v1.0.1

GMOD · Nov 25, 2020 · 34eddf1 · 34eddf1
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diff --git a/lerna.json b/lerna.json
@@ -1,5 +1,5 @@
 {
-  "version": "1.0.0",
+  "version": "1.0.1",
   "npmClient": "yarn",
   "useWorkspaces": true
 }
diff --git a/packages/core/CHANGELOG.md b/packages/core/CHANGELOG.md
@@ -1,3 +1,13 @@
+## [1.0.1](https://github.com/GMOD/jbrowse-components/compare/v0.0.1-beta.11...v1.0.1) (2020-11-25)
+
+### Reverts
+
+- Revert "make rootModel setSession check and attempt to remove undefined MST references" ([c2c06d6](https://github.com/GMOD/jbrowse-components/commit/c2c06d6e18c60a09a4cdda15f53de1c3da7bc520))
+- Revert "Bump @docusaurus alpha version" ([32b604a](https://github.com/GMOD/jbrowse-components/commit/32b604a1ef829f2d2e17fa3822184577ea951e69))
+- Revert "Remove checkLocation from CLI base class" ([d399135](https://github.com/GMOD/jbrowse-components/commit/d399135e364d3553130c919bdfccbf17e14d6a9b))
+- Revert "Allow touchscreen using pointer events (#1112)" the pointer ([404546e](https://github.com/GMOD/jbrowse-components/commit/404546e5a1c71510a90a777957d32cd2c8f71ed1)), closes [#1112](https://github.com/GMOD/jbrowse-components/issues/1112)
+- Revert "Simplify command unzip (#1075)" ([9c0b975](https://github.com/GMOD/jbrowse-components/commit/9c0b97504b7a423a9c356ac3ffffc2754224c65a)), closes [#1075](https://github.com/GMOD/jbrowse-components/issues/1075)
+
 # [1.0.0](https://github.com/GMOD/jbrowse-components/compare/v0.0.1-beta.11...v1.0.0) (2020-11-06)
 
 ### Reverts

diff --git a/packages/core/package.json b/packages/core/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/core",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 core libraries used by plugins",
   "keywords": [
     "jbrowse",

diff --git a/packages/development-tools/CHANGELOG.md b/packages/development-tools/CHANGELOG.md
@@ -1,3 +1,13 @@
+## [1.0.1](https://github.com/GMOD/jbrowse-components/compare/v0.0.1-beta.11...v1.0.1) (2020-11-25)
+
+### Reverts
+
+- Revert "make rootModel setSession check and attempt to remove undefined MST references" ([c2c06d6](https://github.com/GMOD/jbrowse-components/commit/c2c06d6e18c60a09a4cdda15f53de1c3da7bc520))
+- Revert "Bump @docusaurus alpha version" ([32b604a](https://github.com/GMOD/jbrowse-components/commit/32b604a1ef829f2d2e17fa3822184577ea951e69))
+- Revert "Remove checkLocation from CLI base class" ([d399135](https://github.com/GMOD/jbrowse-components/commit/d399135e364d3553130c919bdfccbf17e14d6a9b))
+- Revert "Allow touchscreen using pointer events (#1112)" the pointer ([404546e](https://github.com/GMOD/jbrowse-components/commit/404546e5a1c71510a90a777957d32cd2c8f71ed1)), closes [#1112](https://github.com/GMOD/jbrowse-components/issues/1112)
+- Revert "Simplify command unzip (#1075)" ([9c0b975](https://github.com/GMOD/jbrowse-components/commit/9c0b97504b7a423a9c356ac3ffffc2754224c65a)), closes [#1075](https://github.com/GMOD/jbrowse-components/issues/1075)
+
 # [1.0.0](https://github.com/GMOD/jbrowse-components/compare/v0.0.1-beta.11...v1.0.0) (2020-11-06)
 
 ### Reverts

diff --git a/packages/development-tools/package.json b/packages/development-tools/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/development-tools",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "Tools to help with developing and building JBrowse 2 plugins",
   "keywords": [
     "jbrowse",
@@ -31,7 +31,7 @@
     "postpublish": "git push origin master --follow-tags"
   },
   "dependencies": {
-    "@jbrowse/core": "^1.0.0",
+    "@jbrowse/core": "^1.0.1",
     "@types/copy-webpack-plugin": "^6.0.0",
     "@types/webpack": "^4.41.18",
     "change-case": "^4.1.1",

diff --git a/plugins/alignments/package.json b/plugins/alignments/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-alignments",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 alignments adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/bed/package.json b/plugins/bed/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-bed",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 circular view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/config/package.json b/plugins/config/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-config",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 dotplot view",
   "keywords": [
     "jbrowse",

diff --git a/plugins/filtering/package.json b/plugins/filtering/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-filtering",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 filtering tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/gff3/package.json b/plugins/gff3/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-gff3",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 gff3.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/hic/package.json b/plugins/hic/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-hic",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 hic adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/legacy-jbrowse/package.json b/plugins/legacy-jbrowse/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-legacy-jbrowse",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 basic menus",
   "keywords": [
     "jbrowse",

diff --git a/plugins/protein/package.json b/plugins/protein/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-protein",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 protein-specific renderers, etc.",
   "keywords": [
     "jbrowse",

diff --git a/plugins/rdf/package.json b/plugins/rdf/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-rdf",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 spreadsheet view",
   "keywords": [
     "jbrowse",
@@ -37,7 +37,7 @@
   "dependencies": {
     "@gmod/bgzf-filehandle": "^1.3.4",
     "@gmod/vcf": "^4.0.0",
-    "@jbrowse/plugin-variants": "^1.0.0",
+    "@jbrowse/plugin-variants": "^1.0.1",
     "@material-ui/icons": "^4.9.1",
     "classnames": "^2.2.6",
     "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": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 plugin for svg features",
   "keywords": [
     "jbrowse",

diff --git a/plugins/trackhub-registry/package.json b/plugins/trackhub-registry/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-trackhub-registry",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "Add a connection to The Track Hub Registry",
   "keywords": [
     "jbrowse",

diff --git a/plugins/variants/package.json b/plugins/variants/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-variants",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "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": "1.0.0",
+  "version": "1.0.1",
   "description": "JBrowse 2 wiggle adapters, tracks, etc.",
   "keywords": [
     "jbrowse",

diff --git a/products/jbrowse-cli/README.md b/products/jbrowse-cli/README.md
@@ -134,7 +134,7 @@ EXAMPLES
   $ jbrowse add-assembly GRCh38.fa --target /path/to/jb2/installation/customconfig.json --load copy
 ```
 
-_See code: [src/commands/add-assembly.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/add-assembly.ts)_
+_See code: [src/commands/add-assembly.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/add-assembly.ts)_
 
 ## `jbrowse add-connection CONNECTIONURLORPATH`
 
@@ -188,7 +188,7 @@ EXAMPLES
   /path/to/jb2/installation/config.json
 ```
 
-_See code: [src/commands/add-connection.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/add-connection.ts)_
+_See code: [src/commands/add-connection.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/add-connection.ts)_
 
 ## `jbrowse add-track TRACK`
 
@@ -251,7 +251,7 @@ EXAMPLES
   $ jbrowse add-track /path/to/my.bam --config '{"defaultRendering": "density"}'
 ```
 
-_See code: [src/commands/add-track.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/add-track.ts)_
+_See code: [src/commands/add-track.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/add-track.ts)_
 
 ## `jbrowse add-track-json TRACK`
 
@@ -276,7 +276,7 @@ EXAMPLES
   $ jbrowse add-track-json track.json --update
 ```
 
-_See code: [src/commands/add-track-json.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/add-track-json.ts)_
+_See code: [src/commands/add-track-json.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/add-track-json.ts)_
 
 ## `jbrowse admin-server`
 
@@ -304,7 +304,7 @@ EXAMPLES
   $ jbrowse admin-server -p 8888
 ```
 
-_See code: [src/commands/admin-server.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/admin-server.ts)_
+_See code: [src/commands/admin-server.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/admin-server.ts)_
 
 ## `jbrowse create LOCALPATH`
 
@@ -335,7 +335,7 @@ EXAMPLES
   $ jbrowse create --listVersions # Lists out all available versions of JBrowse 2
 ```
 
-_See code: [src/commands/create.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/create.ts)_
+_See code: [src/commands/create.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/create.ts)_
 
 ## `jbrowse help [COMMAND]`
 
@@ -387,7 +387,7 @@ EXAMPLES
   $ jbrowse set-default-session --currentSession # Prints out current default session
 ```
 
-_See code: [src/commands/set-default-session.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/set-default-session.ts)_
+_See code: [src/commands/set-default-session.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/set-default-session.ts)_
 
 ## `jbrowse upgrade [LOCALPATH]`
 
@@ -417,7 +417,7 @@ EXAMPLES
   $ jbrowse upgrade --url https://sample.com/jbrowse2.zip
 ```
 
-_See code: [src/commands/upgrade.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.0/products/jbrowse-cli/src/commands/upgrade.ts)_
+_See code: [src/commands/upgrade.ts](https://github.com/GMOD/jbrowse-components/blob/%40jbrowse%2Fcli%401.0.1/products/jbrowse-cli/src/commands/upgrade.ts)_
 
 <!-- commandsstop -->
 

diff --git a/products/jbrowse-cli/package.json b/products/jbrowse-cli/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/cli",
-  "version": "1.0.0",
+  "version": "1.0.1",
   "description": "A command line tool for working with JBrowse 2",
   "keywords": [
     "jbrowse",