From efe02fb9616e20e929cceeed46eb96420c1b6923 Mon Sep 17 00:00:00 2001 From: Colin Date: Thu, 25 Jul 2024 16:32:13 +0000 Subject: [PATCH] [update docs] v2.13.0 --- lerna.json | 2 +- packages/app-core/package.json | 4 +- packages/core/package.json | 2 +- packages/embedded-core/package.json | 4 +- packages/product-core/package.json | 4 +- packages/text-indexing/package.json | 2 +- packages/web-core/package.json | 6 +- plugins/alignments/package.json | 2 +- plugins/arc/package.json | 2 +- plugins/authentication/package.json | 2 +- plugins/bed/package.json | 2 +- plugins/breakpoint-split-view/package.json | 2 +- plugins/circular-view/package.json | 2 +- plugins/comparative-adapters/package.json | 2 +- plugins/config/package.json | 2 +- plugins/data-management/package.json | 2 +- plugins/dotplot-view/package.json | 2 +- plugins/gccontent/package.json | 2 +- plugins/gff3/package.json | 2 +- plugins/grid-bookmark/package.json | 2 +- plugins/gtf/package.json | 2 +- plugins/hic/package.json | 2 +- plugins/jobs-management/package.json | 4 +- plugins/legacy-jbrowse/package.json | 2 +- plugins/linear-comparative-view/package.json | 2 +- plugins/linear-genome-view/package.json | 2 +- plugins/lollipop/package.json | 2 +- plugins/menus/package.json | 2 +- plugins/rdf/package.json | 2 +- plugins/sequence/package.json | 2 +- plugins/spreadsheet-view/package.json | 4 +- plugins/sv-inspector/package.json | 2 +- plugins/svg/package.json | 2 +- plugins/text-indexing/package.json | 4 +- plugins/trix/package.json | 2 +- plugins/variants/package.json | 2 +- plugins/wiggle/package.json | 2 +- products/jbrowse-cli/README.md | 26 +++---- products/jbrowse-cli/package.json | 2 +- products/jbrowse-desktop/package.json | 70 +++++++++---------- products/jbrowse-img/package.json | 6 +- .../jbrowse-predefined-sessions/package.json | 2 +- products/jbrowse-react-app/package.json | 66 ++++++++--------- .../package.json | 24 +++---- .../package.json | 40 +++++------ products/jbrowse-web/package.json | 66 ++++++++--------- 46 files changed, 196 insertions(+), 196 deletions(-) diff --git a/lerna.json b/lerna.json index 1f67f50dc6..f69b3efd70 100644 --- a/lerna.json +++ b/lerna.json @@ -1,5 +1,5 @@ { - "version": "2.12.3", + "version": "2.13.0", "npmClient": "yarn", "$schema": "node_modules/lerna/schemas/lerna-schema.json" } diff --git a/packages/app-core/package.json b/packages/app-core/package.json index d16cb39121..bd9dbf8f83 100644 --- a/packages/app-core/package.json +++ b/packages/app-core/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/app-core", - "version": "2.12.3", + "version": "2.13.0", "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": "^2.12.3", + "@jbrowse/product-core": "^2.13.0", "@mui/icons-material": "^5.0.0", "@mui/material": "^5.10.17", "copy-to-clipboard": "^3.3.1", diff --git a/packages/core/package.json b/packages/core/package.json index 3694ce3e06..10d3436ff8 100644 --- a/packages/core/package.json +++ b/packages/core/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/core", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 core libraries used by plugins", "keywords": [ "jbrowse", diff --git a/packages/embedded-core/package.json b/packages/embedded-core/package.json index 65eaf85ccd..d427251fc2 100644 --- a/packages/embedded-core/package.json +++ b/packages/embedded-core/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/embedded-core", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 code shared between embedded products", "keywords": [ "jbrowse", @@ -42,7 +42,7 @@ }, "dependencies": { "@babel/runtime": "^7.16.3", - "@jbrowse/product-core": "^2.12.3", + "@jbrowse/product-core": "^2.13.0", "@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 index d949e9db51..2ec2ebb482 100644 --- a/packages/product-core/package.json +++ b/packages/product-core/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/product-core", - "version": "2.12.3", + "version": "2.13.0", "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": "^2.12.3", + "@jbrowse/core": "^2.13.0", "@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 index bd7186df62..bad5c0491b 100644 --- a/packages/text-indexing/package.json +++ b/packages/text-indexing/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/text-indexing", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 text indexing for desktop", "keywords": [ "jbrowse", diff --git a/packages/web-core/package.json b/packages/web-core/package.json index 789bcfe9bd..13c98c2c3e 100644 --- a/packages/web-core/package.json +++ b/packages/web-core/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/web-core", - "version": "2.12.3", + "version": "2.13.0", "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": "^2.12.3", - "@jbrowse/product-core": "^2.12.3", + "@jbrowse/app-core": "^2.13.0", + "@jbrowse/product-core": "^2.13.0", "@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 index 8f3d4a3d70..ed180076cb 100644 --- a/plugins/alignments/package.json +++ b/plugins/alignments/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-alignments", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 alignments adapters, tracks, etc.", "keywords": [ "jbrowse", diff --git a/plugins/arc/package.json b/plugins/arc/package.json index 89e53d2a26..12d265cf82 100644 --- a/plugins/arc/package.json +++ b/plugins/arc/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-arc", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 arc adapters, tracks, etc.", "keywords": [ "jbrowse", diff --git a/plugins/authentication/package.json b/plugins/authentication/package.json index 589f6b0343..c6262c31a1 100644 --- a/plugins/authentication/package.json +++ b/plugins/authentication/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-authentication", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 Authentication", "keywords": [ "jbrowse", diff --git a/plugins/bed/package.json b/plugins/bed/package.json index bc1f00a24f..066c405095 100644 --- a/plugins/bed/package.json +++ b/plugins/bed/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-bed", - "version": "2.12.3", + "version": "2.13.0", "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 index a0205d7e57..b14d9be168 100644 --- 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": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 breakpoint detail split view", "keywords": [ "jbrowse", diff --git a/plugins/circular-view/package.json b/plugins/circular-view/package.json index bde13a3db3..bdf91dd052 100644 --- a/plugins/circular-view/package.json +++ b/plugins/circular-view/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-circular-view", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 circular view", "keywords": [ "jbrowse", diff --git a/plugins/comparative-adapters/package.json b/plugins/comparative-adapters/package.json index 83cc00a42e..91e9f7944c 100644 --- a/plugins/comparative-adapters/package.json +++ b/plugins/comparative-adapters/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-comparative-adapters", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 comparative adapters", "keywords": [ "jbrowse", diff --git a/plugins/config/package.json b/plugins/config/package.json index cf9f0e69b4..ae1d5370d9 100644 --- a/plugins/config/package.json +++ b/plugins/config/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-config", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 config utilities", "keywords": [ "jbrowse", diff --git a/plugins/data-management/package.json b/plugins/data-management/package.json index 0945cbdd94..1313d6bb5e 100644 --- a/plugins/data-management/package.json +++ b/plugins/data-management/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-data-management", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 linear genome view", "keywords": [ "jbrowse", diff --git a/plugins/dotplot-view/package.json b/plugins/dotplot-view/package.json index 275122657a..198149a246 100644 --- a/plugins/dotplot-view/package.json +++ b/plugins/dotplot-view/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-dotplot-view", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 dotplot view", "keywords": [ "jbrowse", diff --git a/plugins/gccontent/package.json b/plugins/gccontent/package.json index 7dd6525417..93de514e2b 100644 --- a/plugins/gccontent/package.json +++ b/plugins/gccontent/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-gccontent", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 gccontent concepts", "keywords": [ "jbrowse", diff --git a/plugins/gff3/package.json b/plugins/gff3/package.json index 802cc44120..e7d7ce9916 100644 --- a/plugins/gff3/package.json +++ b/plugins/gff3/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-gff3", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 gff3.", "keywords": [ "jbrowse", diff --git a/plugins/grid-bookmark/package.json b/plugins/grid-bookmark/package.json index 6826181f12..e5de6adfe1 100644 --- a/plugins/grid-bookmark/package.json +++ b/plugins/grid-bookmark/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-grid-bookmark", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 grid bookmark widget", "keywords": [ "jbrowse", diff --git a/plugins/gtf/package.json b/plugins/gtf/package.json index ab6f9ca3c9..2df4168ebc 100644 --- a/plugins/gtf/package.json +++ b/plugins/gtf/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-gtf", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 gtf feature adapter", "keywords": [ "jbrowse", diff --git a/plugins/hic/package.json b/plugins/hic/package.json index 500c1ba44a..1d2dca3adf 100644 --- a/plugins/hic/package.json +++ b/plugins/hic/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-hic", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 hic adapters, tracks, etc.", "keywords": [ "jbrowse", diff --git a/plugins/jobs-management/package.json b/plugins/jobs-management/package.json index cc9379bfc9..0c4985e393 100644 --- a/plugins/jobs-management/package.json +++ b/plugins/jobs-management/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-jobs-management", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 jobs management", "keywords": [ "jbrowse", @@ -36,7 +36,7 @@ "clean": "rimraf dist esm *.tsbuildinfo" }, "dependencies": { - "@jbrowse/text-indexing": "^2.12.3", + "@jbrowse/text-indexing": "^2.13.0", "@mui/icons-material": "^5.0.0" }, "peerDependencies": { diff --git a/plugins/legacy-jbrowse/package.json b/plugins/legacy-jbrowse/package.json index 98c73aaedc..dfc3e2525a 100644 --- a/plugins/legacy-jbrowse/package.json +++ b/plugins/legacy-jbrowse/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-legacy-jbrowse", - "version": "2.12.3", + "version": "2.13.0", "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 index 98a03611ea..ab721c7a92 100644 --- 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": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 linear comparative view", "keywords": [ "jbrowse", diff --git a/plugins/linear-genome-view/package.json b/plugins/linear-genome-view/package.json index bb155cc9cc..bbe09a23bf 100644 --- 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": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 linear genome view", "keywords": [ "jbrowse", diff --git a/plugins/lollipop/package.json b/plugins/lollipop/package.json index 85087ea67b..c612caaa87 100644 --- a/plugins/lollipop/package.json +++ b/plugins/lollipop/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-lollipop", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 plugin for lollipops", "keywords": [ "jbrowse", diff --git a/plugins/menus/package.json b/plugins/menus/package.json index 7b6ce85038..1dcee7ccc8 100644 --- a/plugins/menus/package.json +++ b/plugins/menus/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-menus", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 basic menus", "keywords": [ "jbrowse", diff --git a/plugins/rdf/package.json b/plugins/rdf/package.json index 3bb2de2ea6..42219f96be 100644 --- a/plugins/rdf/package.json +++ b/plugins/rdf/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-rdf", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 RDF resources", "keywords": [ "jbrowse", diff --git a/plugins/sequence/package.json b/plugins/sequence/package.json index 2dde9680a3..c5c03905f8 100644 --- a/plugins/sequence/package.json +++ b/plugins/sequence/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-sequence", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 sequence adapters, tracks, etc.", "keywords": [ "jbrowse", diff --git a/plugins/spreadsheet-view/package.json b/plugins/spreadsheet-view/package.json index 58797bb760..3fc616a5b7 100644 --- a/plugins/spreadsheet-view/package.json +++ b/plugins/spreadsheet-view/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-spreadsheet-view", - "version": "2.12.3", + "version": "2.13.0", "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": "^2.12.3", + "@jbrowse/plugin-variants": "^2.13.0", "@mui/icons-material": "^5.0.1", "csvtojson": "^2.0.10" }, diff --git a/plugins/sv-inspector/package.json b/plugins/sv-inspector/package.json index 29afc9d1fb..f1159bd45b 100644 --- a/plugins/sv-inspector/package.json +++ b/plugins/sv-inspector/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-sv-inspector", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 SV inspector view", "keywords": [ "jbrowse", diff --git a/plugins/svg/package.json b/plugins/svg/package.json index 45eeecd185..ee82c6c091 100644 --- a/plugins/svg/package.json +++ b/plugins/svg/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-svg", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 plugin for svg features", "keywords": [ "jbrowse", diff --git a/plugins/text-indexing/package.json b/plugins/text-indexing/package.json index ff869c62bd..c338109d89 100644 --- a/plugins/text-indexing/package.json +++ b/plugins/text-indexing/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-text-indexing", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 text indexing rpc method", "keywords": [ "jbrowse", @@ -36,7 +36,7 @@ "clean": "rimraf dist esm *.tsbuildinfo" }, "dependencies": { - "@jbrowse/text-indexing": "^2.12.3" + "@jbrowse/text-indexing": "^2.13.0" }, "peerDependencies": { "@jbrowse/core": "^2.0.0", diff --git a/plugins/trix/package.json b/plugins/trix/package.json index 3ddc6dfcd5..320b778d14 100644 --- a/plugins/trix/package.json +++ b/plugins/trix/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-trix", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 trix text search adapter", "keywords": [ "jbrowse", diff --git a/plugins/variants/package.json b/plugins/variants/package.json index 6192359bf6..5a6e5c52a2 100644 --- a/plugins/variants/package.json +++ b/plugins/variants/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-variants", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 variant adapters, tracks, etc.", "keywords": [ "jbrowse", diff --git a/plugins/wiggle/package.json b/plugins/wiggle/package.json index b54beebc1d..a511463ebe 100644 --- a/plugins/wiggle/package.json +++ b/plugins/wiggle/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/plugin-wiggle", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 wiggle adapters, tracks, etc.", "keywords": [ "jbrowse", diff --git a/products/jbrowse-cli/README.md b/products/jbrowse-cli/README.md index e84fe97834..625e97261e 100644 --- a/products/jbrowse-cli/README.md +++ b/products/jbrowse-cli/README.md @@ -205,7 +205,7 @@ EXAMPLES ``` _See code: -[src/commands/add-assembly.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/add-assembly.ts)_ +[src/commands/add-assembly.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/add-assembly.ts)_ ## `jbrowse add-connection CONNECTIONURLORPATH` @@ -256,7 +256,7 @@ EXAMPLES ``` _See code: -[src/commands/add-connection.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/add-connection.ts)_ +[src/commands/add-connection.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/add-connection.ts)_ ## `jbrowse add-track TRACK` @@ -337,7 +337,7 @@ EXAMPLES ``` _See code: -[src/commands/add-track.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/add-track.ts)_ +[src/commands/add-track.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/add-track.ts)_ ## `jbrowse add-track-json TRACK` @@ -367,7 +367,7 @@ EXAMPLES ``` _See code: -[src/commands/add-track-json.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/add-track-json.ts)_ +[src/commands/add-track-json.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/add-track-json.ts)_ ## `jbrowse admin-server` @@ -399,7 +399,7 @@ EXAMPLES ``` _See code: -[src/commands/admin-server.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/admin-server.ts)_ +[src/commands/admin-server.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/admin-server.ts)_ ## `jbrowse create LOCALPATH` @@ -456,7 +456,7 @@ EXAMPLES ``` _See code: -[src/commands/create.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/create.ts)_ +[src/commands/create.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/create.ts)_ ## `jbrowse help [COMMAND]` @@ -477,7 +477,7 @@ DESCRIPTION ``` _See code: -[@oclif/plugin-help](https://github.com/oclif/plugin-help/blob/v6.2.5/src/commands/help.ts)_ +[@oclif/plugin-help](https://github.com/oclif/plugin-help/blob/v6.2.6/src/commands/help.ts)_ ## `jbrowse make-pif FILE` @@ -507,7 +507,7 @@ EXAMPLES ``` _See code: -[src/commands/make-pif.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/make-pif.ts)_ +[src/commands/make-pif.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/make-pif.ts)_ ## `jbrowse remove-track TRACK` @@ -535,7 +535,7 @@ EXAMPLES ``` _See code: -[src/commands/remove-track.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/remove-track.ts)_ +[src/commands/remove-track.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/remove-track.ts)_ ## `jbrowse set-default-session` @@ -577,7 +577,7 @@ EXAMPLES ``` _See code: -[src/commands/set-default-session.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/set-default-session.ts)_ +[src/commands/set-default-session.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/set-default-session.ts)_ ## `jbrowse sort-gff FILE` @@ -608,7 +608,7 @@ EXAMPLES ``` _See code: -[src/commands/sort-gff.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/sort-gff.ts)_ +[src/commands/sort-gff.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/sort-gff.ts)_ ## `jbrowse text-index` @@ -675,7 +675,7 @@ EXAMPLES ``` _See code: -[src/commands/text-index.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/text-index.ts)_ +[src/commands/text-index.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/text-index.ts)_ ## `jbrowse upgrade [LOCALPATH]` @@ -738,7 +738,7 @@ EXAMPLES ``` _See code: -[src/commands/upgrade.ts](https://github.com/GMOD/jbrowse-components/blob/v2.12.3/products/jbrowse-cli/src/commands/upgrade.ts)_ +[src/commands/upgrade.ts](https://github.com/GMOD/jbrowse-components/blob/v2.13.0/products/jbrowse-cli/src/commands/upgrade.ts)_ diff --git a/products/jbrowse-cli/package.json b/products/jbrowse-cli/package.json index 760533bb70..48610b8537 100644 --- a/products/jbrowse-cli/package.json +++ b/products/jbrowse-cli/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/cli", - "version": "2.12.3", + "version": "2.13.0", "description": "A command line tool for working with JBrowse 2", "keywords": [ "jbrowse", diff --git a/products/jbrowse-desktop/package.json b/products/jbrowse-desktop/package.json index ddc5781da9..de7a0444bc 100644 --- a/products/jbrowse-desktop/package.json +++ b/products/jbrowse-desktop/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/desktop", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse desktop application specialized to inspect structural variants", "license": "Apache-2.0", "homepage": "./", @@ -42,40 +42,40 @@ "@emotion/react": "^11.9.0", "@fontsource/roboto": "^5.0.2", "@gmod/faidx": "^1.0.1", - "@jbrowse/app-core": "^2.12.3", - "@jbrowse/core": "^2.12.3", - "@jbrowse/plugin-alignments": "^2.12.3", - "@jbrowse/plugin-arc": "^2.12.3", - "@jbrowse/plugin-authentication": "^2.12.3", - "@jbrowse/plugin-bed": "^2.12.3", - "@jbrowse/plugin-breakpoint-split-view": "^2.12.3", - "@jbrowse/plugin-circular-view": "^2.12.3", - "@jbrowse/plugin-comparative-adapters": "^2.12.3", - "@jbrowse/plugin-config": "^2.12.3", - "@jbrowse/plugin-data-management": "^2.12.3", - "@jbrowse/plugin-dotplot-view": "^2.12.3", - "@jbrowse/plugin-gccontent": "^2.12.3", - "@jbrowse/plugin-gff3": "^2.12.3", - "@jbrowse/plugin-grid-bookmark": "^2.12.3", - "@jbrowse/plugin-gtf": "^2.12.3", - "@jbrowse/plugin-hic": "^2.12.3", - "@jbrowse/plugin-jobs-management": "^2.12.3", - "@jbrowse/plugin-legacy-jbrowse": "^2.12.3", - "@jbrowse/plugin-linear-comparative-view": "^2.12.3", - "@jbrowse/plugin-linear-genome-view": "^2.12.3", - "@jbrowse/plugin-lollipop": "^2.12.3", - "@jbrowse/plugin-menus": "^2.12.3", - "@jbrowse/plugin-rdf": "^2.12.3", - "@jbrowse/plugin-sequence": "^2.12.3", - "@jbrowse/plugin-spreadsheet-view": "^2.12.3", - "@jbrowse/plugin-sv-inspector": "^2.12.3", - "@jbrowse/plugin-svg": "^2.12.3", - "@jbrowse/plugin-text-indexing": "^2.12.3", - "@jbrowse/plugin-trix": "^2.12.3", - "@jbrowse/plugin-variants": "^2.12.3", - "@jbrowse/plugin-wiggle": "^2.12.3", - "@jbrowse/product-core": "^2.12.3", - "@jbrowse/text-indexing": "^2.12.3", + "@jbrowse/app-core": "^2.13.0", + "@jbrowse/core": "^2.13.0", + "@jbrowse/plugin-alignments": "^2.13.0", + "@jbrowse/plugin-arc": "^2.13.0", + "@jbrowse/plugin-authentication": "^2.13.0", + "@jbrowse/plugin-bed": "^2.13.0", + "@jbrowse/plugin-breakpoint-split-view": "^2.13.0", + "@jbrowse/plugin-circular-view": "^2.13.0", + "@jbrowse/plugin-comparative-adapters": "^2.13.0", + "@jbrowse/plugin-config": "^2.13.0", + "@jbrowse/plugin-data-management": "^2.13.0", + "@jbrowse/plugin-dotplot-view": "^2.13.0", + "@jbrowse/plugin-gccontent": "^2.13.0", + "@jbrowse/plugin-gff3": "^2.13.0", + "@jbrowse/plugin-grid-bookmark": "^2.13.0", + "@jbrowse/plugin-gtf": "^2.13.0", + "@jbrowse/plugin-hic": "^2.13.0", + "@jbrowse/plugin-jobs-management": "^2.13.0", + "@jbrowse/plugin-legacy-jbrowse": "^2.13.0", + "@jbrowse/plugin-linear-comparative-view": "^2.13.0", + "@jbrowse/plugin-linear-genome-view": "^2.13.0", + "@jbrowse/plugin-lollipop": "^2.13.0", + "@jbrowse/plugin-menus": "^2.13.0", + "@jbrowse/plugin-rdf": "^2.13.0", + "@jbrowse/plugin-sequence": "^2.13.0", + "@jbrowse/plugin-spreadsheet-view": "^2.13.0", + "@jbrowse/plugin-sv-inspector": "^2.13.0", + "@jbrowse/plugin-svg": "^2.13.0", + "@jbrowse/plugin-text-indexing": "^2.13.0", + "@jbrowse/plugin-trix": "^2.13.0", + "@jbrowse/plugin-variants": "^2.13.0", + "@jbrowse/plugin-wiggle": "^2.13.0", + "@jbrowse/product-core": "^2.13.0", + "@jbrowse/text-indexing": "^2.13.0", "@mui/icons-material": "^5.0.0", "@mui/material": "^5.10.17", "@mui/x-data-grid": "^7.0.0", diff --git a/products/jbrowse-img/package.json b/products/jbrowse-img/package.json index 71290f359a..aff58e758d 100644 --- a/products/jbrowse-img/package.json +++ b/products/jbrowse-img/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/img", - "version": "2.12.3", + "version": "2.13.0", "main": "dist/index.js", "module": "esm/index.js", "author": "JBrowse Team", @@ -27,8 +27,8 @@ "@babel/runtime": "^7.17.9", "@emotion/cache": "^11.7.1", "@emotion/react": "^11.9.0", - "@jbrowse/plugin-linear-genome-view": "^2.12.3", - "@jbrowse/react-linear-genome-view": "^2.12.3", + "@jbrowse/plugin-linear-genome-view": "^2.13.0", + "@jbrowse/react-linear-genome-view": "^2.13.0", "canvas": "^2.9.1", "jsdom": "^24.0.0", "mobx": "^6.6.0", diff --git a/products/jbrowse-predefined-sessions/package.json b/products/jbrowse-predefined-sessions/package.json index e3e784669c..a4ab0860f6 100644 --- a/products/jbrowse-predefined-sessions/package.json +++ b/products/jbrowse-predefined-sessions/package.json @@ -1,6 +1,6 @@ { "name": "jbrowse-predefined-sessions", - "version": "2.12.3", + "version": "2.13.0", "main": "index.js", "author": "JBrowse Team", "license": "MIT", diff --git a/products/jbrowse-react-app/package.json b/products/jbrowse-react-app/package.json index 96cbcac6c7..529322da84 100644 --- a/products/jbrowse-react-app/package.json +++ b/products/jbrowse-react-app/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/react-app", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 app React component", "keywords": [ "jbrowse", @@ -48,38 +48,38 @@ "@emotion/cache": "^11.7.1", "@emotion/react": "^11.9.0", "@emotion/styled": "^11.8.1", - "@jbrowse/app-core": "^2.12.3", - "@jbrowse/core": "^2.12.3", - "@jbrowse/plugin-alignments": "^2.12.3", - "@jbrowse/plugin-arc": "^2.12.3", - "@jbrowse/plugin-authentication": "^2.12.3", - "@jbrowse/plugin-bed": "^2.12.3", - "@jbrowse/plugin-breakpoint-split-view": "^2.12.3", - "@jbrowse/plugin-circular-view": "^2.12.3", - "@jbrowse/plugin-comparative-adapters": "^2.12.3", - "@jbrowse/plugin-config": "^2.12.3", - "@jbrowse/plugin-data-management": "^2.12.3", - "@jbrowse/plugin-dotplot-view": "^2.12.3", - "@jbrowse/plugin-gccontent": "^2.12.3", - "@jbrowse/plugin-gff3": "^2.12.3", - "@jbrowse/plugin-grid-bookmark": "^2.12.3", - "@jbrowse/plugin-gtf": "^2.12.3", - "@jbrowse/plugin-hic": "^2.12.3", - "@jbrowse/plugin-legacy-jbrowse": "^2.12.3", - "@jbrowse/plugin-linear-comparative-view": "^2.12.3", - "@jbrowse/plugin-linear-genome-view": "^2.12.3", - "@jbrowse/plugin-lollipop": "^2.12.3", - "@jbrowse/plugin-menus": "^2.12.3", - "@jbrowse/plugin-rdf": "^2.12.3", - "@jbrowse/plugin-sequence": "^2.12.3", - "@jbrowse/plugin-spreadsheet-view": "^2.12.3", - "@jbrowse/plugin-sv-inspector": "^2.12.3", - "@jbrowse/plugin-svg": "^2.12.3", - "@jbrowse/plugin-trix": "^2.12.3", - "@jbrowse/plugin-variants": "^2.12.3", - "@jbrowse/plugin-wiggle": "^2.12.3", - "@jbrowse/product-core": "^2.12.3", - "@jbrowse/web-core": "^2.12.3", + "@jbrowse/app-core": "^2.13.0", + "@jbrowse/core": "^2.13.0", + "@jbrowse/plugin-alignments": "^2.13.0", + "@jbrowse/plugin-arc": "^2.13.0", + "@jbrowse/plugin-authentication": "^2.13.0", + "@jbrowse/plugin-bed": "^2.13.0", + "@jbrowse/plugin-breakpoint-split-view": "^2.13.0", + "@jbrowse/plugin-circular-view": "^2.13.0", + "@jbrowse/plugin-comparative-adapters": "^2.13.0", + "@jbrowse/plugin-config": "^2.13.0", + "@jbrowse/plugin-data-management": "^2.13.0", + "@jbrowse/plugin-dotplot-view": "^2.13.0", + "@jbrowse/plugin-gccontent": "^2.13.0", + "@jbrowse/plugin-gff3": "^2.13.0", + "@jbrowse/plugin-grid-bookmark": "^2.13.0", + "@jbrowse/plugin-gtf": "^2.13.0", + "@jbrowse/plugin-hic": "^2.13.0", + "@jbrowse/plugin-legacy-jbrowse": "^2.13.0", + "@jbrowse/plugin-linear-comparative-view": "^2.13.0", + "@jbrowse/plugin-linear-genome-view": "^2.13.0", + "@jbrowse/plugin-lollipop": "^2.13.0", + "@jbrowse/plugin-menus": "^2.13.0", + "@jbrowse/plugin-rdf": "^2.13.0", + "@jbrowse/plugin-sequence": "^2.13.0", + "@jbrowse/plugin-spreadsheet-view": "^2.13.0", + "@jbrowse/plugin-sv-inspector": "^2.13.0", + "@jbrowse/plugin-svg": "^2.13.0", + "@jbrowse/plugin-trix": "^2.13.0", + "@jbrowse/plugin-variants": "^2.13.0", + "@jbrowse/plugin-wiggle": "^2.13.0", + "@jbrowse/product-core": "^2.13.0", + "@jbrowse/web-core": "^2.13.0", "@mui/icons-material": "^5.0.0", "@mui/material": "^5.10.17", "base64-js": "^1.0.0", diff --git a/products/jbrowse-react-circular-genome-view/package.json b/products/jbrowse-react-circular-genome-view/package.json index a63319210a..d16da06063 100644 --- a/products/jbrowse-react-circular-genome-view/package.json +++ b/products/jbrowse-react-circular-genome-view/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/react-circular-genome-view", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 circular genome view React component", "keywords": [ "jbrowse", @@ -41,17 +41,17 @@ "@emotion/cache": "^11.7.1", "@emotion/react": "^11.9.0", "@emotion/styled": "^11.8.1", - "@jbrowse/core": "^2.12.3", - "@jbrowse/embedded-core": "^2.12.3", - "@jbrowse/plugin-authentication": "^2.12.3", - "@jbrowse/plugin-circular-view": "^2.12.3", - "@jbrowse/plugin-config": "^2.12.3", - "@jbrowse/plugin-data-management": "^2.12.3", - "@jbrowse/plugin-linear-genome-view": "^2.12.3", - "@jbrowse/plugin-sequence": "^2.12.3", - "@jbrowse/plugin-variants": "^2.12.3", - "@jbrowse/plugin-wiggle": "^2.12.3", - "@jbrowse/product-core": "^2.12.3", + "@jbrowse/core": "^2.13.0", + "@jbrowse/embedded-core": "^2.13.0", + "@jbrowse/plugin-authentication": "^2.13.0", + "@jbrowse/plugin-circular-view": "^2.13.0", + "@jbrowse/plugin-config": "^2.13.0", + "@jbrowse/plugin-data-management": "^2.13.0", + "@jbrowse/plugin-linear-genome-view": "^2.13.0", + "@jbrowse/plugin-sequence": "^2.13.0", + "@jbrowse/plugin-variants": "^2.13.0", + "@jbrowse/plugin-wiggle": "^2.13.0", + "@jbrowse/product-core": "^2.13.0", "@mui/icons-material": "^5.0.0", "@mui/material": "^5.10.17", "mobx": "^6.6.0", diff --git a/products/jbrowse-react-linear-genome-view/package.json b/products/jbrowse-react-linear-genome-view/package.json index 6d06c8c0c0..a3cd9f0fc9 100644 --- a/products/jbrowse-react-linear-genome-view/package.json +++ b/products/jbrowse-react-linear-genome-view/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/react-linear-genome-view", - "version": "2.12.3", + "version": "2.13.0", "description": "JBrowse 2 linear genome view React component", "keywords": [ "jbrowse", @@ -48,25 +48,25 @@ "@emotion/cache": "^11.7.1", "@emotion/react": "^11.9.0", "@emotion/styled": "^11.8.1", - "@jbrowse/core": "^2.12.3", - "@jbrowse/embedded-core": "^2.12.3", - "@jbrowse/plugin-alignments": "^2.12.3", - "@jbrowse/plugin-arc": "^2.12.3", - "@jbrowse/plugin-authentication": "^2.12.3", - "@jbrowse/plugin-bed": "^2.12.3", - "@jbrowse/plugin-circular-view": "^2.12.3", - "@jbrowse/plugin-config": "^2.12.3", - "@jbrowse/plugin-data-management": "^2.12.3", - "@jbrowse/plugin-gccontent": "^2.12.3", - "@jbrowse/plugin-gff3": "^2.12.3", - "@jbrowse/plugin-legacy-jbrowse": "^2.12.3", - "@jbrowse/plugin-linear-genome-view": "^2.12.3", - "@jbrowse/plugin-sequence": "^2.12.3", - "@jbrowse/plugin-svg": "^2.12.3", - "@jbrowse/plugin-trix": "^2.12.3", - "@jbrowse/plugin-variants": "^2.12.3", - "@jbrowse/plugin-wiggle": "^2.12.3", - "@jbrowse/product-core": "^2.12.3", + "@jbrowse/core": "^2.13.0", + "@jbrowse/embedded-core": "^2.13.0", + "@jbrowse/plugin-alignments": "^2.13.0", + "@jbrowse/plugin-arc": "^2.13.0", + "@jbrowse/plugin-authentication": "^2.13.0", + "@jbrowse/plugin-bed": "^2.13.0", + "@jbrowse/plugin-circular-view": "^2.13.0", + "@jbrowse/plugin-config": "^2.13.0", + "@jbrowse/plugin-data-management": "^2.13.0", + "@jbrowse/plugin-gccontent": "^2.13.0", + "@jbrowse/plugin-gff3": "^2.13.0", + "@jbrowse/plugin-legacy-jbrowse": "^2.13.0", + "@jbrowse/plugin-linear-genome-view": "^2.13.0", + "@jbrowse/plugin-sequence": "^2.13.0", + "@jbrowse/plugin-svg": "^2.13.0", + "@jbrowse/plugin-trix": "^2.13.0", + "@jbrowse/plugin-variants": "^2.13.0", + "@jbrowse/plugin-wiggle": "^2.13.0", + "@jbrowse/product-core": "^2.13.0", "@mui/icons-material": "^5.0.0", "@mui/material": "^5.10.17", "mobx": "^6.6.0", diff --git a/products/jbrowse-web/package.json b/products/jbrowse-web/package.json index 230a8f7ce1..d39c03df3e 100644 --- a/products/jbrowse-web/package.json +++ b/products/jbrowse-web/package.json @@ -1,6 +1,6 @@ { "name": "@jbrowse/web", - "version": "2.12.3", + "version": "2.13.0", "license": "Apache-2.0", "homepage": ".", "main": "build", @@ -15,38 +15,38 @@ }, "dependencies": { "@fontsource/roboto": "^5.0.2", - "@jbrowse/app-core": "^2.12.3", - "@jbrowse/core": "^2.12.3", - "@jbrowse/plugin-alignments": "^2.12.3", - "@jbrowse/plugin-arc": "^2.12.3", - "@jbrowse/plugin-authentication": "^2.12.3", - "@jbrowse/plugin-bed": "^2.12.3", - "@jbrowse/plugin-breakpoint-split-view": "^2.12.3", - "@jbrowse/plugin-circular-view": "^2.12.3", - "@jbrowse/plugin-comparative-adapters": "^2.12.3", - "@jbrowse/plugin-config": "^2.12.3", - "@jbrowse/plugin-data-management": "^2.12.3", - "@jbrowse/plugin-dotplot-view": "^2.12.3", - "@jbrowse/plugin-gccontent": "^2.12.3", - "@jbrowse/plugin-gff3": "^2.12.3", - "@jbrowse/plugin-grid-bookmark": "^2.12.3", - "@jbrowse/plugin-gtf": "^2.12.3", - "@jbrowse/plugin-hic": "^2.12.3", - "@jbrowse/plugin-legacy-jbrowse": "^2.12.3", - "@jbrowse/plugin-linear-comparative-view": "^2.12.3", - "@jbrowse/plugin-linear-genome-view": "^2.12.3", - "@jbrowse/plugin-lollipop": "^2.12.3", - "@jbrowse/plugin-menus": "^2.12.3", - "@jbrowse/plugin-rdf": "^2.12.3", - "@jbrowse/plugin-sequence": "^2.12.3", - "@jbrowse/plugin-spreadsheet-view": "^2.12.3", - "@jbrowse/plugin-sv-inspector": "^2.12.3", - "@jbrowse/plugin-svg": "^2.12.3", - "@jbrowse/plugin-trix": "^2.12.3", - "@jbrowse/plugin-variants": "^2.12.3", - "@jbrowse/plugin-wiggle": "^2.12.3", - "@jbrowse/product-core": "^2.12.3", - "@jbrowse/web-core": "^2.12.3", + "@jbrowse/app-core": "^2.13.0", + "@jbrowse/core": "^2.13.0", + "@jbrowse/plugin-alignments": "^2.13.0", + "@jbrowse/plugin-arc": "^2.13.0", + "@jbrowse/plugin-authentication": "^2.13.0", + "@jbrowse/plugin-bed": "^2.13.0", + "@jbrowse/plugin-breakpoint-split-view": "^2.13.0", + "@jbrowse/plugin-circular-view": "^2.13.0", + "@jbrowse/plugin-comparative-adapters": "^2.13.0", + "@jbrowse/plugin-config": "^2.13.0", + "@jbrowse/plugin-data-management": "^2.13.0", + "@jbrowse/plugin-dotplot-view": "^2.13.0", + "@jbrowse/plugin-gccontent": "^2.13.0", + "@jbrowse/plugin-gff3": "^2.13.0", + "@jbrowse/plugin-grid-bookmark": "^2.13.0", + "@jbrowse/plugin-gtf": "^2.13.0", + "@jbrowse/plugin-hic": "^2.13.0", + "@jbrowse/plugin-legacy-jbrowse": "^2.13.0", + "@jbrowse/plugin-linear-comparative-view": "^2.13.0", + "@jbrowse/plugin-linear-genome-view": "^2.13.0", + "@jbrowse/plugin-lollipop": "^2.13.0", + "@jbrowse/plugin-menus": "^2.13.0", + "@jbrowse/plugin-rdf": "^2.13.0", + "@jbrowse/plugin-sequence": "^2.13.0", + "@jbrowse/plugin-spreadsheet-view": "^2.13.0", + "@jbrowse/plugin-sv-inspector": "^2.13.0", + "@jbrowse/plugin-svg": "^2.13.0", + "@jbrowse/plugin-trix": "^2.13.0", + "@jbrowse/plugin-variants": "^2.13.0", + "@jbrowse/plugin-wiggle": "^2.13.0", + "@jbrowse/product-core": "^2.13.0", + "@jbrowse/web-core": "^2.13.0", "@mui/icons-material": "^5.0.0", "@mui/material": "^5.10.17", "@mui/x-data-grid": "^7.0.0",