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Nightingale v4 #458

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merged 36 commits into from
Apr 12, 2023
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817d444
using nightingale 4.0.4-alpha.0
gustavo-salazar Nov 23, 2022
3f65b68
nightingale v4: popups and highlights
gustavo-salazar Nov 29, 2022
f597ecb
Merge branch 'dev' into nightingaleV4
gustavo-salazar Nov 29, 2022
a759973
flow typed update
gustavo-salazar Nov 29, 2022
cc6073c
nightingale v4: using nightingale components in other components
gustavo-salazar Nov 29, 2022
dce5a05
removing protvista-zoom-tool + migrating into nightingale-saver
gustavo-salazar Dec 2, 2022
63a55e5
nightingale-overlay
gustavo-salazar Dec 9, 2022
e29ad86
flow-typed update
gustavo-salazar Dec 9, 2022
b1462d3
using the label inside the track
gustavo-salazar Dec 9, 2022
0278662
fixes for merging conflicts
gustavo-salazar Jan 26, 2023
a58c0b1
fixes for merging conflicts 2
gustavo-salazar Jan 26, 2023
b7da9c8
using nightingale-msa
gustavo-salazar Jan 26, 2023
145f03a
nightingalev4: sunburst+heatmap
gustavo-salazar Feb 3, 2023
3ddf68c
Merge branch 'master' into nightingaleV4
gustavo-salazar Feb 8, 2023
9732a08
nigtingale 22-alpha + bug fixes
gustavo-salazar Feb 8, 2023
ef86943
deps bump:batch
gustavo-salazar Feb 9, 2023
f611e56
deps bump: minor
gustavo-salazar Feb 9, 2023
72bbf74
margin in interprotracks transparent
gustavo-salazar Feb 9, 2023
383d8c8
flow typed update
gustavo-salazar Feb 9, 2023
bb7bb00
fixing some visual differences with nightingave v3
gustavo-salazar Feb 9, 2023
5459870
updating action in github workflow
gustavo-salazar Feb 9, 2023
6d83b70
@nightingale-elements:4.0.24-alpha.0
gustavo-salazar Mar 10, 2023
46842df
solving conflicts
gustavo-salazar Mar 15, 2023
cdc686f
nightingale v4.0.0
gustavo-salazar Mar 22, 2023
e4d82b3
bugfix: selecting region of alphafold structure
gustavo-salazar Mar 22, 2023
1f1107a
solving conflicts merging TS stuff
gustavo-salazar Mar 30, 2023
6b39cdb
removing legacy bundle
gustavo-salazar Mar 30, 2023
a78952b
removing commented lines + a bit of styling
gustavo-salazar Mar 31, 2023
20fd5d1
Apply suggestions from code review
gustavo-salazar Apr 12, 2023
acf9473
Update src/subPages/EntryAlignments/Viewer/index.js
gustavo-salazar Apr 12, 2023
410cbc4
removing TODO
gustavo-salazar Apr 12, 2023
27c1cdf
solving deps conflicts
gustavo-salazar Apr 12, 2023
f8fa6ae
Apply suggestions from code review
gustavo-salazar Apr 12, 2023
bcf21ca
Merge branch 'nightingaleV4' into remove-legacy-bundle
gustavo-salazar Apr 12, 2023
6f3851a
5!==30
gustavo-salazar Apr 12, 2023
e8be7b4
Merge pull request #471 from ProteinsWebTeam/remove-legacy-bundle
gustavo-salazar Apr 12, 2023
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2 changes: 1 addition & 1 deletion .github/workflows/test-build-report.yml
Original file line number Diff line number Diff line change
Expand Up @@ -24,7 +24,7 @@ jobs:
env:
LHCI_GITHUB_APP_TOKEN: ${{ secrets.LHCI_GITHUB_APP_TOKEN }}
- name: 💾 Archive reports
uses: actions/upload-artifact@v2
uses: actions/upload-artifact@v3
with:
name: reports
path: |
Expand Down
32 changes: 23 additions & 9 deletions flow-typed/npm/@babel/core_vx.x.x.js
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
// flow-typed signature: 2975ba27fa06ee7f77a1906dcf7080f3
// flow-typed version: <<STUB>>/@babel/core_v7.18.6/flow_v0.171.0
// flow-typed signature: ed1b06309f185cbdc3b282a84fbfdd1a
// flow-typed version: <<STUB>>/@babel/core_v7.20.12/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
Expand Down Expand Up @@ -46,10 +46,6 @@ declare module '@babel/core/lib/config/files/import-meta-resolve' {
declare module.exports: any;
}

declare module '@babel/core/lib/config/files/import' {
declare module.exports: any;
}

declare module '@babel/core/lib/config/files/index-browser' {
declare module.exports: any;
}
Expand Down Expand Up @@ -146,6 +142,14 @@ declare module '@babel/core/lib/config/validation/removed' {
declare module.exports: any;
}

declare module '@babel/core/lib/errors/config-error' {
declare module.exports: any;
}

declare module '@babel/core/lib/errors/rewrite-stack-trace' {
declare module.exports: any;
}

declare module '@babel/core/lib/gensync-utils/async' {
declare module.exports: any;
}
Expand All @@ -154,6 +158,10 @@ declare module '@babel/core/lib/gensync-utils/fs' {
declare module.exports: any;
}

declare module '@babel/core/lib/gensync-utils/functional' {
declare module.exports: any;
}

declare module '@babel/core/lib' {
declare module.exports: any;
}
Expand Down Expand Up @@ -249,9 +257,6 @@ declare module '@babel/core/lib/config/files/configuration.js' {
declare module '@babel/core/lib/config/files/import-meta-resolve.js' {
declare module.exports: $Exports<'@babel/core/lib/config/files/import-meta-resolve'>;
}
declare module '@babel/core/lib/config/files/import.js' {
declare module.exports: $Exports<'@babel/core/lib/config/files/import'>;
}
declare module '@babel/core/lib/config/files/index-browser.js' {
declare module.exports: $Exports<'@babel/core/lib/config/files/index-browser'>;
}
Expand Down Expand Up @@ -330,12 +335,21 @@ declare module '@babel/core/lib/config/validation/plugins.js' {
declare module '@babel/core/lib/config/validation/removed.js' {
declare module.exports: $Exports<'@babel/core/lib/config/validation/removed'>;
}
declare module '@babel/core/lib/errors/config-error.js' {
declare module.exports: $Exports<'@babel/core/lib/errors/config-error'>;
}
declare module '@babel/core/lib/errors/rewrite-stack-trace.js' {
declare module.exports: $Exports<'@babel/core/lib/errors/rewrite-stack-trace'>;
}
declare module '@babel/core/lib/gensync-utils/async.js' {
declare module.exports: $Exports<'@babel/core/lib/gensync-utils/async'>;
}
declare module '@babel/core/lib/gensync-utils/fs.js' {
declare module.exports: $Exports<'@babel/core/lib/gensync-utils/fs'>;
}
declare module '@babel/core/lib/gensync-utils/functional.js' {
declare module.exports: $Exports<'@babel/core/lib/gensync-utils/functional'>;
}
declare module '@babel/core/lib/index' {
declare module.exports: $Exports<'@babel/core/lib'>;
}
Expand Down
4 changes: 2 additions & 2 deletions flow-typed/npm/@babel/eslint-parser_vx.x.x.js
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
// flow-typed signature: 3c774e17bda423ab3b9fe0212ef5b1c3
// flow-typed version: <<STUB>>/@babel/eslint-parser_v7.18.2/flow_v0.171.0
// flow-typed signature: f290276e7e3f1665a167045334b7271a
// flow-typed version: <<STUB>>/@babel/eslint-parser_v7.19.1/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
Expand Down
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
// flow-typed signature: 1c0d8403cc7d9c158045cd9ec011614c
// flow-typed version: <<STUB>>/@babel/plugin-proposal-optional-chaining_v7.18.6/flow_v0.171.0
// flow-typed signature: 92c9db2e94619949742b90e4578dd4a6
// flow-typed version: <<STUB>>/@babel/plugin-proposal-optional-chaining_v7.20.7/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
Expand Down
4 changes: 2 additions & 2 deletions flow-typed/npm/@babel/preset-env_vx.x.x.js
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
// flow-typed signature: 2097fff3e645efdac55d1b27a7d5014c
// flow-typed version: <<STUB>>/@babel/preset-env_v7.18.6/flow_v0.171.0
// flow-typed signature: 4b3831fdae13c2f4225b7b0eb68d9541
// flow-typed version: <<STUB>>/@babel/preset-env_v7.20.2/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
Expand Down
11 changes: 9 additions & 2 deletions flow-typed/npm/@lhci/cli_vx.x.x.js
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
// flow-typed signature: d6492d0a0b43cb6ffea44d98fd8a625e
// flow-typed version: <<STUB>>/@lhci/cli_v0.9.0/flow_v0.171.0
// flow-typed signature: 352a7d007ec70986abe398ee3eeaa41d
// flow-typed version: <<STUB>>/@lhci/cli_v0.10.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
Expand Down Expand Up @@ -54,6 +54,10 @@ declare module '@lhci/cli/src/collect/puppeteer-manager' {
declare module.exports: any;
}

declare module '@lhci/cli/src/fetch' {
declare module.exports: any;
}

declare module '@lhci/cli/src/healthcheck/healthcheck' {
declare module.exports: any;
}
Expand Down Expand Up @@ -103,6 +107,9 @@ declare module '@lhci/cli/src/collect/psi-runner.js' {
declare module '@lhci/cli/src/collect/puppeteer-manager.js' {
declare module.exports: $Exports<'@lhci/cli/src/collect/puppeteer-manager'>;
}
declare module '@lhci/cli/src/fetch.js' {
declare module.exports: $Exports<'@lhci/cli/src/fetch'>;
}
declare module '@lhci/cli/src/healthcheck/healthcheck.js' {
declare module.exports: $Exports<'@lhci/cli/src/healthcheck/healthcheck'>;
}
Expand Down
Original file line number Diff line number Diff line change
@@ -0,0 +1,35 @@
// flow-typed signature: f4faec2a6e5bacb520688ed9a586c8b2
// flow-typed version: <<STUB>>/@nightingale-elements/nightingale-colored-sequence_v4.0.23-alpha.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
*
* '@nightingale-elements/nightingale-colored-sequence'
*
* Fill this stub out by replacing all the `any` types.
*
* Once filled out, we encourage you to share your work with the
* community by sending a pull request to:
* https://github.com/flowtype/flow-typed
*/

declare module '@nightingale-elements/nightingale-colored-sequence' {
declare module.exports: any;
}

/**
* We include stubs for each file inside this npm package in case you need to
* require those files directly. Feel free to delete any files that aren't
* needed.
*/
declare module '@nightingale-elements/nightingale-colored-sequence/dist' {
declare module.exports: any;
}

// Filename aliases
declare module '@nightingale-elements/nightingale-colored-sequence/dist/index' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-colored-sequence/dist'>;
}
declare module '@nightingale-elements/nightingale-colored-sequence/dist/index.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-colored-sequence/dist'>;
}
Original file line number Diff line number Diff line change
@@ -0,0 +1,35 @@
// flow-typed signature: 9577a9628f68af8deab056e64f07d90f
// flow-typed version: <<STUB>>/@nightingale-elements/nightingale-coloured-sequence_v^4.0.7-alpha.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
*
* '@nightingale-elements/nightingale-coloured-sequence'
*
* Fill this stub out by replacing all the `any` types.
*
* Once filled out, we encourage you to share your work with the
* community by sending a pull request to:
* https://github.com/flowtype/flow-typed
*/

declare module '@nightingale-elements/nightingale-coloured-sequence' {
declare module.exports: any;
}

/**
* We include stubs for each file inside this npm package in case you need to
* require those files directly. Feel free to delete any files that aren't
* needed.
*/
declare module '@nightingale-elements/nightingale-coloured-sequence/dist' {
declare module.exports: any;
}

// Filename aliases
declare module '@nightingale-elements/nightingale-coloured-sequence/dist/index' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-coloured-sequence/dist'>;
}
declare module '@nightingale-elements/nightingale-coloured-sequence/dist/index.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-coloured-sequence/dist'>;
}
35 changes: 35 additions & 0 deletions flow-typed/npm/@nightingale-elements/nightingale-heatmap_vx.x.x.js
Original file line number Diff line number Diff line change
@@ -0,0 +1,35 @@
// flow-typed signature: 688826195abb99fdb7193279a71e1994
// flow-typed version: <<STUB>>/@nightingale-elements/nightingale-heatmap_v4.0.21-alpha.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
*
* '@nightingale-elements/nightingale-heatmap'
*
* Fill this stub out by replacing all the `any` types.
*
* Once filled out, we encourage you to share your work with the
* community by sending a pull request to:
* https://github.com/flowtype/flow-typed
*/

declare module '@nightingale-elements/nightingale-heatmap' {
declare module.exports: any;
}

/**
* We include stubs for each file inside this npm package in case you need to
* require those files directly. Feel free to delete any files that aren't
* needed.
*/
declare module '@nightingale-elements/nightingale-heatmap/dist' {
declare module.exports: any;
}

// Filename aliases
declare module '@nightingale-elements/nightingale-heatmap/dist/index' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-heatmap/dist'>;
}
declare module '@nightingale-elements/nightingale-heatmap/dist/index.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-heatmap/dist'>;
}
Original file line number Diff line number Diff line change
@@ -0,0 +1,42 @@
// flow-typed signature: 07e4b6aabe70807aee328e2f650f82b8
// flow-typed version: <<STUB>>/@nightingale-elements/nightingale-interpro-track_v4.0.23-alpha.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
*
* '@nightingale-elements/nightingale-interpro-track'
*
* Fill this stub out by replacing all the `any` types.
*
* Once filled out, we encourage you to share your work with the
* community by sending a pull request to:
* https://github.com/flowtype/flow-typed
*/

declare module '@nightingale-elements/nightingale-interpro-track' {
declare module.exports: any;
}

/**
* We include stubs for each file inside this npm package in case you need to
* require those files directly. Feel free to delete any files that aren't
* needed.
*/
declare module '@nightingale-elements/nightingale-interpro-track/dist' {
declare module.exports: any;
}

declare module '@nightingale-elements/nightingale-interpro-track/src/coverage/index.test' {
declare module.exports: any;
}

// Filename aliases
declare module '@nightingale-elements/nightingale-interpro-track/dist/index' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-interpro-track/dist'>;
}
declare module '@nightingale-elements/nightingale-interpro-track/dist/index.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-interpro-track/dist'>;
}
declare module '@nightingale-elements/nightingale-interpro-track/src/coverage/index.test.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-interpro-track/src/coverage/index.test'>;
}
Original file line number Diff line number Diff line change
@@ -0,0 +1,35 @@
// flow-typed signature: e3ee6dae3067946810ccd694809a623f
// flow-typed version: <<STUB>>/@nightingale-elements/nightingale-linegraph-track_v4.0.23-alpha.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
*
* '@nightingale-elements/nightingale-linegraph-track'
*
* Fill this stub out by replacing all the `any` types.
*
* Once filled out, we encourage you to share your work with the
* community by sending a pull request to:
* https://github.com/flowtype/flow-typed
*/

declare module '@nightingale-elements/nightingale-linegraph-track' {
declare module.exports: any;
}

/**
* We include stubs for each file inside this npm package in case you need to
* require those files directly. Feel free to delete any files that aren't
* needed.
*/
declare module '@nightingale-elements/nightingale-linegraph-track/dist' {
declare module.exports: any;
}

// Filename aliases
declare module '@nightingale-elements/nightingale-linegraph-track/dist/index' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-linegraph-track/dist'>;
}
declare module '@nightingale-elements/nightingale-linegraph-track/dist/index.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-linegraph-track/dist'>;
}
35 changes: 35 additions & 0 deletions flow-typed/npm/@nightingale-elements/nightingale-links_vx.x.x.js
Original file line number Diff line number Diff line change
@@ -0,0 +1,35 @@
// flow-typed signature: 7121ca1082236aa0bed0b518385a9aec
// flow-typed version: <<STUB>>/@nightingale-elements/nightingale-links_v4.0.23-alpha.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
*
* '@nightingale-elements/nightingale-links'
*
* Fill this stub out by replacing all the `any` types.
*
* Once filled out, we encourage you to share your work with the
* community by sending a pull request to:
* https://github.com/flowtype/flow-typed
*/

declare module '@nightingale-elements/nightingale-links' {
declare module.exports: any;
}

/**
* We include stubs for each file inside this npm package in case you need to
* require those files directly. Feel free to delete any files that aren't
* needed.
*/
declare module '@nightingale-elements/nightingale-links/dist' {
declare module.exports: any;
}

// Filename aliases
declare module '@nightingale-elements/nightingale-links/dist/index' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-links/dist'>;
}
declare module '@nightingale-elements/nightingale-links/dist/index.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-links/dist'>;
}
35 changes: 35 additions & 0 deletions flow-typed/npm/@nightingale-elements/nightingale-manager_vx.x.x.js
Original file line number Diff line number Diff line change
@@ -0,0 +1,35 @@
// flow-typed signature: 3e11f137708a2bc3a6f88b9e2a854552
// flow-typed version: <<STUB>>/@nightingale-elements/nightingale-manager_v4.0.21-alpha.0/flow_v0.171.0

/**
* This is an autogenerated libdef stub for:
*
* '@nightingale-elements/nightingale-manager'
*
* Fill this stub out by replacing all the `any` types.
*
* Once filled out, we encourage you to share your work with the
* community by sending a pull request to:
* https://github.com/flowtype/flow-typed
*/

declare module '@nightingale-elements/nightingale-manager' {
declare module.exports: any;
}

/**
* We include stubs for each file inside this npm package in case you need to
* require those files directly. Feel free to delete any files that aren't
* needed.
*/
declare module '@nightingale-elements/nightingale-manager/dist' {
declare module.exports: any;
}

// Filename aliases
declare module '@nightingale-elements/nightingale-manager/dist/index' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-manager/dist'>;
}
declare module '@nightingale-elements/nightingale-manager/dist/index.js' {
declare module.exports: $Exports<'@nightingale-elements/nightingale-manager/dist'>;
}
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