react-msaview 8.2.0 → 8.3.0

package/dist/components/tree/TreeCanvasBlock.js.map

@@ -1 +1 @@
-{"version":3,"file":"TreeCanvasBlock.js","sourceRoot":"","sources":["../../../src/components/tree/TreeCanvasBlock.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEvC,OAAO,EAAE,UAAU,EAAE,MAAM,8BAA8B,CAAA;AACzD,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,aAAa,MAAM,qBAAsB,CAAA;AAChD,OAAO,cAAc,MAAM,qBAAsB,CAAA;AACjD,OAAO,YAAY,MAAM,mBAAoB,CAAA;AAC7C,OAAO,EAAE,gBAAgB,EAAE,MAAM,uBAAuB,CAAA;AACxD,OAAO,EAAE,YAAY,EAAE,MAAM,mBAAmB,CAAA;AAIhD,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,KAAK,EAAE;QACL,QAAQ,EAAE,UAAU;QACpB,aAAa,EAAE,MAAM;QACrB,MAAM,EAAE,GAAG;QACX,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,KAAK;KACvC;CACF,CAAC,CAAC,CAAA;AASH,MAAM,eAAe,GAAG,QAAQ,CAAC,UAAU,EACzC,KAAK,EACL,OAAO,GAIR;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,CAAC,UAAU,EAAE,aAAa,CAAC,GAAG,QAAQ,EAAY,CAAA;IACxD,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,EAAY,CAAA;IACpD,MAAM,EAAE,QAAQ,EAAE,OAAO,EAAE,OAAO,EAAE,WAAW,EAAE,YAAY,EAAE,GAC7D,YAAY,CAAC,EAAE,KAAK,EAAE,OAAO,EAAE,CAAC,CAAA;IAElC,MAAM,EAAE,aAAa,EAAE,SAAS,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IAC9D,8EAA8E;IAC9E,MAAM,KAAK,GAAG,aAAa,CAAA;IAC3B,MAAM,MAAM,GAAG,SAAS,CAAA;IAExB,MAAM,WAAW,GAAG,KAAK,GAAG,kBAAkB,CAAA;IAC9C,MAAM,YAAY,GAAG,MAAM,GAAG,kBAAkB,CAAA;IAChD,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,WAAW,EAAE,YAAY,CAAC,CAAA;YAC9C,gBAAgB,CAAC;gBACf,GAAG;gBACH,KAAK;gBACL,OAAO;gBACP,QAAQ;gBACR,KAAK;aACN,CAAC,CAAA;QACJ,CAAC;QACD,KAAK,EAAE,WAAW;QAClB,MAAM,EAAE,YAAY;QACpB,IAAI,EAAE,CAAC,KAAK,EAAE,QAAQ,EAAE,OAAO,EAAE,KAAK,CAAC;KACxC,CAAC,CAAA;IAEF,MAAM,KAAK,GAAG;QACZ,KAAK;QACL,MAAM;QACN,GAAG,EAAE,OAAO;QACZ,IAAI,EAAE,CAAC;QACP,QAAQ,EAAE,UAAU;KACZ,CAAA;IAEV,OAAO,CACL;QACG,UAAU,CAAC,CAAC,CAAC,CACZ,oBAAC,cAAc,IACb,IAAI,EAAE,UAAU,EAChB,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,GAAG,EAAE;gBACZ,aAAa,CAAC,SAAS,CAAC,CAAA;YAC1B,CAAC,GACD,CACH,CAAC,CAAC,CAAC,IAAI;QAEP,QAAQ,CAAC,CAAC,CAAC,CACV,oBAAC,YAAY,IACX,IAAI,EAAE,QAAQ,EACd,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,GAAG,EAAE;gBACZ,WAAW,CAAC,SAAS,CAAC,CAAA;YACxB,CAAC,GACD,CACH,CAAC,CAAC,CAAC,IAAI;QAER,gCACE,GAAG,EAAE,GAAG,EACR,KAAK,EAAE,WAAW,EAClB,MAAM,EAAE,YAAY,EACpB,KAAK,EAAE,EAAE,GAAG,KAAK,EAAE,MAAM,EAAE,OAAO,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,SAAS,EAAE,EAC5D,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,WAAW,CAAC,KAAK,CAAC,CAAA;YACpB,CAAC,EACD,YAAY,EAAE,GAAG,EAAE;gBACjB,YAAY,EAAE,CAAA;YAChB,CAAC,EACD,OAAO,EAAE,KAAK,CAAC,EAAE;gBACf,MAAM,KAAK,GAAG,OAAO,CAAC,KAAK,CAAC,CAAA;gBAC5B,IAAI,KAAK,EAAE,CAAC;oBACV,MAAM,IAAI,GAAG;wBACX,CAAC,EAAE,KAAK,CAAC,OAAO;wBAChB,CAAC,EAAE,KAAK,CAAC,OAAO;wBAChB,EAAE,EAAE,KAAK,CAAC,EAAE;wBACZ,IAAI,EAAE,KAAK,CAAC,IAAI;qBACjB,CAAA;oBACD,IAAI,KAAK,CAAC,MAAM,EAAE,CAAC;wBACjB,aAAa,CAAC,IAAI,CAAC,CAAA;oBACrB,CAAC;yBAAM,CAAC;wBACN,WAAW,CAAC,IAAI,CAAC,CAAA;oBACnB,CAAC;gBACH,CAAC;YACH,CAAC,GACD;QAGD,OAAO,IAAI,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC,CAAC,CAC5B,6BACE,SAAS,EAAE,OAAO,CAAC,KAAK,EACxB,KAAK,EAAE;gBACL,IAAI,EAAE,OAAO,CAAC,IAAI;gBAClB,GAAG,EAAE,OAAO,CAAC,IAAI;gBACjB,KAAK,EAAE,OAAO,CAAC,IAAI,GAAG,OAAO,CAAC,IAAI;gBAClC,MAAM,EAAE,OAAO,CAAC,IAAI,GAAG,OAAO,CAAC,IAAI;aACpC,GACD,CACH,CAAC,CAAC,CAAC,IAAI;QAEP,OAAO,CAAC,CAAC,CAAC,CACT,oBAAC,aAAa,IAAC,OAAO,EAAE,OAAO,CAAC,OAAO,EAAE,OAAO,EAAE,OAAO,CAAC,OAAO,IAC9D,OAAO,CAAC,IAAI,CACC,CACjB,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,eAAe,CAAA"}
+{"version":3,"file":"TreeCanvasBlock.js","sourceRoot":"","sources":["../../../src/components/tree/TreeCanvasBlock.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEvC,OAAO,WAAW,MAAM,8BAA8B,CAAA;AACtD,OAAO,EAAE,UAAU,EAAE,MAAM,8BAA8B,CAAA;AACzD,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,QAAQ,MAAM,eAAgB,CAAA;AACrC,OAAO,EAAE,gBAAgB,EAAE,MAAM,uBAAuB,CAAA;AACxD,OAAO,EAAE,YAAY,EAAE,MAAM,mBAAmB,CAAA;AAKhD,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,KAAK,EAAE;QACL,QAAQ,EAAE,UAAU;QACpB,aAAa,EAAE,MAAM;QACrB,MAAM,EAAE,GAAG;QACX,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,KAAK;KACvC;CACF,CAAC,CAAC,CAAA;AAEH,MAAM,eAAe,GAAG,QAAQ,CAAC,UAAU,EACzC,KAAK,EACL,OAAO,GAIR;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,CAAC,IAAI,EAAE,OAAO,CAAC,GAAG,QAAQ,EAAkB,CAAA;IAClD,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,OAAO,EAAE,WAAW,EAAE,YAAY,EAAE,GAAG,YAAY,CAC3E,EAAE,KAAK,EAAE,OAAO,EAAE,CACnB,CAAA;IACD,MAAM,OAAO,GAAG,MAAM,EAAE,KAAK,CAAA;IAE7B,MAAM,EAAE,aAAa,EAAE,SAAS,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IAC9D,8EAA8E;IAC9E,MAAM,KAAK,GAAG,aAAa,CAAA;IAC3B,MAAM,MAAM,GAAG,SAAS,CAAA;IAExB,MAAM,WAAW,GAAG,KAAK,GAAG,kBAAkB,CAAA;IAC9C,MAAM,YAAY,GAAG,MAAM,GAAG,kBAAkB,CAAA;IAChD,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,WAAW,EAAE,YAAY,CAAC,CAAA;YAC9C,gBAAgB,CAAC;gBACf,GAAG;gBACH,KAAK;gBACL,OAAO;gBACP,QAAQ;gBACR,KAAK;aACN,CAAC,CAAA;QACJ,CAAC;QACD,KAAK,EAAE,WAAW;QAClB,MAAM,EAAE,YAAY;QACpB,IAAI,EAAE,CAAC,KAAK,EAAE,QAAQ,EAAE,OAAO,EAAE,KAAK,CAAC;KACxC,CAAC,CAAA;IAEF,MAAM,KAAK,GAAG;QACZ,KAAK;QACL,MAAM;QACN,GAAG,EAAE,OAAO;QACZ,IAAI,EAAE,CAAC;QACP,QAAQ,EAAE,UAAU;KACZ,CAAA;IAEV,OAAO,CACL;QACG,IAAI,CAAC,CAAC,CAAC,CACN,oBAAC,QAAQ,IACP,IAAI,EAAE,IAAI,EACV,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,GAAG,EAAE;gBACZ,OAAO,CAAC,SAAS,CAAC,CAAA;YACpB,CAAC,GACD,CACH,CAAC,CAAC,CAAC,IAAI;QAER,gCACE,GAAG,EAAE,GAAG,EACR,KAAK,EAAE,WAAW,EAClB,MAAM,EAAE,YAAY,EACpB,KAAK,EAAE,EAAE,GAAG,KAAK,EAAE,MAAM,EAAE,OAAO,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,SAAS,EAAE,EAC5D,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,WAAW,CAAC,KAAK,CAAC,CAAA;YACpB,CAAC,EACD,YAAY,EAAE,GAAG,EAAE;gBACjB,YAAY,EAAE,CAAA;YAChB,CAAC,EACD,OAAO,EAAE,KAAK,CAAC,EAAE;gBACf,MAAM,KAAK,GAAG,OAAO,CAAC,KAAK,CAAC,CAAA;gBAC5B,IAAI,KAAK,EAAE,CAAC;oBACV,OAAO,CAAC;wBACN,CAAC,EAAE,KAAK,CAAC,OAAO;wBAChB,CAAC,EAAE,KAAK,CAAC,OAAO;wBAChB,EAAE,EAAE,KAAK,CAAC,EAAE;wBACZ,IAAI,EAAE,KAAK,CAAC,IAAI;wBAChB,IAAI,EAAE,CAAC,KAAK,CAAC,MAAM;qBACpB,CAAC,CAAA;gBACJ,CAAC;YACH,CAAC,GACD;QAGD,OAAO,IAAI,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC,CAAC,CAC5B,6BACE,SAAS,EAAE,OAAO,CAAC,KAAK,EACxB,KAAK,EAAE;gBACL,IAAI,EAAE,OAAO,CAAC,IAAI;gBAClB,GAAG,EAAE,OAAO,CAAC,IAAI;gBACjB,KAAK,EAAE,OAAO,CAAC,IAAI,GAAG,OAAO,CAAC,IAAI;gBAClC,MAAM,EAAE,OAAO,CAAC,IAAI,GAAG,OAAO,CAAC,IAAI;aACpC,GACD,CACH,CAAC,CAAC,CAAC,IAAI;QAEP,MAAM,CAAC,CAAC,CAAC,CACR,oBAAC,WAAW,IAAC,WAAW,EAAE,MAAM,CAAC,WAAW,IACzC,MAAM,CAAC,KAAK,CAAC,IAAI,CACN,CACf,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,eAAe,CAAA"}

package/dist/components/tree/{TreeBranchMenu.d.ts → TreeMenu.d.ts}

@@ -1,14 +1,15 @@
 import React from 'react';
 import type { MsaViewModel } from '../../model.ts';
-interface Node {
+export interface TreeMenuTarget {
     x: number;
     y: number;
     name: string;
     id: string;
+    leaf: boolean;
 }
-declare const TreeBranchMenu: ({ node, model, onClose, }: {
-    node: Node;
+declare const TreeMenu: ({ node, model, onClose, }: {
+    node: TreeMenuTarget;
     model: MsaViewModel;
     onClose: () => void;
 }) => React.JSX.Element;
-export default TreeBranchMenu;
+export default TreeMenu;

package/dist/components/tree/TreeMenu.js

@@ -0,0 +1,48 @@
+import React, { lazy } from 'react';
+import { Menu, MenuItem } from '@mui/material';
+import { observer } from 'mobx-react';
+const TreeNodeInfoDialog = lazy(() => import('./dialogs/TreeNodeInfoDialog.js'));
+const TreeMenu = observer(function ({ node, model, onClose, }) {
+    const { collapsed, showOnly, relativeTo } = model;
+    const { name, id, leaf } = node;
+    const isCollapsed = collapsed.includes(id);
+    const isRoot = id === model.tree.id;
+    const noun = leaf ? 'subtree' : 'this node';
+    return (React.createElement(Menu, { anchorReference: "anchorPosition", anchorPosition: { left: node.x, top: node.y }, transitionDuration: 0, open: true, onClose: onClose },
+        React.createElement(MenuItem, { dense: true, disabled: true }, name),
+        leaf ? (React.createElement(MenuItem, { dense: true, onClick: () => {
+                model.queueDialog(onClose => [
+                    TreeNodeInfoDialog,
+                    { info: model.getRowData(name), model, nodeName: name, onClose },
+                ]);
+                onClose();
+            } }, "More info...")) : null,
+        React.createElement(MenuItem, { dense: true, onClick: () => {
+                model.toggleCollapsed(id);
+                onClose();
+            } }, isCollapsed ? `Expand ${noun}` : `Collapse ${noun}`),
+        leaf ? null : (React.createElement(MenuItem, { dense: true, onClick: () => {
+                model.setShowOnly(showOnly === id ? undefined : id);
+                onClose();
+            } }, showOnly === id
+            ? 'Disable show only this node'
+            : 'Show only this node')),
+        leaf || isCollapsed ? null : (React.createElement(MenuItem, { dense: true, onClick: () => {
+                model.toggleRotated(id);
+                onClose();
+            } }, "Rotate this node")),
+        isRoot ? null : (React.createElement(MenuItem, { dense: true, onClick: () => {
+                model.rerootAt(id);
+                onClose();
+            } }, "Reroot here")),
+        leaf ? (React.createElement(MenuItem, { dense: true, onClick: () => {
+                model.drawRelativeTo(name);
+                onClose();
+            } }, "Indicate differences from this row")) : null,
+        leaf && relativeTo ? (React.createElement(MenuItem, { dense: true, onClick: () => {
+                model.drawRelativeTo(undefined);
+                onClose();
+            } }, "Clear reference row")) : null));
+});
+export default TreeMenu;
+//# sourceMappingURL=TreeMenu.js.map

package/dist/components/tree/TreeMenu.js.map

@@ -0,0 +1 @@
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package/dist/components/tree/TreeRuler.js

@@ -2,6 +2,7 @@ import React from 'react';
 import { useTheme } from '@mui/material';
 import { observer } from 'mobx-react';
 import { treeScaleBarHeight as h } from '../../constants.js';
+import ScaleBarSVG from './ScaleBarSVG.js';
 // The gutter above the tree panel, the width of the tree area, so the strip
 // headers beside it start where the strips do. A phylogram fills it with a
 // scale bar: without one the branch lengths are drawn to a scale nothing
@@ -9,9 +10,8 @@ import { treeScaleBarHeight as h } from '../../constants.js';
 const TreeRuler = observer(({ model }) => {
     const { treeAreaWidth, marginLeft, treeScaleBar: bar } = model;
     const theme = useTheme();
-    return (React.createElement("div", { style: { flexShrink: 0, width: treeAreaWidth } }, bar ? (React.createElement("svg", { width: treeAreaWidth, height: h, style: { display: 'block' }, color: theme.palette.text.primary },
-        React.createElement("text", { x: marginLeft, y: h - 9, fontSize: 10, fill: "currentColor" }, bar.label),
-        React.createElement("path", { d: `M${marginLeft} ${h - 7} v6 h${bar.px} v-6`, fill: "none", stroke: "currentColor" }))) : null));
+    return (React.createElement("div", { style: { flexShrink: 0, width: treeAreaWidth } }, bar ? (React.createElement("svg", { width: treeAreaWidth, height: h, style: { display: 'block' } },
+        React.createElement(ScaleBarSVG, { bar: bar, marginLeft: marginLeft, y: h, color: theme.palette.text.primary }))) : null));
 });
 export default TreeRuler;
 //# sourceMappingURL=TreeRuler.js.map

package/dist/components/tree/TreeRuler.js.map

@@ -1 +1 @@
-{"version":3,"file":"TreeRuler.js","sourceRoot":"","sources":["../../../src/components/tree/TreeRuler.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACxC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,kBAAkB,IAAI,CAAC,EAAE,MAAM,oBAAoB,CAAA;AAI5D,4EAA4E;AAC5E,2EAA2E;AAC3E,yEAAyE;AACzE,UAAU;AACV,MAAM,SAAS,GAAG,QAAQ,CAAC,CAAC,EAAE,KAAK,EAA2B,EAAE,EAAE;IAChE,MAAM,EAAE,aAAa,EAAE,UAAU,EAAE,YAAY,EAAE,GAAG,EAAE,GAAG,KAAK,CAAA;IAC9D,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IAExB,OAAO,CACL,6BAAK,KAAK,EAAE,EAAE,UAAU,EAAE,CAAC,EAAE,KAAK,EAAE,aAAa,EAAE,IAChD,GAAG,CAAC,CAAC,CAAC,CACL,6BACE,KAAK,EAAE,aAAa,EACpB,MAAM,EAAE,CAAC,EACT,KAAK,EAAE,EAAE,OAAO,EAAE,OAAO,EAAE,EAC3B,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,OAAO;QAEjC,8BAAM,CAAC,EAAE,UAAU,EAAE,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,QAAQ,EAAE,EAAE,EAAE,IAAI,EAAC,cAAc,IAC7D,GAAG,CAAC,KAAK,CACL;QACP,8BACE,CAAC,EAAE,IAAI,UAAU,IAAI,CAAC,GAAG,CAAC,QAAQ,GAAG,CAAC,EAAE,MAAM,EAC9C,IAAI,EAAC,MAAM,EACX,MAAM,EAAC,cAAc,GACrB,CACE,CACP,CAAC,CAAC,CAAC,IAAI,CACJ,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,SAAS,CAAA"}
+{"version":3,"file":"TreeRuler.js","sourceRoot":"","sources":["../../../src/components/tree/TreeRuler.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACxC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,kBAAkB,IAAI,CAAC,EAAE,MAAM,oBAAoB,CAAA;AAC5D,OAAO,WAAW,MAAM,kBAAmB,CAAA;AAI3C,4EAA4E;AAC5E,2EAA2E;AAC3E,yEAAyE;AACzE,UAAU;AACV,MAAM,SAAS,GAAG,QAAQ,CAAC,CAAC,EAAE,KAAK,EAA2B,EAAE,EAAE;IAChE,MAAM,EAAE,aAAa,EAAE,UAAU,EAAE,YAAY,EAAE,GAAG,EAAE,GAAG,KAAK,CAAA;IAC9D,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IAExB,OAAO,CACL,6BAAK,KAAK,EAAE,EAAE,UAAU,EAAE,CAAC,EAAE,KAAK,EAAE,aAAa,EAAE,IAChD,GAAG,CAAC,CAAC,CAAC,CACL,6BAAK,KAAK,EAAE,aAAa,EAAE,MAAM,EAAE,CAAC,EAAE,KAAK,EAAE,EAAE,OAAO,EAAE,OAAO,EAAE;QAC/D,oBAAC,WAAW,IACV,GAAG,EAAE,GAAG,EACR,UAAU,EAAE,UAAU,EACtB,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,OAAO,GACjC,CACE,CACP,CAAC,CAAC,CAAC,IAAI,CACJ,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,SAAS,CAAA"}

package/dist/components/tree/renderTreeCanvas.js

@@ -2,6 +2,7 @@ import { calcDepthToLeaf, nodeCoveringRows } from '../../hierarchy.js';
 import { setFontSize } from '../../setFontSize.js';
 import { getVisibleLeaves } from '../getVisibleLeaves.js';
 import { drawHighlightLabel, highlightLabelHeight, highlightRowFill, } from '../msa/renderHighlights.js';
+import { referenceColor } from '../overlayColors.js';
 import { bracketBarWidth, bracketGap } from './cladeBrackets.js';
 const radius = 2.5;
 const d = radius * 2;
@@ -42,6 +43,12 @@ function forEachNodeInBlock(root, offsetY, by, pad, cb) {
         }
     }
 }
+// withId gives an unnamed node its path, node-0-1-1, as its name
+function cladeName(node, unnamed) {
+    const { id, name } = node.data;
+    const label = name === id ? unnamed : name;
+    return node.value === undefined ? label : `${label} (${node.value} tips)`;
+}
 // Calculate node x-coordinate for both phylogram (with branch lengths) and
 // cladogram (topology only) modes. tipX is the pixel x the tips sit at.
 // For cladograms: x = (maxDepthToLeaf - nodeDepthToLeaf) / maxDepthToLeaf * tipX
@@ -104,7 +111,7 @@ function renderCollapsedTriangles({ ctx, clickMap, offsetY, model, theme, tipX,
     const by = blockSizeYOverride ?? blockSize;
     const halfHeight = Math.max(2, rowHeight * 0.42);
     forEachNodeInBlock(hierarchy, offsetY, by, blockPad(model), node => {
-        const { id, name } = node.data;
+        const { id } = node.data;
         if (collapsedSet.has(id)) {
             const apexX = getNodeX(node, showBranchLen, tipX, maxDepthToLeaf);
             const y = node.x;
@@ -132,7 +139,6 @@ function renderCollapsedTriangles({ ctx, clickMap, offsetY, model, theme, tipX,
                 // the whole triangle is a click/hover target that opens the
                 // branch menu (Expand this node); the apex bubble's own click entry is
                 // skipped for collapsed nodes so this descriptive label wins
-                const label = name === id ? 'Collapsed clade' : name;
                 clickMap?.insert({
                     minX: apexX + ml,
                     maxX: baseX + ml,
@@ -140,7 +146,7 @@ function renderCollapsedTriangles({ ctx, clickMap, offsetY, model, theme, tipX,
                     maxY: y + halfHeight,
                     branch: true,
                     id,
-                    name: count === undefined ? label : `${label} (${count} tips)`,
+                    name: cladeName(node, 'Collapsed clade'),
                 });
             }
         }
@@ -158,7 +164,7 @@ function renderNodeBubbles({ ctx, theme, clickMap, offsetY, model, tipX, maxDept
         }
         const { data } = node;
         const y = node.x;
-        const { id, name } = data;
+        const { id } = data;
         if (node.height >= 1 && inYBlock(y, offsetY, by, blockPad(model))) {
             const isCollapsed = collapsedSet.has(id);
             if (draw) {
@@ -181,7 +187,7 @@ function renderNodeBubbles({ ctx, theme, clickMap, offsetY, model, tipX, maxDept
                     maxY: y - radius + d,
                     branch: true,
                     id,
-                    name,
+                    name: cladeName(node, 'Clade'),
                 });
             }
         }
@@ -354,11 +360,11 @@ function renderCladeBrackets({ ctx, model, theme, offsetY, blockSizeYOverride, }
     ctx.lineWidth = 1;
     ctx.strokeStyle = theme.palette.text.primary;
 }
-// the `rowTint` encoding and the row sets of `highlights`, washed across the
-// tree area under the labels, with each set's label in the gutter at its first
-// row
+// the `rowTint` encoding, the reference row and the row sets of `highlights`,
+// washed across the tree area under the labels, with each set's label in the
+// gutter at its first row
 function renderRowHighlights({ ctx, model, theme, offsetY, blockSizeYOverride, }) {
-    const { resolvedHighlights, rowTints, rowHeight, treeAreaWidth, marginLeft, blockSize, } = model;
+    const { resolvedHighlights, rowTints, referenceRowIndex, rowHeight, treeAreaWidth, marginLeft, blockSize, } = model;
     const by = blockSizeYOverride ?? blockSize;
     const pad = blockPad(model);
     const placed = [];
@@ -376,6 +382,10 @@ function renderRowHighlights({ ctx, model, theme, offsetY, blockSizeYOverride, }
             }
         }
     }
+    if (referenceRowIndex !== undefined) {
+        ctx.fillStyle = referenceColor;
+        fillRow(referenceRowIndex);
+    }
     for (const { rowIndices, label, color } of resolvedHighlights) {
         ctx.fillStyle = color ?? highlightRowFill;
         for (const index of rowIndices) {

package/dist/components/tree/renderTreeCanvas.js.map

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package/dist/components/tree/renderTreeMouseover.d.ts

@@ -0,0 +1,5 @@
+import type { MsaViewModel } from '../../model.ts';
+export declare function renderTreeMouseover({ ctx, model, }: {
+    ctx: CanvasRenderingContext2D;
+    model: MsaViewModel;
+}): void;

package/dist/components/tree/renderTreeMouseover.js

@@ -0,0 +1,20 @@
+import { treeHoverColor } from '../overlayColors.js';
+export function renderTreeMouseover({ ctx, model, }) {
+    const { rowHeight, treeAreaWidth: width, height, scrollY, mouseRow, referenceRowIndex, hoveredRowIndices, highResScaleFactor, } = model;
+    ctx.resetTransform();
+    ctx.clearRect(0, 0, width * highResScaleFactor, height * highResScaleFactor);
+    ctx.scale(highResScaleFactor, highResScaleFactor);
+    const rowBand = (index) => {
+        ctx.fillRect(0, index * rowHeight + scrollY, width, rowHeight);
+    };
+    ctx.fillStyle = treeHoverColor;
+    for (const index of hoveredRowIndices) {
+        rowBand(index);
+    }
+    if (mouseRow !== undefined &&
+        mouseRow !== referenceRowIndex &&
+        !hoveredRowIndices.includes(mouseRow)) {
+        rowBand(mouseRow);
+    }
+}
+//# sourceMappingURL=renderTreeMouseover.js.map

package/dist/components/tree/renderTreeMouseover.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"renderTreeMouseover.js","sourceRoot":"","sources":["../../../src/components/tree/renderTreeMouseover.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,cAAc,EAAE,MAAM,qBAAqB,CAAA;AAIpD,MAAM,UAAU,mBAAmB,CAAC,EAClC,GAAG,EACH,KAAK,GAIN;IACC,MAAM,EACJ,SAAS,EACT,aAAa,EAAE,KAAK,EACpB,MAAM,EACN,OAAO,EACP,QAAQ,EACR,iBAAiB,EACjB,iBAAiB,EACjB,kBAAkB,GACnB,GAAG,KAAK,CAAA;IACT,GAAG,CAAC,cAAc,EAAE,CAAA;IACpB,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,KAAK,GAAG,kBAAkB,EAAE,MAAM,GAAG,kBAAkB,CAAC,CAAA;IAC5E,GAAG,CAAC,KAAK,CAAC,kBAAkB,EAAE,kBAAkB,CAAC,CAAA;IAEjD,MAAM,OAAO,GAAG,CAAC,KAAa,EAAE,EAAE;QAChC,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,KAAK,GAAG,SAAS,GAAG,OAAO,EAAE,KAAK,EAAE,SAAS,CAAC,CAAA;IAChE,CAAC,CAAA;IAED,GAAG,CAAC,SAAS,GAAG,cAAc,CAAA;IAC9B,KAAK,MAAM,KAAK,IAAI,iBAAiB,EAAE,CAAC;QACtC,OAAO,CAAC,KAAK,CAAC,CAAA;IAChB,CAAC;IACD,IACE,QAAQ,KAAK,SAAS;QACtB,QAAQ,KAAK,iBAAiB;QAC9B,CAAC,iBAAiB,CAAC,QAAQ,CAAC,QAAQ,CAAC,EACrC,CAAC;QACD,OAAO,CAAC,QAAQ,CAAC,CAAA;IACnB,CAAC;AACH,CAAC"}

package/dist/components/tree/useTreeHover.d.ts

@@ -2,22 +2,17 @@ import { ClickMapIndex } from './clickMap.ts';
 import type { MsaViewModel } from '../../model.ts';
 import type { ClickEntry } from './clickMap.ts';
 import type React from 'react';
-export interface TreeHoverTarget extends ClickEntry {
-    clientX: number;
-    clientY: number;
-}
 /**
  * Owns hit-testing for one tree block: the spatial index the render pass fills
- * in, the entry currently under the pointer, and the model hover state that the
- * MSA panel mirrors. The index is a render artifact rather than display state, so
- * it lives in a ref; everything the component draws comes back as plain state.
+ * in, the entry under the pointer with its tooltip anchor, and the model hover
+ * state that the MSA panel mirrors.
  */
 export declare function useTreeHover({ model, offsetY, }: {
     model: MsaViewModel;
     offsetY: number;
 }): {
     clickMap: ClickMapIndex;
-    hovered: TreeHoverTarget | undefined;
+    anchor: import("../useHoverAnchor.ts").HoverAnchor<ClickEntry> | undefined;
     hitTest: (event: React.MouseEvent) => ClickEntry | undefined;
     onMouseMove: (event: React.MouseEvent) => void;
     onMouseLeave: () => void;

package/dist/components/tree/useTreeHover.js

@@ -1,16 +1,16 @@
 import { useState } from 'react';
+import { useHoverAnchor } from '../useHoverAnchor.js';
 import { ClickMapIndex } from './clickMap.js';
 /**
  * Owns hit-testing for one tree block: the spatial index the render pass fills
- * in, the entry currently under the pointer, and the model hover state that the
- * MSA panel mirrors. The index is a render artifact rather than display state, so
- * it lives in a ref; everything the component draws comes back as plain state.
+ * in, the entry under the pointer with its tooltip anchor, and the model hover
+ * state that the MSA panel mirrors.
  */
 export function useTreeHover({ model, offsetY, }) {
     const [clickMap] = useState(() => new ClickMapIndex());
-    const [hovered, setHovered] = useState();
+    const { anchor, hoverAt, clearAnchor } = useHoverAnchor();
     // leaf labels win over the branch/bubble targets they overlap, so a click on a
-    // name opens the node menu rather than the branch menu
+    // name opens the leaf's menu
     function hitTest(event) {
         const x = event.nativeEvent.offsetX;
         const y = event.nativeEvent.offsetY + offsetY;
@@ -24,19 +24,17 @@ export function useTreeHover({ model, offsetY, }) {
     }
     function onMouseMove(event) {
         const entry = hitTest(event);
-        setHovered(entry
-            ? { ...entry, clientX: event.clientX, clientY: event.clientY }
-            : undefined);
+        hoverAt(event, entry);
         // hovering an internal node highlights every tip below it; hovering a leaf
         // label additionally drives the single-row highlight
         model.setHoveredTreeNode(entry?.id);
         model.setMousePos(undefined, entry && !entry.branch ? model.rowNamesSet.get(entry.name) : undefined);
     }
     function onMouseLeave() {
-        setHovered(undefined);
+        clearAnchor();
         model.setHoveredTreeNode(undefined);
         model.setMousePos(undefined, undefined);
     }
-    return { clickMap, hovered, hitTest, onMouseMove, onMouseLeave };
+    return { clickMap, anchor, hitTest, onMouseMove, onMouseLeave };
 }
 //# sourceMappingURL=useTreeHover.js.map

package/dist/components/tree/useTreeHover.js.map

@@ -1 +1 @@
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+{"version":3,"file":"useTreeHover.js","sourceRoot":"","sources":["../../../src/components/tree/useTreeHover.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEhC,OAAO,EAAE,cAAc,EAAE,MAAM,sBAAsB,CAAA;AACrD,OAAO,EAAE,aAAa,EAAE,MAAM,eAAe,CAAA;AAM7C;;;;GAIG;AACH,MAAM,UAAU,YAAY,CAAC,EAC3B,KAAK,EACL,OAAO,GAIR;IACC,MAAM,CAAC,QAAQ,CAAC,GAAG,QAAQ,CAAC,GAAG,EAAE,CAAC,IAAI,aAAa,EAAE,CAAC,CAAA;IACtD,MAAM,EAAE,MAAM,EAAE,OAAO,EAAE,WAAW,EAAE,GAAG,cAAc,EAAc,CAAA;IAErE,+EAA+E;IAC/E,6BAA6B;IAC7B,SAAS,OAAO,CAAC,KAAuB;QACtC,MAAM,CAAC,GAAG,KAAK,CAAC,WAAW,CAAC,OAAO,CAAA;QACnC,MAAM,CAAC,GAAG,KAAK,CAAC,WAAW,CAAC,OAAO,GAAG,OAAO,CAAA;QAC7C,MAAM,OAAO,GAAG,QAAQ,CAAC,MAAM,CAAC;YAC9B,IAAI,EAAE,CAAC;YACP,IAAI,EAAE,CAAC,GAAG,CAAC;YACX,IAAI,EAAE,CAAC;YACP,IAAI,EAAE,CAAC,GAAG,CAAC;SACZ,CAAC,CAAA;QACF,OAAO,OAAO,CAAC,IAAI,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,KAAK,CAAC,MAAM,CAAC,IAAI,OAAO,CAAC,CAAC,CAAC,CAAA;IAC3D,CAAC;IAED,SAAS,WAAW,CAAC,KAAuB;QAC1C,MAAM,KAAK,GAAG,OAAO,CAAC,KAAK,CAAC,CAAA;QAC5B,OAAO,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QACrB,2EAA2E;QAC3E,qDAAqD;QACrD,KAAK,CAAC,kBAAkB,CAAC,KAAK,EAAE,EAAE,CAAC,CAAA;QACnC,KAAK,CAAC,WAAW,CACf,SAAS,EACT,KAAK,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,KAAK,CAAC,WAAW,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,SAAS,CACvE,CAAA;IACH,CAAC;IAED,SAAS,YAAY;QACnB,WAAW,EAAE,CAAA;QACb,KAAK,CAAC,kBAAkB,CAAC,SAAS,CAAC,CAAA;QACnC,KAAK,CAAC,WAAW,CAAC,SAAS,EAAE,SAAS,CAAC,CAAA;IACzC,CAAC;IAED,OAAO,EAAE,QAAQ,EAAE,MAAM,EAAE,OAAO,EAAE,WAAW,EAAE,YAAY,EAAE,CAAA;AACjE,CAAC"}

package/dist/components/useHoverAnchor.d.ts

@@ -0,0 +1,19 @@
+export interface HoverAnchor<T> {
+    clientPoint: {
+        x: number;
+        y: number;
+    };
+    value: T;
+}
+/**
+ * The thing under the pointer and the point a tooltip about it hangs from,
+ * 15px below the cursor so the tooltip clears it.
+ */
+export declare function useHoverAnchor<T>(): {
+    anchor: HoverAnchor<T> | undefined;
+    hoverAt: (event: {
+        clientX: number;
+        clientY: number;
+    }, value: T | undefined) => void;
+    clearAnchor: () => void;
+};

package/dist/components/useHoverAnchor.js

@@ -0,0 +1,18 @@
+import { useState } from 'react';
+/**
+ * The thing under the pointer and the point a tooltip about it hangs from,
+ * 15px below the cursor so the tooltip clears it.
+ */
+export function useHoverAnchor() {
+    const [anchor, setAnchor] = useState();
+    function hoverAt(event, value) {
+        setAnchor(value === undefined
+            ? undefined
+            : { value, clientPoint: { x: event.clientX, y: event.clientY + 15 } });
+    }
+    function clearAnchor() {
+        setAnchor(undefined);
+    }
+    return { anchor, hoverAt, clearAnchor };
+}
+//# sourceMappingURL=useHoverAnchor.js.map

package/dist/components/useHoverAnchor.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"useHoverAnchor.js","sourceRoot":"","sources":["../../src/components/useHoverAnchor.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAOhC;;;GAGG;AACH,MAAM,UAAU,cAAc;IAC5B,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,QAAQ,EAAkB,CAAA;IAEtD,SAAS,OAAO,CACd,KAA2C,EAC3C,KAAoB;QAEpB,SAAS,CACP,KAAK,KAAK,SAAS;YACjB,CAAC,CAAC,SAAS;YACX,CAAC,CAAC,EAAE,KAAK,EAAE,WAAW,EAAE,EAAE,CAAC,EAAE,KAAK,CAAC,OAAO,EAAE,CAAC,EAAE,KAAK,CAAC,OAAO,GAAG,EAAE,EAAE,EAAE,CACxE,CAAA;IACH,CAAC;IAED,SAAS,WAAW;QAClB,SAAS,CAAC,SAAS,CAAC,CAAA;IACtB,CAAC;IAED,OAAO,EAAE,MAAM,EAAE,OAAO,EAAE,WAAW,EAAE,CAAA;AACzC,CAAC"}

package/dist/constants.d.ts

@@ -1,3 +1,4 @@
+import type { TreeOrder } from './types.ts';
 export declare const defaultRowHeight = 16;
 export declare const defaultColWidth = 12;
 export declare const defaultHeight = 550;
@@ -33,6 +34,8 @@ export declare const defaultLabelsAlignRight = false;
 export declare const defaultTreeAreaWidth = 400;
 export declare const defaultTreeWidth = 300;
 export declare const defaultShowBranchLen = true;
+export declare const treeOrders: readonly ["branchLength", "input", "ladderize", "ladderizeReverse"];
+export declare const defaultTreeOrder: TreeOrder;
 export declare const defaultDrawTree = true;
 export declare const defaultDrawNodeBubbles = true;
 export declare const defaultDrawNodeLabels = false;
@@ -42,7 +45,7 @@ export declare const maxNeighborJoiningRows = 500;
 export declare const rowTintAlpha = 0.25;
 export declare const cladeHighlightColor = "#fff3c4";
 export declare const cladeHighlightAlpha = 0.6;
-export declare const maxInlineSnapshotBytes = 50000;
+export declare const maxInlineSnapshotBytes = 15000;
 export declare const rowPanelHeaderHeight = 56;
 export declare const treeScaleBarHeight = 22;
 export declare const defaultFeaturePanelWidth = 200;

package/dist/constants.js

@@ -65,6 +65,13 @@ export const defaultLabelsAlignRight = false;
 export const defaultTreeAreaWidth = 400;
 export const defaultTreeWidth = 300;
 export const defaultShowBranchLen = true;
+export const treeOrders = [
+    'branchLength',
+    'input',
+    'ladderize',
+    'ladderizeReverse',
+];
+export const defaultTreeOrder = 'branchLength';
 export const defaultDrawTree = true;
 export const defaultDrawNodeBubbles = true;
 export const defaultDrawNodeLabels = false;
@@ -84,9 +91,11 @@ export const rowTintAlpha = 0.25;
 export const cladeHighlightColor = '#fff3c4';
 export const cladeHighlightAlpha = 0.6;
 // The largest inline document the snapshot carries. A larger pasted or
-// locally-opened file stays in the live model and out of the snapshot, keeping
-// shared URLs sendable. `unshareableData` warns using the same number.
-export const maxInlineSnapshotBytes = 50_000;
+// locally-opened file stays in the live model and out of the snapshot, and
+// `unshareableData` warns using the same number. The demo app gzips the
+// snapshot into `?data=`, where 15 kB of the hosted protein alignments encodes
+// to 6,300-7,600 characters, under the 8,192 gmod.org accepts.
+export const maxInlineSnapshotBytes = 15_000;
 // Height of the band the `rowPanels` headers draw in, above the strips in the
 // top area beside the tree ruler and the minimap. A panel wider than the band
 // is tall writes its header across, where it has more room.

package/dist/constants.js.map

@@ -1 +1 @@
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+{"version":3,"file":"constants.js","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAEA,sBAAsB;AACtB,MAAM,CAAC,MAAM,gBAAgB,GAAG,EAAE,CAAA;AAClC,MAAM,CAAC,MAAM,eAAe,GAAG,EAAE,CAAA;AACjC,MAAM,CAAC,MAAM,aAAa,GAAG,GAAG,CAAA;AAChC,MAAM,CAAC,MAAM,cAAc,GAAG,CAAC,CAAA;AAC/B,MAAM,CAAC,MAAM,cAAc,GAAG,CAAC,CAAA;AAC/B,MAAM,CAAC,MAAM,uBAAuB,GAAG,CAAC,CAAA;AACxC,0EAA0E;AAC1E,2BAA2B;AAC3B,MAAM,CAAC,MAAM,kBAAkB,GAAG,IAAI,CAAA;AACtC,MAAM,CAAC,MAAM,uBAAuB,GAAG,IAAI,CAAA;AAC3C,MAAM,CAAC,MAAM,eAAe,GAAG,IAAI,CAAA;AACnC,MAAM,CAAC,MAAM,uBAAuB,GAAG,GAAG,CAAA;AAC1C,MAAM,CAAC,MAAM,qBAAqB,GAAG,KAAK,CAAA;AAC1C,2EAA2E;AAC3E,kEAAkE;AAClE,MAAM,CAAC,MAAM,mBAAmB,GAAG,CAAC,CAAA;AACpC,uEAAuE;AACvE,MAAM,CAAC,MAAM,qBAAqB,GAAG,CAAC,CAAA;AAEtC,yEAAyE;AACzE,8EAA8E;AAC9E,wCAAwC;AACxC,MAAM,CAAC,MAAM,mBAAmB,GAAG,IAAI,GAAG,CAAC;IACzC,MAAM;IACN,KAAK;IACL,gBAAgB;IAChB,iBAAiB;IACjB,KAAK;IACL,QAAQ;CACT,CAAC,CAAA;AAEF,6DAA6D;AAC7D,MAAM,CAAC,MAAM,aAAa,GAAG,CAAC,SAAS,EAAE,SAAS,CAAC,CAAA;AACnD,MAAM,CAAC,MAAM,qBAAqB,GAAG,IAAI,CAAA;AACzC,MAAM,CAAC,MAAM,iBAAiB,GAAG,KAAK,CAAA;AAEtC,gFAAgF;AAChF,yEAAyE;AACzE,+BAA+B;AAC/B,MAAM,CAAC,MAAM,cAAc,GAAG,CAAC,MAAM,EAAE,YAAY,EAAE,UAAU,CAAU,CAAA;AAEzE,MAAM,CAAC,MAAM,qBAAqB,GAAmB,MAAM,CAAA;AAE3D,8EAA8E;AAC9E,2EAA2E;AAC3E,yCAAyC;AACzC,MAAM,CAAC,MAAM,kBAAkB,GAAG,CAAC,CAAA;AACnC,MAAM,CAAC,MAAM,iBAAiB,GAAG,CAAC,CAAA;AAElC,+EAA+E;AAC/E,0EAA0E;AAC1E,mDAAmD;AACnD,MAAM,CAAC,MAAM,qBAAqB,GAAG,CAAC,CAAA;AAEtC,4EAA4E;AAC5E,uDAAuD;AACvD,MAAM,CAAC,MAAM,sBAAsB,GAAG,EAAE,CAAA;AAExC,+EAA+E;AAC/E,iFAAiF;AACjF,0BAA0B;AAC1B,MAAM,CAAC,MAAM,WAAW,GAAG,GAAG,CAAA;AAC9B,MAAM,CAAC,MAAM,YAAY,GAAG,CAAC,CAAA;AAC7B,MAAM,CAAC,MAAM,WAAW,GAAG,EAAE,CAAA;AAE7B,qBAAqB;AACrB,MAAM,CAAC,MAAM,cAAc,GAAG,IAAI,CAAA;AAClC,MAAM,CAAC,MAAM,sBAAsB,GAAG,UAAU,CAAA;AAChD,MAAM,CAAC,MAAM,sBAAsB,GAAG,IAAI,CAAA;AAE1C,sBAAsB;AACtB,MAAM,CAAC,MAAM,iBAAiB,GAAG,IAAI,CAAA;AACrC,MAAM,CAAC,MAAM,uBAAuB,GAAG,KAAK,CAAA;AAC5C,MAAM,CAAC,MAAM,oBAAoB,GAAG,GAAG,CAAA;AACvC,MAAM,CAAC,MAAM,gBAAgB,GAAG,GAAG,CAAA;AACnC,MAAM,CAAC,MAAM,oBAAoB,GAAG,IAAI,CAAA;AACxC,MAAM,CAAC,MAAM,UAAU,GAAG;IACxB,cAAc;IACd,OAAO;IACP,WAAW;IACX,kBAAkB;CACqB,CAAA;AACzC,MAAM,CAAC,MAAM,gBAAgB,GAAc,cAAc,CAAA;AACzD,MAAM,CAAC,MAAM,eAAe,GAAG,IAAI,CAAA;AACnC,MAAM,CAAC,MAAM,sBAAsB,GAAG,IAAI,CAAA;AAC1C,MAAM,CAAC,MAAM,qBAAqB,GAAG,KAAK,CAAA;AAC1C,MAAM,CAAC,MAAM,uBAAuB,GAAG,KAAK,CAAA;AAC5C,MAAM,CAAC,MAAM,qBAAqB,GAAG,GAAG,CAAA;AAExC,6EAA6E;AAC7E,8EAA8E;AAC9E,+EAA+E;AAC/E,6DAA6D;AAC7D,MAAM,CAAC,MAAM,sBAAsB,GAAG,GAAG,CAAA;AAEzC,+EAA+E;AAC/E,2EAA2E;AAC3E,YAAY;AACZ,MAAM,CAAC,MAAM,YAAY,GAAG,IAAI,CAAA;AAEhC,8EAA8E;AAC9E,qEAAqE;AACrE,MAAM,CAAC,MAAM,mBAAmB,GAAG,SAAS,CAAA;AAC5C,MAAM,CAAC,MAAM,mBAAmB,GAAG,GAAG,CAAA;AAEtC,uEAAuE;AACvE,2EAA2E;AAC3E,wEAAwE;AACxE,+EAA+E;AAC/E,+DAA+D;AAC/D,MAAM,CAAC,MAAM,sBAAsB,GAAG,MAAM,CAAA;AAE5C,8EAA8E;AAC9E,8EAA8E;AAC9E,4DAA4D;AAC5D,MAAM,CAAC,MAAM,oBAAoB,GAAG,EAAE,CAAA;AAEtC,wDAAwD;AACxD,MAAM,CAAC,MAAM,kBAAkB,GAAG,EAAE,CAAA;AAEpC,0EAA0E;AAC1E,wCAAwC;AACxC,MAAM,CAAC,MAAM,wBAAwB,GAAG,GAAG,CAAA;AAE3C,+EAA+E;AAC/E,6EAA6E;AAC7E,mEAAmE;AACnE,MAAM,CAAC,MAAM,gBAAgB,GAAG,IAAI,CAAA;AACpC,MAAM,CAAC,MAAM,YAAY,GAAG,gBAAgB,GAAG,CAAC,CAAA"}

package/dist/expandSpec.js

@@ -9,9 +9,9 @@ function parseSpan(text, what) {
     if (!match) {
         throw new Error(`${what} "${text}" is not "start", "start-end" or either followed by a label`);
     }
-    const start = Number(match[1]);
-    const end = match[2] === undefined ? start : Number(match[2]);
-    return { start, end, label: match[3] };
+    const a = Number(match[1]);
+    const b = match[2] === undefined ? a : Number(match[2]);
+    return { start: Math.min(a, b), end: Math.max(a, b), label: match[3] };
 }
 function withRow(entry, query) {
     const { row, ...rest } = entry;

package/dist/expandSpec.js.map

@@ -1 +1 @@
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package/dist/exportFileName.d.ts

@@ -1,6 +1,6 @@
 import type { FileLocation } from '@jbrowse/core/util/types';
 /**
- * The name to save an export under: the loaded alignment's file name with the
- * extension swapped, or a plain default when the alignment was pasted in.
+ * The name to save an export under: the loaded file's name with the extension
+ * swapped, or `fallback` when the data was pasted in.
  */
-export declare function exportFileName(location: FileLocation | undefined, extension: string): string;
+export declare function exportFileName(location: FileLocation | undefined, extension: string, fallback?: string): string;

package/dist/exportFileName.js

@@ -1,8 +1,8 @@
 /**
- * The name to save an export under: the loaded alignment's file name with the
- * extension swapped, or a plain default when the alignment was pasted in.
+ * The name to save an export under: the loaded file's name with the extension
+ * swapped, or `fallback` when the data was pasted in.
  */
-export function exportFileName(location, extension) {
+export function exportFileName(location, extension, fallback = 'image') {
     const loc = location;
     const path = loc?.uri ?? loc?.localPath ?? loc?.name;
     const base = path
@@ -10,6 +10,6 @@ export function exportFileName(location, extension) {
         ?.split(/[/\\]/)
         .pop()
         ?.replace(/\.[^.]*$/, '');
-    return `${base || 'image'}.${extension}`;
+    return `${base || fallback}.${extension}`;
 }
 //# sourceMappingURL=exportFileName.js.map

package/dist/exportFileName.js.map

@@ -1 +1 @@
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