archaeopteryx 3.25.0 → 3.27.0

package/forester.js

@@ -20,7 +20,7 @@
  *
  */
 
-// v 3.25.0
+// v 3.27.0
 // 2026-09-17
 //
 // forester.js is a general suite for dealing with phylogenetic trees.
@@ -102,6 +102,13 @@
 
     const NUMBERS_ONLY_PATTERN = /^[-+]?[0-9\\.]+$/;
 
+    // The release this file belongs to. archaeopteryx.js compares it with its
+    // own (archaeopteryx.doctor): the two are separate files, a site that
+    // concatenates its own bundle can pair them from different releases, and
+    // until this constant nothing could tell. Bumped with the other four
+    // places; test/visualization_test.js holds all five together.
+    forester.VERSION = '3.27.0';
+
 
     /**
      * Sets links to parent nodes for all nodes in a
@@ -8784,7 +8791,11 @@
     // -- 1, 2 or 5 times a power of ten -- chosen so the bar comes out about
     // targetPx long at pxPerUnit pixels per unit. Returns {length, label,
     // px}, or null when the scale is unusable (zero, negative or infinite).
-    forester.scaleBarLength = function (pxPerUnit, targetPx) {
+    // The label carries the tree's stated unit after the number ("0.05
+    // subs/site"), as the distance axis does at its end, and nothing when
+    // the file states none: a tree that does not say what its lengths
+    // measure gets no guess (a BV-BRC user asked for units, 2026-10-08).
+    forester.scaleBarLength = function (pxPerUnit, targetPx, unit) {
         if (!(pxPerUnit > 0) || !isFinite(pxPerUnit)) {
             return null;
         }
@@ -8793,7 +8804,8 @@
         let base = raw / Math.pow(10, k);
         let nice = base < 1.5 ? 1 : (base < 3.5 ? 2 : (base < 7.5 ? 5 : 10));
         let length = Number((nice * Math.pow(10, k)).toPrecision(2));
-        return {length: length, label: String(length), px: length * pxPerUnit};
+        let u = typeof unit === 'string' ? unit.trim() : '';
+        return {length: length, label: String(length) + (u ? ' ' + u : ''), px: length * pxPerUnit};
     };
 
     // --------------------------------------------------------------

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "archaeopteryx",
-  "version": "3.25.0",
+  "version": "3.27.0",
   "description": "Archaeopteryx.js is a software tool for the visualization and analysis of highly annotated phylogenetic trees.",
   "main": "archaeopteryx.js",
   "types": "archaeopteryx.d.ts",
@@ -20,7 +20,7 @@
     "LICENSE"
   ],
   "scripts": {
-    "test": "node test/forester_test.js && node test/search_test.js && node test/visualization_test.js && node test/domain_test.js && node test/gene_test.js && node test/clock_test.js && node test/metadata_test.js && node test/heatmap_test.js && node test/clustering_test.js && node test/canvg_global_test.js",
+    "test": "node test/forester_test.js && node test/search_test.js && node test/visualization_test.js && node test/domain_test.js && node test/gene_test.js && node test/clock_test.js && node test/metadata_test.js && node test/heatmap_test.js && node test/clustering_test.js && node test/canvg_global_test.js && node test/doctor_test.js",
     "lint": "eslint .",
     "lint:fix": "eslint . --fix",
     "format": "prettier --write .",