[update docs] v2.9.0

GMOD · Nov 30, 2023 · a50b6f6 · a50b6f6
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commit a50b6f6
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Showing 46 changed files with 194 additions and 194 deletions.
diff --git a/lerna.json b/lerna.json
@@ -1,5 +1,5 @@
 {
-  "version": "2.8.0",
+  "version": "2.9.0",
   "npmClient": "yarn",
   "$schema": "node_modules/lerna/schemas/lerna-schema.json"
 }
diff --git a/packages/app-core/package.json b/packages/app-core/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/app-core",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 code shared between the 'full featured' apps e.g. jbrowse-web and jbrowse-desktop",
   "keywords": [
     "jbrowse",
@@ -42,7 +42,7 @@
   },
   "dependencies": {
     "@babel/runtime": "^7.16.3",
-    "@jbrowse/product-core": "^2.8.0",
+    "@jbrowse/product-core": "^2.9.0",
     "@mui/icons-material": "^5.0.0",
     "@mui/material": "^5.10.17",
     "clsx": "^2.0.0",

diff --git a/packages/core/package.json b/packages/core/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/core",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 core libraries used by plugins",
   "keywords": [
     "jbrowse",

diff --git a/packages/embedded-core/package.json b/packages/embedded-core/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/embedded-core",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 code shared between embedded products",
   "keywords": [
     "jbrowse",
@@ -42,7 +42,7 @@
   },
   "dependencies": {
     "@babel/runtime": "^7.16.3",
-    "@jbrowse/product-core": "^2.8.0",
+    "@jbrowse/product-core": "^2.9.0",
     "@mui/icons-material": "^5.0.0",
     "@mui/material": "^5.10.17",
     "copy-to-clipboard": "^3.3.1",

diff --git a/packages/product-core/package.json b/packages/product-core/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/product-core",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "sideEffects": false,
   "description": "JBrowse 2 code shared between products but not used by plugins",
   "keywords": [
@@ -43,7 +43,7 @@
   },
   "dependencies": {
     "@babel/runtime": "^7.16.3",
-    "@jbrowse/core": "^2.8.0",
+    "@jbrowse/core": "^2.9.0",
     "@mui/icons-material": "^5.0.0",
     "@mui/material": "^5.10.17",
     "copy-to-clipboard": "^3.3.1",

diff --git a/packages/text-indexing/package.json b/packages/text-indexing/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/text-indexing",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 text indexing for desktop",
   "keywords": [
     "jbrowse",

diff --git a/packages/web-core/package.json b/packages/web-core/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/web-core",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 code shared between web-app type products",
   "keywords": [
     "jbrowse",
@@ -42,8 +42,8 @@
   },
   "dependencies": {
     "@babel/runtime": "^7.16.3",
-    "@jbrowse/app-core": "^2.8.0",
-    "@jbrowse/product-core": "^2.8.0",
+    "@jbrowse/app-core": "^2.9.0",
+    "@jbrowse/product-core": "^2.9.0",
     "@mui/icons-material": "^5.0.0",
     "@mui/material": "^5.10.17",
     "clone": "^2.0.0",

diff --git a/plugins/alignments/package.json b/plugins/alignments/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-alignments",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 alignments adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/arc/package.json b/plugins/arc/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-arc",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 arc adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/authentication/package.json b/plugins/authentication/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-authentication",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 Authentication",
   "keywords": [
     "jbrowse",

diff --git a/plugins/bed/package.json b/plugins/bed/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-bed",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 bed adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/breakpoint-split-view/package.json b/plugins/breakpoint-split-view/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-breakpoint-split-view",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 breakpoint detail split view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/circular-view/package.json b/plugins/circular-view/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-circular-view",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 circular view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/comparative-adapters/package.json b/plugins/comparative-adapters/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-comparative-adapters",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 comparative adapters",
   "keywords": [
     "jbrowse",

diff --git a/plugins/config/package.json b/plugins/config/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-config",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 config utilities",
   "keywords": [
     "jbrowse",

diff --git a/plugins/data-management/package.json b/plugins/data-management/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-data-management",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 linear genome view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/dotplot-view/package.json b/plugins/dotplot-view/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-dotplot-view",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 dotplot view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/gccontent/package.json b/plugins/gccontent/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-gccontent",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 gccontent concepts",
   "keywords": [
     "jbrowse",

diff --git a/plugins/gff3/package.json b/plugins/gff3/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-gff3",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 gff3.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/grid-bookmark/package.json b/plugins/grid-bookmark/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-grid-bookmark",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 grid bookmark widget",
   "keywords": [
     "jbrowse",

diff --git a/plugins/gtf/package.json b/plugins/gtf/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-gtf",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 gtf feature adapter",
   "keywords": [
     "jbrowse",

diff --git a/plugins/hic/package.json b/plugins/hic/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-hic",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 hic adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/jobs-management/package.json b/plugins/jobs-management/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-jobs-management",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 jobs management",
   "keywords": [
     "jbrowse",
@@ -36,7 +36,7 @@
     "clean": "rimraf dist esm *.tsbuildinfo"
   },
   "dependencies": {
-    "@jbrowse/text-indexing": "^2.8.0",
+    "@jbrowse/text-indexing": "^2.9.0",
     "@mui/icons-material": "^5.0.0"
   },
   "peerDependencies": {

diff --git a/plugins/legacy-jbrowse/package.json b/plugins/legacy-jbrowse/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-legacy-jbrowse",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 plugin for connecting to and reading JBrowse 1 data",
   "keywords": [
     "jbrowse",

diff --git a/plugins/linear-comparative-view/package.json b/plugins/linear-comparative-view/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-linear-comparative-view",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 linear comparative view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/linear-genome-view/package.json b/plugins/linear-genome-view/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-linear-genome-view",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 linear genome view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/lollipop/package.json b/plugins/lollipop/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-lollipop",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 plugin for lollipops",
   "keywords": [
     "jbrowse",

diff --git a/plugins/menus/package.json b/plugins/menus/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-menus",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 basic menus",
   "keywords": [
     "jbrowse",

diff --git a/plugins/rdf/package.json b/plugins/rdf/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-rdf",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 RDF resources",
   "keywords": [
     "jbrowse",

diff --git a/plugins/sequence/package.json b/plugins/sequence/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-sequence",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 sequence adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/spreadsheet-view/package.json b/plugins/spreadsheet-view/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-spreadsheet-view",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 spreadsheet view",
   "keywords": [
     "jbrowse",
@@ -38,7 +38,7 @@
   "dependencies": {
     "@gmod/bgzf-filehandle": "^1.4.3",
     "@gmod/vcf": "^5.0.9",
-    "@jbrowse/plugin-variants": "^2.8.0",
+    "@jbrowse/plugin-variants": "^2.9.0",
     "@mui/icons-material": "^5.0.1",
     "csvtojson": "^2.0.10"
   },

diff --git a/plugins/sv-inspector/package.json b/plugins/sv-inspector/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-sv-inspector",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 SV inspector view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/svg/package.json b/plugins/svg/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-svg",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 plugin for svg features",
   "keywords": [
     "jbrowse",

diff --git a/plugins/text-indexing/package.json b/plugins/text-indexing/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-text-indexing",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 text indexing rpc method",
   "keywords": [
     "jbrowse",
@@ -36,7 +36,7 @@
     "clean": "rimraf dist esm *.tsbuildinfo"
   },
   "dependencies": {
-    "@jbrowse/text-indexing": "^2.8.0"
+    "@jbrowse/text-indexing": "^2.9.0"
   },
   "peerDependencies": {
     "@jbrowse/core": "^2.0.0",

diff --git a/plugins/trix/package.json b/plugins/trix/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-trix",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 trix text search adapter",
   "keywords": [
     "jbrowse",

diff --git a/plugins/variants/package.json b/plugins/variants/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-variants",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 variant adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/wiggle/package.json b/plugins/wiggle/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-wiggle",
-  "version": "2.8.0",
+  "version": "2.9.0",
   "description": "JBrowse 2 wiggle adapters, tracks, etc.",
   "keywords": [
     "jbrowse",