAK,EAAE,cAAc;YACrB,UAAU,EAAE,CAAC;SACd;QAED,gCACE,GAAG,EAAE,GAAG,EACR,KAAK,EAAE,QAAQ,EACf,MAAM,EAAE,SAAS,EACjB,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,IAAI,KAAK,CAAC,MAAM,KAAK,CAAC,IAAI,IAAI,GAAG,CAAC,EAAE,CAAC;oBACnC,MAAM,CAAC,GACL,KAAK,CAAC,OAAO,GAAG,KAAK,CAAC,aAAa,CAAC,qBAAqB,EAAE,CAAC,IAAI,CAAA;oBAClE,KAAK,CAAC,UAAU,CAAC,CAAC,CAAC,GAAG,IAAI,GAAG,cAAc,GAAG,CAAC,CAAC,CAAA;gBAClD,CAAC;YACH,CAAC,EACD,KAAK,EAAE;gBACL,OAAO,EAAE,OAAO;gBAChB,KAAK,EAAE,cAAc;gBACrB,MAAM,EAAE,kBAAkB;gBAC1B,SAAS,EAAE,YAAY;gBACvB,MAAM,EAAE,aAAa,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,SAAS,EAAE;aACpD,GACD;QACF,oBAAC,UAAU,IACT,IAAI,EAAC,GAAG,EACR,OAAO,EAAC,OAAO,EACf,QAAQ,EAAE,GAAG,EAAE,CAAC,KAAK,CAAC,OAAO,EAC7B,MAAM,EAAE,MAAM,EACd,KAAK,EAAE;gBACL,GAAG,EAAE,CAAC;gBACN,IAAI,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC;gBACpB,MAAM,EAAE,kBAAkB;gBAC1B,KAAK,EAAE,CAAC;aACT,GACD;QAEF,6BAAK,MAAM,EAAE,aAAa,EAAE,KAAK,EAAE,cAAc;YAC/C,iCAAS,IAAI,EAAE,kBAAkB,EAAE,MAAM,EAAE,aAAa,GAAI,CACxD,CACF,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,OAAO,CAAA"}

package/dist/components/msa/AnnotationLegend.js

@@ -19,10 +19,13 @@ const AnnotationLegend = observer(function ({ model, }) {
             display: 'flex',
             flexDirection: 'column',
             opacity: 0.95,
+            pointerEvents: 'none',
         } },
-        React.createElement(IconButton, { size: "small", title: expanded ? 'Collapse key' : 'Expand key', style: expanded
-                ? { position: 'absolute', top: 0, right: 0, padding: 1 }
-                : { padding: 1 }, onClick: () => {
+        React.createElement(IconButton, { size: "small", title: expanded ? 'Collapse key' : 'Expand key', style: {
+                padding: 1,
+                pointerEvents: 'auto',
+                ...(expanded && { position: 'absolute', top: 0, right: 0 }),
+            }, onClick: () => {
                 model.setShowDomainLegend(!expanded);
             } },
             React.createElement(ExpandIcon, { style: { fontSize: 14 } })),
@@ -31,17 +34,20 @@ const AnnotationLegend = observer(function ({ model, }) {
                 alignItems: 'center',
                 gap: 4,
                 marginRight: i === 0 ? 18 : 0,
-            }, title: row.hint },
+            } },
             row.color ? (React.createElement("div", { style: {
                     width: 9,
                     height: 9,
                     flexShrink: 0,
                     background: row.color,
                 } })) : null,
-            React.createElement(Typography, { variant: "caption", noWrap: true, style: {
+            React.createElement(Typography, { variant: "caption", noWrap: true, title: row.hint && row.hint !== row.label
+                    ? `${row.label} (${row.hint})`
+                    : row.label, style: {
                     fontSize: 10,
                     lineHeight: 1.4,
                     fontWeight: row.color ? undefined : 'bold',
+                    pointerEvents: 'auto',
                 } }, row.label)))))) : null)) : null;
 });
 export default AnnotationLegend;

package/dist/components/msa/AnnotationLegend.js.map

@@ -1 +1 @@
-{"version":3,"file":"AnnotationLegend.js","sourceRoot":"","sources":["../../../src/components/msa/AnnotationLegend.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,EAAE,UAAU,EAAE,KAAK,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC7D,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,YAAY,EAAE,MAAM,oBAAoB,CAAA;AACjD,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAA;AAI5C,MAAM,gBAAgB,GAAG,QAAQ,CAAC,UAAU,EAC1C,KAAK,GAGN;IACC,MAAM,EAAE,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;IACrD,MAAM,IAAI,GAAG,UAAU,CAAC,OAAO,CAAC,CAAA;IAChC,MAAM,UAAU,GAAG,QAAQ,CAAC,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC,UAAU,CAAA;IAErD,OAAO,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,CACvB,oBAAC,KAAK,IACJ,SAAS,EAAE,CAAC,EACZ,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,GAAG,EAAE,CAAC;YACN,KAAK,EAAE,CAAC;YACR,MAAM,EAAE,YAAY;YACpB,QAAQ,EAAE,GAAG;YACb,SAAS,EAAE,KAAK;YAChB,OAAO,EAAE,MAAM;YACf,aAAa,EAAE,QAAQ;YACvB,OAAO,EAAE,IAAI;SACd;QAED,oBAAC,UAAU,IACT,IAAI,EAAC,OAAO,EACZ,KAAK,EAAE,QAAQ,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,YAAY,EAC/C,KAAK,EACH,QAAQ;gBACN,CAAC,CAAC,EAAE,QAAQ,EAAE,UAAU,EAAE,GAAG,EAAE,CAAC,EAAE,KAAK,EAAE,CAAC,EAAE,OAAO,EAAE,CAAC,EAAE;gBACxD,CAAC,CAAC,EAAE,OAAO,EAAE,CAAC,EAAE,EAEpB,OAAO,EAAE,GAAG,EAAE;gBACZ,KAAK,CAAC,mBAAmB,CAAC,CAAC,QAAQ,CAAC,CAAA;YACtC,CAAC;YAED,oBAAC,UAAU,IAAC,KAAK,EAAE,EAAE,QAAQ,EAAE,EAAE,EAAE,GAAI,CAC5B;QACZ,QAAQ,CAAC,CAAC,CAAC,CACV,6BAAK,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,EAAE,OAAO,EAAE,aAAa,EAAE,IACrD,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC,CACpB,6BACE,GAAG,EAAE,GAAG,CAAC,GAAG,EACZ,KAAK,EAAE;gBACL,OAAO,EAAE,MAAM;gBACf,UAAU,EAAE,QAAQ;gBACpB,GAAG,EAAE,CAAC;gBACN,WAAW,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC;aAC9B,EACD,KAAK,EAAE,GAAG,CAAC,IAAI;YAEd,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC,CACX,6BACE,KAAK,EAAE;oBACL,KAAK,EAAE,CAAC;oBACR,MAAM,EAAE,CAAC;oBACT,UAAU,EAAE,CAAC;oBACb,UAAU,EAAE,GAAG,CAAC,KAAK;iBACtB,GACD,CACH,CAAC,CAAC,CAAC,IAAI;YACR,oBAAC,UAAU,IACT,OAAO,EAAC,SAAS,EACjB,MAAM,QACN,KAAK,EAAE;oBACL,QAAQ,EAAE,EAAE;oBACZ,UAAU,EAAE,GAAG;oBACf,UAAU,EAAE,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,MAAM;iBAC3C,IAEA,GAAG,CAAC,KAAK,CACC,CACT,CACP,CAAC,CACE,CACP,CAAC,CAAC,CAAC,IAAI,CACF,CACT,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CAAC,CAAA;AAEF,eAAe,gBAAgB,CAAA"}
+{"version":3,"file":"AnnotationLegend.js","sourceRoot":"","sources":["../../../src/components/msa/AnnotationLegend.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,EAAE,UAAU,EAAE,KAAK,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC7D,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,YAAY,EAAE,MAAM,oBAAoB,CAAA;AACjD,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAA;AAI5C,MAAM,gBAAgB,GAAG,QAAQ,CAAC,UAAU,EAC1C,KAAK,GAGN;IACC,MAAM,EAAE,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;IACrD,MAAM,IAAI,GAAG,UAAU,CAAC,OAAO,CAAC,CAAA;IAChC,MAAM,UAAU,GAAG,QAAQ,CAAC,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC,UAAU,CAAA;IAErD,OAAO,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,CACvB,oBAAC,KAAK,IACJ,SAAS,EAAE,CAAC,EACZ,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,GAAG,EAAE,CAAC;YACN,KAAK,EAAE,CAAC;YACR,MAAM,EAAE,YAAY;YACpB,QAAQ,EAAE,GAAG;YACb,SAAS,EAAE,KAAK;YAChB,OAAO,EAAE,MAAM;YACf,aAAa,EAAE,QAAQ;YACvB,OAAO,EAAE,IAAI;YACb,aAAa,EAAE,MAAM;SACtB;QAED,oBAAC,UAAU,IACT,IAAI,EAAC,OAAO,EACZ,KAAK,EAAE,QAAQ,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,YAAY,EAC/C,KAAK,EAAE;gBACL,OAAO,EAAE,CAAC;gBACV,aAAa,EAAE,MAAM;gBACrB,GAAG,CAAC,QAAQ,IAAI,EAAE,QAAQ,EAAE,UAAU,EAAE,GAAG,EAAE,CAAC,EAAE,KAAK,EAAE,CAAC,EAAE,CAAC;aAC5D,EACD,OAAO,EAAE,GAAG,EAAE;gBACZ,KAAK,CAAC,mBAAmB,CAAC,CAAC,QAAQ,CAAC,CAAA;YACtC,CAAC;YAED,oBAAC,UAAU,IAAC,KAAK,EAAE,EAAE,QAAQ,EAAE,EAAE,EAAE,GAAI,CAC5B;QACZ,QAAQ,CAAC,CAAC,CAAC,CACV,6BAAK,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,EAAE,OAAO,EAAE,aAAa,EAAE,IACrD,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC,CACpB,6BACE,GAAG,EAAE,GAAG,CAAC,GAAG,EACZ,KAAK,EAAE;gBACL,OAAO,EAAE,MAAM;gBACf,UAAU,EAAE,QAAQ;gBACpB,GAAG,EAAE,CAAC;gBACN,WAAW,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC;aAC9B;YAEA,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC,CACX,6BACE,KAAK,EAAE;oBACL,KAAK,EAAE,CAAC;oBACR,MAAM,EAAE,CAAC;oBACT,UAAU,EAAE,CAAC;oBACb,UAAU,EAAE,GAAG,CAAC,KAAK;iBACtB,GACD,CACH,CAAC,CAAC,CAAC,IAAI;YACR,oBAAC,UAAU,IACT,OAAO,EAAC,SAAS,EACjB,MAAM,QACN,KAAK,EACH,GAAG,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,KAAK,GAAG,CAAC,KAAK;oBAChC,CAAC,CAAC,GAAG,GAAG,CAAC,KAAK,KAAK,GAAG,CAAC,IAAI,GAAG;oBAC9B,CAAC,CAAC,GAAG,CAAC,KAAK,EAEf,KAAK,EAAE;oBACL,QAAQ,EAAE,EAAE;oBACZ,UAAU,EAAE,GAAG;oBACf,UAAU,EAAE,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,MAAM;oBAC1C,aAAa,EAAE,MAAM;iBACtB,IAEA,GAAG,CAAC,KAAK,CACC,CACT,CACP,CAAC,CACE,CACP,CAAC,CAAC,CAAC,IAAI,CACF,CACT,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CAAC,CAAA;AAEF,eAAe,gBAAgB,CAAA"}

package/dist/components/msa/MSACanvas.js

@@ -3,6 +3,7 @@ import { observer } from 'mobx-react';
 import { useWheelScroll } from '../../useWheelScroll.js';
 import Loading from './Loading.js';
 import MSACanvasBlock from './MSACanvasBlock.js';
+import { onMsaKey } from './msaKeys.js';
 const MSACanvas = observer(function ({ model }) {
     const { MSA, msaFilehandle, height, msaCanvasWidth, blocks2d, scrollZoom, scrollX, scrollY, } = model;
     const ref = useRef(null);
@@ -22,7 +23,22 @@ const MSACanvas = observer(function ({ model }) {
         onZoom,
         scrollZoom,
     });
-    return (React.createElement("div", { ref: ref, "data-testid": "msa_canvas", onMouseDown: onMouseDown, onMouseUp: onMouseUp, style: {
+    return (React.createElement("div", { ref: ref, "data-testid": "msa_canvas", tabIndex: 0, "aria-label": "Alignment. Arrow keys scroll, shift pages, + and - zoom, Home and End jump to the first and last column. Shift-drag selects cells, and Escape clears the selection.", onKeyDown: event => {
+            if (onMsaKey(model, event)) {
+                event.preventDefault();
+            }
+        }, onMouseDown: event => {
+            // a shifted press selects cells (useMsaBlockMouse), so it takes the
+            // focus Escape clears from, and leaves out the pan and the page's own
+            // text selection
+            if (event.shiftKey) {
+                event.preventDefault();
+                ref.current?.focus({ preventScroll: true });
+            }
+            else {
+                onMouseDown(event);
+            }
+        }, onMouseUp: onMouseUp, style: {
             position: 'relative',
             height,
             width: msaCanvasWidth,

package/dist/components/msa/MSACanvas.js.map

@@ -1 +1 @@
-{"version":3,"file":"MSACanvas.js","sourceRoot":"","sources":["../../../src/components/msa/MSACanvas.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,WAAW,EAAE,MAAM,EAAE,MAAM,OAAO,CAAA;AAElD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,cAAc,EAAE,MAAM,yBAAyB,CAAA;AACxD,OAAO,OAAO,MAAM,cAAe,CAAA;AACnC,OAAO,cAAc,MAAM,qBAAsB,CAAA;AAIjD,MAAM,SAAS,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACrE,MAAM,EACJ,GAAG,EACH,aAAa,EACb,MAAM,EACN,cAAc,EACd,QAAQ,EACR,UAAU,EACV,OAAO,EACP,OAAO,GACR,GAAG,KAAK,CAAA;IACT,MAAM,GAAG,GAAG,MAAM,CAAiB,IAAI,CAAC,CAAA;IACxC,MAAM,SAAS,GAAG,WAAW,CAC3B,CAAC,CAAS,EAAE,EAAE;QACZ,KAAK,CAAC,SAAS,CAAC,CAAC,CAAC,CAAA;IACpB,CAAC,EACD,CAAC,KAAK,CAAC,CACR,CAAA;IACD,MAAM,SAAS,GAAG,WAAW,CAC3B,CAAC,CAAS,EAAE,EAAE;QACZ,KAAK,CAAC,SAAS,CAAC,CAAC,CAAC,CAAA;IACpB,CAAC,EACD,CAAC,KAAK,CAAC,CACR,CAAA;IACD,MAAM,MAAM,GAAG,WAAW,CACxB,CAAC,WAAmB,EAAE,OAAe,EAAE,OAAe,EAAE,EAAE;QACxD,KAAK,CAAC,SAAS,CAAC,WAAW,EAAE,OAAO,EAAE,OAAO,EAAE,KAAK,CAAC,aAAa,CAAC,CAAA;IACrE,CAAC,EACD,CAAC,KAAK,CAAC,CACR,CAAA;IACD,MAAM,EAAE,WAAW,EAAE,SAAS,EAAE,GAAG,cAAc,CAAC;QAChD,GAAG;QACH,SAAS;QACT,SAAS;QACT,MAAM;QACN,UAAU;KACX,CAAC,CAAA;IAEF,OAAO,CACL,6BACE,GAAG,EAAE,GAAG,iBAGI,YAAY,EACxB,WAAW,EAAE,WAAW,EACxB,SAAS,EAAE,SAAS,EACpB,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,MAAM;YACN,KAAK,EAAE,cAAc;YACrB,QAAQ,EAAE,QAAQ;SACnB,IAEA,CAAC,GAAG,IAAI,CAAC,aAAa,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAGrC,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,GAAG,EAAE,CAAC;YACN,IAAI,EAAE,CAAC;YACP,SAAS,EAAE,aAAa,OAAO,OAAO,OAAO,KAAK;YAClD,UAAU,EAAE,WAAW;SACxB,IAEA,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,CAC1B,oBAAC,cAAc,IACb,GAAG,EAAE,GAAG,EAAE,IAAI,EAAE,EAAE,EAClB,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,EAAE,EACX,OAAO,EAAE,EAAE,GACX,CACH,CAAC,CACE,CACP,CAAC,CAAC,CAAC,CACF,oBAAC,OAAO,OAAG,CACZ,CACG,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,SAAS,CAAA"}
+{"version":3,"file":"MSACanvas.js","sourceRoot":"","sources":["../../../src/components/msa/MSACanvas.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,WAAW,EAAE,MAAM,EAAE,MAAM,OAAO,CAAA;AAElD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,cAAc,EAAE,MAAM,yBAAyB,CAAA;AACxD,OAAO,OAAO,MAAM,cAAe,CAAA;AACnC,OAAO,cAAc,MAAM,qBAAsB,CAAA;AACjD,OAAO,EAAE,QAAQ,EAAE,MAAM,cAAc,CAAA;AAIvC,MAAM,SAAS,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACrE,MAAM,EACJ,GAAG,EACH,aAAa,EACb,MAAM,EACN,cAAc,EACd,QAAQ,EACR,UAAU,EACV,OAAO,EACP,OAAO,GACR,GAAG,KAAK,CAAA;IACT,MAAM,GAAG,GAAG,MAAM,CAAiB,IAAI,CAAC,CAAA;IACxC,MAAM,SAAS,GAAG,WAAW,CAC3B,CAAC,CAAS,EAAE,EAAE;QACZ,KAAK,CAAC,SAAS,CAAC,CAAC,CAAC,CAAA;IACpB,CAAC,EACD,CAAC,KAAK,CAAC,CACR,CAAA;IACD,MAAM,SAAS,GAAG,WAAW,CAC3B,CAAC,CAAS,EAAE,EAAE;QACZ,KAAK,CAAC,SAAS,CAAC,CAAC,CAAC,CAAA;IACpB,CAAC,EACD,CAAC,KAAK,CAAC,CACR,CAAA;IACD,MAAM,MAAM,GAAG,WAAW,CACxB,CAAC,WAAmB,EAAE,OAAe,EAAE,OAAe,EAAE,EAAE;QACxD,KAAK,CAAC,SAAS,CAAC,WAAW,EAAE,OAAO,EAAE,OAAO,EAAE,KAAK,CAAC,aAAa,CAAC,CAAA;IACrE,CAAC,EACD,CAAC,KAAK,CAAC,CACR,CAAA;IACD,MAAM,EAAE,WAAW,EAAE,SAAS,EAAE,GAAG,cAAc,CAAC;QAChD,GAAG;QACH,SAAS;QACT,SAAS;QACT,MAAM;QACN,UAAU;KACX,CAAC,CAAA;IAEF,OAAO,CACL,6BACE,GAAG,EAAE,GAAG,iBAGI,YAAY,EACxB,QAAQ,EAAE,CAAC,gBACA,qKAAqK,EAChL,SAAS,EAAE,KAAK,CAAC,EAAE;YACjB,IAAI,QAAQ,CAAC,KAAK,EAAE,KAAK,CAAC,EAAE,CAAC;gBAC3B,KAAK,CAAC,cAAc,EAAE,CAAA;YACxB,CAAC;QACH,CAAC,EACD,WAAW,EAAE,KAAK,CAAC,EAAE;YACnB,oEAAoE;YACpE,sEAAsE;YACtE,iBAAiB;YACjB,IAAI,KAAK,CAAC,QAAQ,EAAE,CAAC;gBACnB,KAAK,CAAC,cAAc,EAAE,CAAA;gBACtB,GAAG,CAAC,OAAO,EAAE,KAAK,CAAC,EAAE,aAAa,EAAE,IAAI,EAAE,CAAC,CAAA;YAC7C,CAAC;iBAAM,CAAC;gBACN,WAAW,CAAC,KAAK,CAAC,CAAA;YACpB,CAAC;QACH,CAAC,EACD,SAAS,EAAE,SAAS,EACpB,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,MAAM;YACN,KAAK,EAAE,cAAc;YACrB,QAAQ,EAAE,QAAQ;SACnB,IAEA,CAAC,GAAG,IAAI,CAAC,aAAa,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAGrC,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,GAAG,EAAE,CAAC;YACN,IAAI,EAAE,CAAC;YACP,SAAS,EAAE,aAAa,OAAO,OAAO,OAAO,KAAK;YAClD,UAAU,EAAE,WAAW;SACxB,IAEA,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,CAC1B,oBAAC,cAAc,IACb,GAAG,EAAE,GAAG,EAAE,IAAI,EAAE,EAAE,EAClB,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,EAAE,EACX,OAAO,EAAE,EAAE,GACX,CACH,CAAC,CACE,CACP,CAAC,CAAC,CAAC,CACF,oBAAC,OAAO,OAAG,CACZ,CACG,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,SAAS,CAAA"}

package/dist/components/msa/MSACanvasBlock.js

@@ -10,11 +10,7 @@ import { useMsaBlockMouse } from './useMsaBlockMouse.js';
 const MSACanvasBlock = observer(function ({ model, offsetX, offsetY, }) {
     const { blockSize, highResScaleFactor } = model;
     const theme = useTheme();
-    const { tooltipPoint, onMouseMove, onClick, onMouseLeave } = useMsaBlockMouse({
-        model,
-        offsetX,
-        offsetY,
-    });
+    const { anchor, onMouseMove, onMouseDown, onClick, onMouseLeave } = useMsaBlockMouse({ model, offsetX, offsetY });
     const canvasSize = blockSize * highResScaleFactor;
     const ref = useCanvasAutorun({
         draw: ctx => {
@@ -53,6 +49,10 @@ const MSACanvasBlock = observer(function ({ model, offsetX, offsetY, }) {
                 if (ref.current) {
                     onMouseMove(event, ref.current);
                 }
+            }, onMouseDown: event => {
+                if (ref.current) {
+                    onMouseDown(event, ref.current);
+                }
             }, onClick: event => {
                 if (ref.current) {
                     onClick(event, ref.current);
@@ -66,7 +66,7 @@ const MSACanvasBlock = observer(function ({ model, offsetX, offsetY, }) {
                 width: blockSize,
                 height: blockSize,
             } }),
-        tooltipPoint ? (React.createElement(BaseTooltip, { clientPoint: { x: tooltipPoint.x, y: tooltipPoint.y + 15 } }, hoveredInsertion ? (React.createElement(React.Fragment, null,
+        anchor ? (React.createElement(BaseTooltip, { clientPoint: anchor.clientPoint }, hoveredInsertion ? (React.createElement(React.Fragment, null,
             "Insertion (",
             hoveredInsertion.letters.length,
             model.sequenceType === 'amino' ? 'aa' : 'bp',

package/dist/components/msa/MSACanvasBlock.js.map

@@ -1 +1 @@
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package/dist/components/msa/msaKeys.d.ts

@@ -0,0 +1,5 @@
+import type { MsaViewModel } from '../../model.ts';
+export declare function onMsaKey(model: MsaViewModel, { key, shiftKey }: {
+    key: string;
+    shiftKey: boolean;
+}): boolean;

package/dist/components/msa/msaKeys.js

@@ -0,0 +1,41 @@
+export function onMsaKey(model, { key, shiftKey }) {
+    const { colWidth, rowHeight, msaCanvasWidth, msaAreaHeight } = model;
+    const dx = shiftKey ? msaCanvasWidth : colWidth;
+    const dy = shiftKey ? msaAreaHeight : rowHeight;
+    switch (key) {
+        case 'ArrowLeft':
+            model.doScrollX(dx);
+            return true;
+        case 'ArrowRight':
+            model.doScrollX(-dx);
+            return true;
+        case 'ArrowUp':
+            model.doScrollY(dy);
+            return true;
+        case 'ArrowDown':
+            model.doScrollY(-dy);
+            return true;
+        case '+':
+        case '=':
+            model.zoomIn();
+            return true;
+        case '-':
+            model.zoomOut();
+            return true;
+        case 'Home':
+            model.setScrollX(0);
+            return true;
+        case 'End':
+            model.setScrollX(model.maxScrollX);
+            return true;
+        case 'Escape':
+            if (model.selection) {
+                model.clearSelection();
+                return true;
+            }
+            return false;
+        default:
+            return false;
+    }
+}
+//# sourceMappingURL=msaKeys.js.map

package/dist/components/msa/msaKeys.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"msaKeys.js","sourceRoot":"","sources":["../../../src/components/msa/msaKeys.ts"],"names":[],"mappings":"AAEA,MAAM,UAAU,QAAQ,CACtB,KAAmB,EACnB,EAAE,GAAG,EAAE,QAAQ,EAAsC;IAErD,MAAM,EAAE,QAAQ,EAAE,SAAS,EAAE,cAAc,EAAE,aAAa,EAAE,GAAG,KAAK,CAAA;IACpE,MAAM,EAAE,GAAG,QAAQ,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,QAAQ,CAAA;IAC/C,MAAM,EAAE,GAAG,QAAQ,CAAC,CAAC,CAAC,aAAa,CAAC,CAAC,CAAC,SAAS,CAAA;IAC/C,QAAQ,GAAG,EAAE,CAAC;QACZ,KAAK,WAAW;YACd,KAAK,CAAC,SAAS,CAAC,EAAE,CAAC,CAAA;YACnB,OAAO,IAAI,CAAA;QACb,KAAK,YAAY;YACf,KAAK,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,CAAA;YACpB,OAAO,IAAI,CAAA;QACb,KAAK,SAAS;YACZ,KAAK,CAAC,SAAS,CAAC,EAAE,CAAC,CAAA;YACnB,OAAO,IAAI,CAAA;QACb,KAAK,WAAW;YACd,KAAK,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,CAAA;YACpB,OAAO,IAAI,CAAA;QACb,KAAK,GAAG,CAAC;QACT,KAAK,GAAG;YACN,KAAK,CAAC,MAAM,EAAE,CAAA;YACd,OAAO,IAAI,CAAA;QACb,KAAK,GAAG;YACN,KAAK,CAAC,OAAO,EAAE,CAAA;YACf,OAAO,IAAI,CAAA;QACb,KAAK,MAAM;YACT,KAAK,CAAC,UAAU,CAAC,CAAC,CAAC,CAAA;YACnB,OAAO,IAAI,CAAA;QACb,KAAK,KAAK;YACR,KAAK,CAAC,UAAU,CAAC,KAAK,CAAC,UAAU,CAAC,CAAA;YAClC,OAAO,IAAI,CAAA;QACb,KAAK,QAAQ;YACX,IAAI,KAAK,CAAC,SAAS,EAAE,CAAC;gBACpB,KAAK,CAAC,cAAc,EAAE,CAAA;gBACtB,OAAO,IAAI,CAAA;YACb,CAAC;YACD,OAAO,KAAK,CAAA;QACd;YACE,OAAO,KAAK,CAAA;IAChB,CAAC;AACH,CAAC"}

package/dist/components/msa/msaRaster.js

@@ -200,6 +200,7 @@ function rasterKeys(model, theme) {
         model.columns,
         model.leaves,
         model.colorSchemeName,
+        model.customColorScheme,
         tileColorTable(model),
         model.relativeTo,
         theme.palette.action.hover,

package/dist/components/msa/msaRaster.js.map

@@ -1 +1 @@
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package/dist/components/msa/renderHighlights.d.ts

@@ -54,11 +54,22 @@ export declare function renderHighlights({ ctx, model, theme, offsetX, offsetY,
     width: number;
     height: number;
 }): void;
+/**
+ * The selected block, a bordered band per run of consecutive selected rows,
+ * culled to the rows this block covers
+ */
+export declare function renderSelection({ ctx, model, offsetX, offsetY, height, }: {
+    ctx: RenderCtx;
+    model: MsaViewModel;
+    offsetX: number;
+    offsetY: number;
+    height: number;
+}): void;
 /**
  * The overlay parts that come from the snapshot: the reference row's tint, a
- * bordered band per run of highlighted columns, and the `highlights` layer. The
- * live overlay draws these under its hover and click bands; the SVG export
- * draws only these.
+ * bordered band per run of highlighted columns, the `highlights` layer and the
+ * selected block. The live overlay draws these under its hover and click
+ * bands; the SVG export draws only these.
  */
 export declare function renderPersistentHighlights({ ctx, model, theme, offsetX, offsetY, width, height, }: {
     ctx: RenderCtx;

package/dist/components/msa/renderHighlights.js

@@ -1,5 +1,5 @@
 import { setFontSize } from '../../setFontSize.js';
-import { referenceColor } from '../overlayColors.js';
+import { referenceColor, selectionBorder, selectionFill, } from '../overlayColors.js';
 // a fill plus a solid border; the hover wash alone is invisible over clustalx
 // coloring
 export const highlightFill = 'rgba(255,140,0,0.28)';
@@ -111,11 +111,35 @@ export function renderHighlights({ ctx, model, theme, offsetX, offsetY, width, h
         }
     }
 }
+/**
+ * The selected block, a bordered band per run of consecutive selected rows,
+ * culled to the rows this block covers
+ */
+export function renderSelection({ ctx, model, offsetX, offsetY, height, }) {
+    const { resolvedSelection, colWidth, rowHeight } = model;
+    if (!resolvedSelection) {
+        return;
+    }
+    const { startCol, endCol, rowRuns } = resolvedSelection;
+    const x = startCol * colWidth - offsetX;
+    const w = (endCol - startCol + 1) * colWidth;
+    ctx.lineWidth = 1;
+    for (const [first, last] of rowRuns) {
+        const y = first * rowHeight - offsetY;
+        const h = (last - first + 1) * rowHeight;
+        if (y < height && y + h > 0) {
+            ctx.fillStyle = selectionFill;
+            ctx.fillRect(x, y, w, h);
+            ctx.strokeStyle = selectionBorder;
+            ctx.strokeRect(x, y, w, h);
+        }
+    }
+}
 /**
  * The overlay parts that come from the snapshot: the reference row's tint, a
- * bordered band per run of highlighted columns, and the `highlights` layer. The
- * live overlay draws these under its hover and click bands; the SVG export
- * draws only these.
+ * bordered band per run of highlighted columns, the `highlights` layer and the
+ * selected block. The live overlay draws these under its hover and click
+ * bands; the SVG export draws only these.
  */
 export function renderPersistentHighlights({ ctx, model, theme, offsetX, offsetY, width, height, }) {
     const { colWidth, rowHeight, referenceRowIndex, highlightedColumnRuns } = model;
@@ -133,5 +157,6 @@ export function renderPersistentHighlights({ ctx, model, theme, offsetX, offsetY
         ctx.strokeRect(x, 0, w, height);
     }
     renderHighlights({ ctx, model, theme, offsetX, offsetY, width, height });
+    renderSelection({ ctx, model, offsetX, offsetY, height });
 }
 //# sourceMappingURL=renderHighlights.js.map

package/dist/components/msa/renderHighlights.js.map

@@ -1 +1 @@
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