[cytoscape/cytoscape.js]

2019-07-30 Thread greenkeeper[bot]
  Branch: refs/heads/greenkeeper/highlight.js-9.15.9
  Home:   https://github.com/cytoscape/cytoscape.js

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[cytoscape/cytoscape.js] 746366: chore(package): update highlight.js to version 9.15.9

2019-07-30 Thread greenkeeper[bot]
  Branch: refs/heads/greenkeeper/highlight.js-9.15.9
  Home:   https://github.com/cytoscape/cytoscape.js
  Commit: 746366c199c670a5c915b89f333d67564d0ad210
  
https://github.com/cytoscape/cytoscape.js/commit/746366c199c670a5c915b89f333d67564d0ad210
  Author: greenkeeper[bot] <23040076+greenkeeper[bot]@users.noreply.github.com>
  Date:   2019-07-31 (Wed, 31 Jul 2019)

  Changed paths:
M package.json

  Log Message:
  ---
  chore(package): update highlight.js to version 9.15.9


  Commit: 38309bf3c306e1425946c899396c23893b61f00e
  
https://github.com/cytoscape/cytoscape.js/commit/38309bf3c306e1425946c899396c23893b61f00e
  Author: greenkeeper[bot] <23040076+greenkeeper[bot]@users.noreply.github.com>
  Date:   2019-07-31 (Wed, 31 Jul 2019)

  Changed paths:
M package-lock.json

  Log Message:
  ---
  chore(package): update lockfile package-lock.json


Compare: 
https://github.com/cytoscape/cytoscape.js/compare/746366c199c6%5E...38309bf3c306

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[cytoscape/cytoscape-gui-distribution]

2019-07-30 Thread dotasek
  Branch: refs/tags/untagged-796392b35712e8e5290f
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution

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[cytoscape/cytoscape.js]

2019-07-30 Thread greenkeeper[bot]
  Branch: refs/heads/greenkeeper/rollup-plugin-size-snapshot-0.10.0
  Home:   https://github.com/cytoscape/cytoscape.js

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[cytoscape/cytoscape-gui-distribution]

2019-07-30 Thread dotasek
  Branch: refs/tags/untagged-af3f45a4886922782c21
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution

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[cytoscape/cytoscape.js] 38d5ae: chore(package): update rollup-plugin-size-snapshot...

2019-07-30 Thread Max Franz
  Branch: refs/heads/unstable

  Home:   https://github.com/cytoscape/cytoscape.js

  Commit: 38d5ae75c69ab4b2b1fe64b5060869a775a9f34d

  
https://github.com/cytoscape/cytoscape.js/commit/38d5ae75c69ab4b2b1fe64b5060869a775a9f34d

  Author: greenkeeper[bot] <23040076+greenkeeper[bot]@users.noreply.github.com>

  Date:   2019-07-26 (Fri, 26 Jul 2019)



  Changed paths:

M package.json



  Log Message:

  ---

  chore(package): update rollup-plugin-size-snapshot to version 0.10.0





  Commit: 2220276a498be6eb03fe222ee6cb2f5871aff31d

  
https://github.com/cytoscape/cytoscape.js/commit/2220276a498be6eb03fe222ee6cb2f5871aff31d

  Author: greenkeeper[bot] <23040076+greenkeeper[bot]@users.noreply.github.com>

  Date:   2019-07-26 (Fri, 26 Jul 2019)



  Changed paths:

M package-lock.json



  Log Message:

  ---

  chore(package): update lockfile package-lock.json





  Commit: f8da08571bdbd5478d8b5949708621f692900283

  
https://github.com/cytoscape/cytoscape.js/commit/f8da08571bdbd5478d8b5949708621f692900283

  Author: Max Franz 

  Date:   2019-07-30 (Tue, 30 Jul 2019)



  Changed paths:

M package-lock.json

M package.json



  Log Message:

  ---

  Merge pull request #2481 from 
cytoscape/greenkeeper/rollup-plugin-size-snapshot-0.10.0



Update rollup-plugin-size-snapshot to the latest version 





Compare: 
https://github.com/cytoscape/cytoscape.js/compare/c18937bb12e4...f8da08571bdb

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[cytoscape/cytoscape-gui-distribution] 16d781: Add windows assembly to github releases

2019-07-30 Thread dotasek
  Branch: refs/heads/travis-ci
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution
  Commit: 16d78140fa1a1183b033271e59b38247959e802c
  
https://github.com/cytoscape/cytoscape-gui-distribution/commit/16d78140fa1a1183b033271e59b38247959e802c
  Author: dotasek 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M .travis.yml

  Log Message:
  ---
  Add windows assembly to github releases


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[cytoscape/cytoscape-gui-distribution]

2019-07-30 Thread dotasek
  Branch: refs/tags/untagged-796392b35712e8e5290f
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution

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[cytoscape/cytoscape-gui-distribution] 163168: Remove download chatter from CI logging

2019-07-30 Thread dotasek
  Branch: refs/heads/travis-ci
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution
  Commit: 163168249d67438f4a995a8496acc19f8df222f8
  
https://github.com/cytoscape/cytoscape-gui-distribution/commit/163168249d67438f4a995a8496acc19f8df222f8
  Author: dotasek 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M .travis.yml

  Log Message:
  ---
  Remove download chatter from CI logging


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[cytoscape/cytoscape.js] c18937: Disable eslint for relevant lines related to `Resi...

2019-07-30 Thread Max Franz
  Branch: refs/heads/unstable
  Home:   https://github.com/cytoscape/cytoscape.js
  Commit: c18937bb12e47d21658e53566d0326e49b8d6ae6
  
https://github.com/cytoscape/cytoscape.js/commit/c18937bb12e47d21658e53566d0326e49b8d6ae6
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M src/extensions/renderer/base/load-listeners.js

  Log Message:
  ---
  Disable eslint for relevant lines related to `ResizeObserver` #1652


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[cytoscape/cytoscape-gui-distribution] 3e99ec: add skip_cleanup

2019-07-30 Thread dotasek
  Branch: refs/heads/travis-ci
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution
  Commit: 3e99ecc92142b9a4df3fcfee02744785fb005878
  
https://github.com/cytoscape/cytoscape-gui-distribution/commit/3e99ecc92142b9a4df3fcfee02744785fb005878
  Author: Unknown 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M .travis.yml

  Log Message:
  ---
  add skip_cleanup


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[cytoscape/cytoscape-gui-distribution] 13b52e: secure API key

2019-07-30 Thread dotasek
  Branch: refs/heads/travis-ci
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution
  Commit: 13b52e94a9246030558d595013a6ebb1f00bce97
  
https://github.com/cytoscape/cytoscape-gui-distribution/commit/13b52e94a9246030558d595013a6ebb1f00bce97
  Author: Unknown 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M .travis.yml

  Log Message:
  ---
  secure API key


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[cytoscape/cytoscape.js] 711d96: Add `ResizeObserver` support

2019-07-30 Thread Max Franz
  Branch: refs/heads/unstable
  Home:   https://github.com/cytoscape/cytoscape.js
  Commit: 711d9670ab12efabd4ff1fd842f3b9ef4e3c6320
  
https://github.com/cytoscape/cytoscape.js/commit/711d9670ab12efabd4ff1fd842f3b9ef4e3c6320
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M src/extensions/renderer/base/index.js
M src/extensions/renderer/base/load-listeners.js

  Log Message:
  ---
  Add `ResizeObserver` support

- The `ResizeObserver` is used on top of existing methods.  If your browser 
supports it, you get better coverage for more automatic resizes.  If not, you 
get the existing methods -- which work for common cases.  If you only support 
evergreen browsers, then you probably will never have to call `cy.resize()` in 
a typical app.
- This may help in cases where a programmer puts a graph within an in-page tab 
interface or within a resizable panel.  The viewport should update 
automatically, so long as the component is compatible with `ResizeObserver`.
- Browser support: Edge 76+, Firefox 69+, Chrome 64+, Safari 13+

Ref : `ResizeObserver` for more automatic `cy.resize()`s #1652


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[cytoscape/cytoscape.js] f07eb1: Improve safety re. bounding box caches for compounds

2019-07-30 Thread Max Franz
  Branch: refs/heads/3.7.x
  Home:   https://github.com/cytoscape/cytoscape.js
  Commit: f07eb1c14d997d02332f01ef5dc20430847c4ea4
  
https://github.com/cytoscape/cytoscape.js/commit/f07eb1c14d997d02332f01ef5dc20430847c4ea4
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M src/collection/dimensions/bounds.js
M src/collection/element.js
M test/collection-compound-nodes.js

  Log Message:
  ---
  Improve safety re. bounding box caches for compounds

- Ensure that `bodyBounds` etc. are nulled on dirtying the bounding box.
- In `ele.boundingBox()`, make sure that the non-infinity application is made 
regardless of whether the cache is used.
- When creating an element, make sure it has an unfilled `arrowBounds` object.
- Add a test case to help detect issues with display:none children w.r.t. 
compounds.
- Add test cases for visibility:hidden and opacity:0.

Ref : Backport 3.7.x : Compound node bounds including hidden children 
(regression) #2482 #2480


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[cytoscape/cytoscape.js] 934d5a: Improve safety re. bounding box caches for compounds

2019-07-30 Thread Max Franz
  Branch: refs/heads/master
  Home:   https://github.com/cytoscape/cytoscape.js
  Commit: 934d5a955c9f31c58fff32b1b7daf478cab98de9
  
https://github.com/cytoscape/cytoscape.js/commit/934d5a955c9f31c58fff32b1b7daf478cab98de9
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M src/collection/dimensions/bounds.js
M src/collection/element.js
M test/collection-compound-nodes.js

  Log Message:
  ---
  Improve safety re. bounding box caches for compounds

- Ensure that `bodyBounds` etc. are nulled on dirtying the bounding box.
- In `ele.boundingBox()`, make sure that the non-infinity application is made 
regardless of whether the cache is used.
- When creating an element, make sure it has an unfilled `arrowBounds` object.
- Add a test case to help detect issues with display:none children w.r.t. 
compounds.
- Add test cases for visibility:hidden and opacity:0.

Ref : Compound node bounds including hidden children (regression) #2480


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[cytoscape/cytoscape.js] ae173f: Add Fediverse to 'who uses' list

2019-07-30 Thread Max Franz
  Branch: refs/heads/unstable
  Home:   https://github.com/cytoscape/cytoscape.js
  Commit: ae173fe01b28655ba9b8bbc180987810d6957ea5
  
https://github.com/cytoscape/cytoscape.js/commit/ae173fe01b28655ba9b8bbc180987810d6957ea5
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M documentation/md/intro.md

  Log Message:
  ---
  Add Fediverse to 'who uses' list


  Commit: c87396c0f0838b0da86dcc0597c96854ca44b40e
  
https://github.com/cytoscape/cytoscape.js/commit/c87396c0f0838b0da86dcc0597c96854ca44b40e
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M src/collection/dimensions/bounds.js
M src/collection/element.js
M test/collection-compound-nodes.js

  Log Message:
  ---
  Improve safety re. bounding box caches for compounds

- Ensure that `bodyBounds` etc. are nulled on dirtying the bounding box.
- In `ele.boundingBox()`, make sure that the non-infinity application is made 
regardless of whether the cache is used.
- When creating an element, make sure it has an unfilled `arrowBounds` object.
- Add a test case to help detect issues with display:none children w.r.t. 
compounds.
- Add test cases for visibility:hidden and opacity:0.

Ref : Compound node bounds including hidden children (regression) #2480


Compare: 
https://github.com/cytoscape/cytoscape.js/compare/61b388fd0365...c87396c0f083

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[PathwayCommons/factoid] c1aaab: Update edgehandles to 3.6.0

2019-07-30 Thread Max Franz
  Branch: refs/heads/drawing-edges-to-complexes
  Home:   https://github.com/PathwayCommons/factoid
  Commit: c1aaabdd20437aa1594d2593241f65cf8a947559
  
https://github.com/PathwayCommons/factoid/commit/c1aaabdd20437aa1594d2593241f65cf8a947559
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M package-lock.json
M package.json

  Log Message:
  ---
  Update edgehandles to 3.6.0

This has better support for snapping in compound graphs.


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[PathwayCommons/factoid] 7eeebf: `org.id()` is unavailable for organism sorting

2019-07-30 Thread Max Franz
  Branch: refs/heads/grounding-query-fixes
  Home:   https://github.com/PathwayCommons/factoid
  Commit: 7eeebffa189a0b8254b03f1870d454f2db8e446e
  
https://github.com/PathwayCommons/factoid/commit/7eeebffa189a0b8254b03f1870d454f2db8e446e
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M src/model/document/document.js

  Log Message:
  ---
  `org.id()` is unavailable for organism sorting


  Commit: 26c629ba5c3ffa7ef59a44344c9f402ff4ba36cf
  
https://github.com/PathwayCommons/factoid/commit/26c629ba5c3ffa7ef59a44344c9f402ff4ba36cf
  Author: Max Franz 
  Date:   2019-07-30 (Tue, 30 Jul 2019)

  Changed paths:
M src/server/routes/api/element-association/grounding-search.js

  Log Message:
  ---
  Do not send undefined namespace to the grounding service


Compare: 
https://github.com/PathwayCommons/factoid/compare/7eeebffa189a%5E...26c629ba5c3f

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