react-msaview 8.3.0 → 8.4.0

package/dist/components/header/ColorSchemeMenu.js

@@ -3,16 +3,34 @@ import CascadingMenuButton from '@jbrowse/core/ui/CascadingMenuButton';
 import Palette from '@mui/icons-material/Palette';
 import { observer } from 'mobx-react';
 import colorSchemes from '../../colorSchemes.js';
-const ColorSchemeMenu = observer(function ({ model }) {
-    const { colorSchemeName } = model;
-    return (React.createElement(CascadingMenuButton, { "data-testid": "color_scheme_menu", tooltip: "Color scheme", closeAfterItemClick: true, anchorOrigin: { vertical: 'bottom', horizontal: 'left' }, transformOrigin: { vertical: 'top', horizontal: 'left' }, menuItems: Object.keys(colorSchemes).map(option => ({
+// While a `customColorScheme` map is set, a checked Custom entry stands for it
+// and no named scheme is checked. Picking a named scheme clears the map.
+export function colorSchemeMenuItems(model) {
+    const { colorSchemeName, customColorScheme } = model;
+    const custom = customColorScheme
+        ? [
+            {
+                label: 'Custom',
+                type: 'radio',
+                checked: true,
+                onClick: () => { },
+            },
+        ]
+        : [];
+    return [
+        ...custom,
+        ...Object.keys(colorSchemes).map(option => ({
             label: option,
             type: 'radio',
-            checked: colorSchemeName === option,
+            checked: !customColorScheme && colorSchemeName === option,
             onClick: () => {
                 model.setColorSchemeName(option);
             },
-        })) },
+        })),
+    ];
+}
+const ColorSchemeMenu = observer(function ({ model }) {
+    return (React.createElement(CascadingMenuButton, { "data-testid": "color_scheme_menu", tooltip: "Color scheme", closeAfterItemClick: true, anchorOrigin: { vertical: 'bottom', horizontal: 'left' }, transformOrigin: { vertical: 'top', horizontal: 'left' }, menuItems: colorSchemeMenuItems(model) },
         React.createElement(Palette, null)));
 });
 export default ColorSchemeMenu;

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

@@ -1 +1 @@
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package/dist/components/header/{RowSearch.d.ts → GoToBox.d.ts}

@@ -1,6 +1,6 @@
 import React from 'react';
 import type { MsaViewModel } from '../../model.ts';
-declare const RowSearch: ({ model }: {
+declare const GoToBox: ({ model }: {
     model: MsaViewModel;
 }) => React.JSX.Element | null;
-export default RowSearch;
+export default GoToBox;

package/dist/components/header/GoToBox.js

@@ -0,0 +1,21 @@
+import React, { useState } from 'react';
+import { Autocomplete, TextField } from '@mui/material';
+import { observer } from 'mobx-react';
+import { findableRowNames, goTo, rowNameSuggestions } from './goTo.js';
+const label = 'Go to row or column';
+const GoToBox = observer(function ({ model }) {
+    const [missed, setMissed] = useState(false);
+    const names = findableRowNames(model);
+    return names.length > 1 || model.numColumns > 0 ? (React.createElement(Autocomplete, { freeSolo: true, size: "small", options: names, filterOptions: (options, { inputValue }) => rowNameSuggestions(options, inputValue), value: null, blurOnSelect: true, onInputChange: () => {
+            setMissed(false);
+        }, onChange: (_, text) => {
+            if (text) {
+                setMissed(!goTo(model, text));
+            }
+        }, style: { width: 180, margin: 'auto 8px' }, renderInput: params => (React.createElement(TextField, { ...params, error: missed, placeholder: label, title: "A row name, a column number, or name:residue", slotProps: {
+                ...params.slotProps,
+                htmlInput: { ...params.slotProps.htmlInput, 'aria-label': label },
+            } })) })) : null;
+});
+export default GoToBox;
+//# sourceMappingURL=GoToBox.js.map

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

@@ -0,0 +1 @@
+{"version":3,"file":"GoToBox.js","sourceRoot":"","sources":["../../../src/components/header/GoToBox.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEvC,OAAO,EAAE,YAAY,EAAE,SAAS,EAAE,MAAM,eAAe,CAAA;AACvD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,gBAAgB,EAAE,IAAI,EAAE,kBAAkB,EAAE,MAAM,WAAW,CAAA;AAItE,MAAM,KAAK,GAAG,qBAAqB,CAAA;AAEnC,MAAM,OAAO,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACnE,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAC3C,MAAM,KAAK,GAAG,gBAAgB,CAAC,KAAK,CAAC,CAAA;IACrC,OAAO,KAAK,CAAC,MAAM,GAAG,CAAC,IAAI,KAAK,CAAC,UAAU,GAAG,CAAC,CAAC,CAAC,CAAC,CAChD,oBAAC,YAAY,IACX,QAAQ,QACR,IAAI,EAAC,OAAO,EACZ,OAAO,EAAE,KAAK,EACd,aAAa,EAAE,CAAC,OAAO,EAAE,EAAE,UAAU,EAAE,EAAE,EAAE,CACzC,kBAAkB,CAAC,OAAO,EAAE,UAAU,CAAC,EAEzC,KAAK,EAAE,IAAI,EACX,YAAY,QACZ,aAAa,EAAE,GAAG,EAAE;YAClB,SAAS,CAAC,KAAK,CAAC,CAAA;QAClB,CAAC,EACD,QAAQ,EAAE,CAAC,CAAC,EAAE,IAAI,EAAE,EAAE;YACpB,IAAI,IAAI,EAAE,CAAC;gBACT,SAAS,CAAC,CAAC,IAAI,CAAC,KAAK,EAAE,IAAI,CAAC,CAAC,CAAA;YAC/B,CAAC;QACH,CAAC,EACD,KAAK,EAAE,EAAE,KAAK,EAAE,GAAG,EAAE,MAAM,EAAE,UAAU,EAAE,EACzC,WAAW,EAAE,MAAM,CAAC,EAAE,CAAC,CACrB,oBAAC,SAAS,OACJ,MAAM,EACV,KAAK,EAAE,MAAM,EACb,WAAW,EAAE,KAAK,EAClB,KAAK,EAAC,8CAA8C,EACpD,SAAS,EAAE;gBACT,GAAG,MAAM,CAAC,SAAS;gBACnB,SAAS,EAAE,EAAE,GAAG,MAAM,CAAC,SAAS,CAAC,SAAS,EAAE,YAAY,EAAE,KAAK,EAAE;aAClE,GACD,CACH,GACD,CACH,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CAAC,CAAA;AAEF,eAAe,OAAO,CAAA"}

package/dist/components/header/Header.js

@@ -7,11 +7,12 @@ import StatusMessage from '../StatusMessage.js';
 import ColorSchemeMenu from './ColorSchemeMenu.js';
 import FileMenu from './FileMenu.js';
 import GappynessSlider from './GappynessSlider.js';
+import GoToBox from './GoToBox.js';
 import HeaderInfoArea from './HeaderInfoArea.js';
 import LoadWarnings from './LoadWarnings.js';
 import MSASettingsMenu from './MSASettingsMenu.js';
 import MultiAlignmentSelector from './MultiAlignmentSelector.js';
-import RowSearch from './RowSearch.js';
+import SelectionMenu from './SelectionMenu.js';
 import TreeSettingsMenu from './TreeSettingsMenu.js';
 import UnshareableDataWarning from './UnshareableDataWarning.js';
 import ZoomControls from './ZoomControls.js';
@@ -33,10 +34,11 @@ const Header = observer(function ({ model }) {
         React.createElement(ZoomControls, { model: model }),
         React.createElement(ZoomMenu, { model: model }),
         React.createElement(GappynessSlider, { model: model }),
-        React.createElement(RowSearch, { model: model }),
+        React.createElement(GoToBox, { model: model }),
         React.createElement("div", { style: { paddingLeft: 20, margin: 'auto' } },
             React.createElement(MultiAlignmentSelector, { model: model })),
         React.createElement("div", { style: { flex: '1 1 0', minWidth: 0, display: 'flex' } },
+            React.createElement(SelectionMenu, { model: model }),
             React.createElement(HeaderInfoArea, { model: model })),
         React.createElement(LoadWarnings, { model: model }),
         React.createElement(UnshareableDataWarning, { model: model }),

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

@@ -1 +1 @@
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package/dist/components/header/SelectionMenu.d.ts

@@ -0,0 +1,12 @@
+import React from 'react';
+import type { MsaViewModel } from '../../model.ts';
+/**
+ * The selected block's size, as a button opening what to do with it. It
+ * renders only while there is a selection. Header.tsx puts it in the slot
+ * with no width of its own, so the label ellipsizes before it could wrap the
+ * header onto a second line.
+ */
+declare const SelectionMenu: ({ model }: {
+    model: MsaViewModel;
+}) => React.JSX.Element | null;
+export default SelectionMenu;

package/dist/components/header/SelectionMenu.js

@@ -0,0 +1,72 @@
+import React, { useState } from 'react';
+import ArrowDropDown from '@mui/icons-material/ArrowDropDown';
+import Clear from '@mui/icons-material/Clear';
+import ContentCopy from '@mui/icons-material/ContentCopy';
+import ZoomIn from '@mui/icons-material/ZoomIn';
+import { Button, ListItemIcon, ListItemText, Menu, MenuItem, Tooltip, } from '@mui/material';
+import { observer } from 'mobx-react';
+import copy from '../../vendor/copyToClipboard.js';
+function count(n, noun) {
+    return `${n.toLocaleString('en-US')} ${noun}${n === 1 ? '' : 's'}`;
+}
+/**
+ * The selected block's size, as a button opening what to do with it. It
+ * renders only while there is a selection. Header.tsx puts it in the slot
+ * with no width of its own, so the label ellipsizes before it could wrap the
+ * header onto a second line.
+ */
+const SelectionMenu = observer(function ({ model }) {
+    const [anchorEl, setAnchorEl] = useState();
+    const { selectionSize, selectionFileSpan } = model;
+    if (!selectionSize || !selectionFileSpan) {
+        return null;
+    }
+    const label = `${count(selectionSize.columns, 'column')} × ${count(selectionSize.rows, 'row')}`;
+    const items = [
+        {
+            text: 'Copy as FASTA',
+            Icon: ContentCopy,
+            act: () => {
+                copy(model.selectionFasta);
+            },
+        },
+        {
+            text: 'Zoom to selection',
+            Icon: ZoomIn,
+            act: () => {
+                model.zoomToSelection();
+            },
+        },
+        {
+            text: 'Clear selection',
+            Icon: Clear,
+            act: () => {
+                model.clearSelection();
+            },
+        },
+    ];
+    return (React.createElement(React.Fragment, null,
+        React.createElement(Tooltip, { title: `Columns ${selectionFileSpan.start}-${selectionFileSpan.end} selected. Shift-drag the alignment to select, Escape to clear` },
+            React.createElement(Button, { size: "small", "aria-label": `Selection: ${label}`, endIcon: React.createElement(ArrowDropDown, null), onClick: event => {
+                    setAnchorEl(event.currentTarget);
+                }, style: {
+                    margin: 'auto 0 auto 8px',
+                    flexShrink: 0,
+                    maxWidth: '100%',
+                    minWidth: 0,
+                    textTransform: 'none',
+                    whiteSpace: 'nowrap',
+                } },
+                React.createElement("span", { style: { overflow: 'hidden', textOverflow: 'ellipsis' } }, label))),
+        anchorEl ? (React.createElement(Menu, { anchorEl: anchorEl, open: true, transitionDuration: 0, onClose: () => {
+                setAnchorEl(undefined);
+            } }, items.map(({ text, Icon, act }) => (React.createElement(MenuItem, { key: text, dense: true, onClick: () => {
+                act();
+                setAnchorEl(undefined);
+            } },
+            React.createElement(ListItemIcon, null,
+                React.createElement(Icon, { fontSize: "small" })),
+            React.createElement(ListItemText, null, text)))))) : null));
+});
+export default SelectionMenu;
+//# sourceMappingURL=SelectionMenu.js.map

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

@@ -0,0 +1 @@
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package/dist/components/header/goTo.d.ts

@@ -0,0 +1,20 @@
+import type { MsaViewModel } from '../../model.ts';
+export declare function findableRowNames(model: MsaViewModel): string[];
+export declare function rowNameSuggestions(names: string[], input: string, limit?: number): string[];
+/**
+ * The visible row and column a "Go to" entry names: a row by its name, the
+ * column the ruler numbers N, or residue N of a row written `name:N`. A name
+ * is tried whole first, so a row called `chr1:100` stays reachable.
+ */
+export declare function resolveGoTo(model: MsaViewModel, text: string): {
+    row: number;
+    col?: undefined;
+} | {
+    row: number | undefined;
+    col: number;
+} | {
+    row?: undefined;
+    col: number;
+} | undefined;
+/** centers the view on the entry's target and lights it; false if none */
+export declare function goTo(model: MsaViewModel, text: string): boolean;

package/dist/components/header/goTo.js

@@ -0,0 +1,69 @@
+export function findableRowNames(model) {
+    const collapsed = new Set(model.collapsed);
+    return model.leaves
+        .filter(({ data: { id, name } }) => !(collapsed.has(id) && name === id))
+        .map(leaf => leaf.data.name);
+}
+// not MUI's createFilterOptions: JBrowse hosts do not re-export it, so
+// jbrowse-plugin-msaview would fail to load
+export function rowNameSuggestions(names, input, limit = 50) {
+    const query = input.toLowerCase();
+    return names
+        .filter(name => name.toLowerCase().includes(query))
+        .slice(0, limit);
+}
+/**
+ * The visible row and column a "Go to" entry names: a row by its name, the
+ * column the ruler numbers N, or residue N of a row written `name:N`. A name
+ * is tried whole first, so a row called `chr1:100` stays reachable.
+ */
+export function resolveGoTo(model, text) {
+    const query = text.trim();
+    const row = model.rowNamesSet.get(query);
+    if (row !== undefined) {
+        return { row };
+    }
+    const residue = /^(.+):(\d+)$/.exec(query);
+    if (residue) {
+        const [, name = '', pos] = residue;
+        const rowIndex = model.rowNamesSet.get(name);
+        const col = rowIndex === undefined ? undefined : columnOfResidue(model, name, +pos);
+        return col === undefined ? undefined : { row: rowIndex, col };
+    }
+    if (/^\d+$/.test(query)) {
+        const n = +query;
+        const { relativeTo, numColumns } = model;
+        const col = relativeTo
+            ? columnOfResidue(model, relativeTo, n)
+            : n >= 1 && n <= numColumns
+                ? n - 1
+                : undefined;
+        return col === undefined ? undefined : { col };
+    }
+    return undefined;
+}
+// seqPosToVisibleCol maps a residue past the row's end to the column after
+// it; here that residue names nothing
+function columnOfResidue(model, name, pos) {
+    const globalCol = model.seqPosIndex(name)?.[pos - 1];
+    return globalCol === undefined
+        ? undefined
+        : model.globalColToVisibleCol(globalCol);
+}
+/** centers the view on the entry's target and lights it; false if none */
+export function goTo(model, text) {
+    const target = resolveGoTo(model, text);
+    if (target) {
+        const { row, col } = target;
+        const { rowHeight, colWidth, msaAreaHeight, msaAreaWidth } = model;
+        if (row !== undefined) {
+            model.setScrollY(-(row + 0.5) * rowHeight + msaAreaHeight / 2);
+        }
+        if (col !== undefined) {
+            model.setScrollX(-(col + 0.5) * colWidth + msaAreaWidth / 2);
+        }
+        model.setMousePos(col, row);
+    }
+    return target !== undefined;
+}
+//# sourceMappingURL=goTo.js.map

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

@@ -0,0 +1 @@
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package/dist/components/msa/MSACanvas.js

@@ -23,11 +23,22 @@ const MSACanvas = observer(function ({ model }) {
         onZoom,
         scrollZoom,
     });
-    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.", onKeyDown: event => {
+    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: onMouseDown, onMouseUp: onMouseUp, style: {
+        }, 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 @@
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+{"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

@@ -49,7 +49,11 @@ const MSACanvasBlock = observer(function ({ model, offsetX, offsetY, }) {
                 if (ref.current) {
                     onMouseMove(event, ref.current);
                 }
-            }, onMouseDown: onMouseDown, onClick: event => {
+            }, onMouseDown: event => {
+                if (ref.current) {
+                    onMouseDown(event, ref.current);
+                }
+            }, onClick: event => {
                 if (ref.current) {
                     onClick(event, ref.current);
                 }

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

@@ -1 +1 @@
-{"version":3,"file":"MSACanvasBlock.js","sourceRoot":"","sources":["../../../src/components/msa/MSACanvasBlock.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,WAAW,MAAM,8BAA8B,CAAA;AACtD,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,EAAE,aAAa,EAAE,eAAe,EAAE,MAAM,gBAAgB,CAAA;AAC/D,OAAO,EAAE,2BAA2B,EAAE,MAAM,kCAAkC,CAAA;AAC9E,OAAO,EAAE,cAAc,EAAE,MAAM,qBAAqB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,uBAAuB,CAAA;AAIxD,MAAM,cAAc,GAAG,QAAQ,CAAC,UAAU,EACxC,KAAK,EACL,OAAO,EACP,OAAO,GAKR;IACC,MAAM,EAAE,SAAS,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IAC/C,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,EAAE,MAAM,EAAE,WAAW,EAAE,WAAW,EAAE,OAAO,EAAE,YAAY,EAAE,GAC/D,gBAAgB,CAAC,EAAE,KAAK,EAAE,OAAO,EAAE,OAAO,EAAE,CAAC,CAAA;IAE/C,MAAM,UAAU,GAAG,SAAS,GAAG,kBAAkB,CAAA;IACjD,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,UAAU,EAAE,UAAU,CAAC,CAAA;YAC3C,2BAA2B,CAAC;gBAC1B,GAAG;gBACH,KAAK;gBACL,OAAO;gBACP,OAAO;gBACP,KAAK;aACN,CAAC,CAAA;YACF,yEAAyE;YACzE,yEAAyE;YACzE,yBAAyB;YACzB,MAAM,WAAW,GACf,CAAC,KAAK,CAAC,mBAAmB,IAAI,KAAK,CAAC,OAAO,IAAI,eAAe,EAAE,CAAA;YAClE,IAAI,WAAW,EAAE,CAAC;gBAChB,aAAa,CAAC,EAAE,GAAG,EAAE,KAAK,EAAE,KAAK,EAAE,OAAO,EAAE,OAAO,EAAE,CAAC,CAAA;YACxD,CAAC;YACD,cAAc,CAAC;gBACb,GAAG;gBACH,KAAK;gBACL,OAAO;gBACP,OAAO;gBACP,KAAK;gBACL,WAAW;aACZ,CAAC,CAAA;QACJ,CAAC;QACD,KAAK,EAAE,UAAU;QACjB,MAAM,EAAE,UAAU;QAClB,IAAI,EAAE,CAAC,KAAK,EAAE,OAAO,EAAE,OAAO,EAAE,KAAK,CAAC;KACvC,CAAC,CAAA;IAEF,MAAM,EAAE,gBAAgB,EAAE,gBAAgB,EAAE,GAAG,KAAK,CAAA;IAEpD,OAAO,CACL;QACE,gCACE,GAAG,EAAE,GAAG,EACR,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,IAAI,GAAG,CAAC,OAAO,EAAE,CAAC;oBAChB,WAAW,CAAC,KAAK,EAAE,GAAG,CAAC,OAAO,CAAC,CAAA;gBACjC,CAAC;YACH,CAAC,EACD,WAAW,EAAE,WAAW,EACxB,OAAO,EAAE,KAAK,CAAC,EAAE;gBACf,IAAI,GAAG,CAAC,OAAO,EAAE,CAAC;oBAChB,OAAO,CAAC,KAAK,EAAE,GAAG,CAAC,OAAO,CAAC,CAAA;gBAC7B,CAAC;YACH,CAAC,EACD,YAAY,EAAE,GAAG,EAAE;gBACjB,YAAY,EAAE,CAAA;YAChB,CAAC,EACD,KAAK,EAAE,UAAU,EACjB,MAAM,EAAE,UAAU,EAClB,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,GAAG,EAAE,OAAO;gBACZ,IAAI,EAAE,OAAO;gBACb,KAAK,EAAE,SAAS;gBAChB,MAAM,EAAE,SAAS;aAClB,GACD;QACD,MAAM,CAAC,CAAC,CAAC,CACR,oBAAC,WAAW,IAAC,WAAW,EAAE,MAAM,CAAC,WAAW,IACzC,gBAAgB,CAAC,CAAC,CAAC,CAClB;;YACc,gBAAgB,CAAC,OAAO,CAAC,MAAM;YAC1C,KAAK,CAAC,YAAY,KAAK,OAAO,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,IAAI;;YAAI,GAAG;YACnD,gBAAgB,CAAC,OAAO,CAAC,MAAM,GAAG,EAAE;gBACnC,CAAC,CAAC,GAAG,gBAAgB,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,KAAK;gBAC/C,CAAC,CAAC,gBAAgB,CAAC,OAAO,CAC3B,CACJ,CAAC,CAAC,CAAC,CACF,gBAAgB,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CACxB,6BAAK,GAAG,EAAE,GAAG,CAAC,CAAC,SAAS,IAAI,CAAC,CAAC,KAAK,IAAI,CAAC,CAAC,GAAG,EAAE;YAC5C,+BAAI,CAAC,CAAC,IAAI,CAAK;;YAAG,CAAC,CAAC,SAAS;;YAAI,CAAC,CAAC,KAAK;;YAAG,CAAC,CAAC,GAAG;YAC/C,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,CACf;gBACE,+BAAM;gBACL,CAAC,CAAC,WAAW,CACb,CACJ,CAAC,CAAC,CAAC,IAAI,CACJ,CACP,CAAC,CACH,CACW,CACf,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,cAAc,CAAA"}
+{"version":3,"file":"MSACanvasBlock.js","sourceRoot":"","sources":["../../../src/components/msa/MSACanvasBlock.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,WAAW,MAAM,8BAA8B,CAAA;AACtD,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,EAAE,aAAa,EAAE,eAAe,EAAE,MAAM,gBAAgB,CAAA;AAC/D,OAAO,EAAE,2BAA2B,EAAE,MAAM,kCAAkC,CAAA;AAC9E,OAAO,EAAE,cAAc,EAAE,MAAM,qBAAqB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,uBAAuB,CAAA;AAIxD,MAAM,cAAc,GAAG,QAAQ,CAAC,UAAU,EACxC,KAAK,EACL,OAAO,EACP,OAAO,GAKR;IACC,MAAM,EAAE,SAAS,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IAC/C,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,EAAE,MAAM,EAAE,WAAW,EAAE,WAAW,EAAE,OAAO,EAAE,YAAY,EAAE,GAC/D,gBAAgB,CAAC,EAAE,KAAK,EAAE,OAAO,EAAE,OAAO,EAAE,CAAC,CAAA;IAE/C,MAAM,UAAU,GAAG,SAAS,GAAG,kBAAkB,CAAA;IACjD,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,UAAU,EAAE,UAAU,CAAC,CAAA;YAC3C,2BAA2B,CAAC;gBAC1B,GAAG;gBACH,KAAK;gBACL,OAAO;gBACP,OAAO;gBACP,KAAK;aACN,CAAC,CAAA;YACF,yEAAyE;YACzE,yEAAyE;YACzE,yBAAyB;YACzB,MAAM,WAAW,GACf,CAAC,KAAK,CAAC,mBAAmB,IAAI,KAAK,CAAC,OAAO,IAAI,eAAe,EAAE,CAAA;YAClE,IAAI,WAAW,EAAE,CAAC;gBAChB,aAAa,CAAC,EAAE,GAAG,EAAE,KAAK,EAAE,KAAK,EAAE,OAAO,EAAE,OAAO,EAAE,CAAC,CAAA;YACxD,CAAC;YACD,cAAc,CAAC;gBACb,GAAG;gBACH,KAAK;gBACL,OAAO;gBACP,OAAO;gBACP,KAAK;gBACL,WAAW;aACZ,CAAC,CAAA;QACJ,CAAC;QACD,KAAK,EAAE,UAAU;QACjB,MAAM,EAAE,UAAU;QAClB,IAAI,EAAE,CAAC,KAAK,EAAE,OAAO,EAAE,OAAO,EAAE,KAAK,CAAC;KACvC,CAAC,CAAA;IAEF,MAAM,EAAE,gBAAgB,EAAE,gBAAgB,EAAE,GAAG,KAAK,CAAA;IAEpD,OAAO,CACL;QACE,gCACE,GAAG,EAAE,GAAG,EACR,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,IAAI,GAAG,CAAC,OAAO,EAAE,CAAC;oBAChB,WAAW,CAAC,KAAK,EAAE,GAAG,CAAC,OAAO,CAAC,CAAA;gBACjC,CAAC;YACH,CAAC,EACD,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,IAAI,GAAG,CAAC,OAAO,EAAE,CAAC;oBAChB,WAAW,CAAC,KAAK,EAAE,GAAG,CAAC,OAAO,CAAC,CAAA;gBACjC,CAAC;YACH,CAAC,EACD,OAAO,EAAE,KAAK,CAAC,EAAE;gBACf,IAAI,GAAG,CAAC,OAAO,EAAE,CAAC;oBAChB,OAAO,CAAC,KAAK,EAAE,GAAG,CAAC,OAAO,CAAC,CAAA;gBAC7B,CAAC;YACH,CAAC,EACD,YAAY,EAAE,GAAG,EAAE;gBACjB,YAAY,EAAE,CAAA;YAChB,CAAC,EACD,KAAK,EAAE,UAAU,EACjB,MAAM,EAAE,UAAU,EAClB,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,GAAG,EAAE,OAAO;gBACZ,IAAI,EAAE,OAAO;gBACb,KAAK,EAAE,SAAS;gBAChB,MAAM,EAAE,SAAS;aAClB,GACD;QACD,MAAM,CAAC,CAAC,CAAC,CACR,oBAAC,WAAW,IAAC,WAAW,EAAE,MAAM,CAAC,WAAW,IACzC,gBAAgB,CAAC,CAAC,CAAC,CAClB;;YACc,gBAAgB,CAAC,OAAO,CAAC,MAAM;YAC1C,KAAK,CAAC,YAAY,KAAK,OAAO,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,IAAI;;YAAI,GAAG;YACnD,gBAAgB,CAAC,OAAO,CAAC,MAAM,GAAG,EAAE;gBACnC,CAAC,CAAC,GAAG,gBAAgB,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,KAAK;gBAC/C,CAAC,CAAC,gBAAgB,CAAC,OAAO,CAC3B,CACJ,CAAC,CAAC,CAAC,CACF,gBAAgB,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CACxB,6BAAK,GAAG,EAAE,GAAG,CAAC,CAAC,SAAS,IAAI,CAAC,CAAC,KAAK,IAAI,CAAC,CAAC,GAAG,EAAE;YAC5C,+BAAI,CAAC,CAAC,IAAI,CAAK;;YAAG,CAAC,CAAC,SAAS;;YAAI,CAAC,CAAC,KAAK;;YAAG,CAAC,CAAC,GAAG;YAC/C,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,CACf;gBACE,+BAAM;gBACL,CAAC,CAAC,WAAW,CACb,CACJ,CAAC,CAAC,CAAC,IAAI,CACJ,CACP,CAAC,CACH,CACW,CACf,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,cAAc,CAAA"}

package/dist/components/msa/msaKeys.js

@@ -28,6 +28,12 @@ export function onMsaKey(model, { key, shiftKey }) {
         case 'End':
             model.setScrollX(model.maxScrollX);
             return true;
+        case 'Escape':
+            if (model.selection) {
+                model.clearSelection();
+                return true;
+            }
+            return false;
         default:
             return false;
     }

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

@@ -1 +1 @@
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+{"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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