Branch: refs/heads/pc2_data
Home: https://github.com/PathwayCommons/factoid
Commit: 4b70bad414ba3f9c9d7cf1bb3bdc536e6d1ec984
https://github.com/PathwayCommons/factoid/commit/4b70bad414ba3f9c9d7cf1bb3bdc536e6d1ec984
Author: Max Franz <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Take into account `lastEditedDate` in the document image cache
Refs. : Document post-mortem: Missing metadata and misc problems #851
Commit: e370d3392bf09eeb14357418e2b52bf9fe60d282
https://github.com/PathwayCommons/factoid/commit/e370d3392bf09eeb14357418e2b52bf9fe60d282
Author: Max Franz <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Remove logs
Commit: 605163b93797984bbae27f7b20c114c9aff14b92
https://github.com/PathwayCommons/factoid/commit/605163b93797984bbae27f7b20c114c9aff14b92
Author: Max Franz <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/server/routes/api/document/indra.js
Log Message:
-----------
More aggressive Indra retries
- Increase the number of retries.
- Add a random delta so that different queries don't tend to come in at the
same time.
Refs. : Document post-mortem: Missing metadata and misc problems #851
Commit: 2cdb267547d8b70061ea24b6a777826ec30194de
https://github.com/PathwayCommons/factoid/commit/2cdb267547d8b70061ea24b6a777826ec30194de
Author: Max Franz <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Merge pull request #864 from PathwayCommons/clear-img-cache-851
Take into account `lastEditedDate` in the document image cache
Commit: 4def92b647b003cc1fdecaa2ffeb7442e820a01b
https://github.com/PathwayCommons/factoid/commit/4def92b647b003cc1fdecaa2ffeb7442e820a01b
Author: Max Franz <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
M src/model/document/document.js
M src/model/element/entity.js
M src/model/organism.js
Log Message:
-----------
More salient organism in entity grounding popover
- Make the organism name salient (at the top) in the grounding popover.
- Add `ent.organism()` shortcut function to get the `Organism` an `Entity` is
grounded to (may be null for chemical).
- Add `doc.commonOrganism()` to get the most common `Organism` in a `Document`
-- may be null in the case of a tie.
- Add `doc.irregularOrganismEntities()` to get an array of entities that are
grounded to an organism other than the common one.
Refs. :
- Grounding: Entity organism preference / mixed organisms for genes #861
- Block users from submitting empty documents #860
Commit: 47c3f163325086e71ddd1f75ea8c1c809ad11308
https://github.com/PathwayCommons/factoid/commit/47c3f163325086e71ddd1f75ea8c1c809ad11308
Author: Jeffrey <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
M src/model/document/document.js
M src/model/element/entity.js
M src/model/organism.js
Log Message:
-----------
Merge pull request #866 from PathwayCommons/organism-validation
More salient organism in entity grounding popover
Commit: 636a1b628d5d0e5178fbeee630d3ccd39bf88e98
https://github.com/PathwayCommons/factoid/commit/636a1b628d5d0e5178fbeee630d3ccd39bf88e98
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/model/element/entity.js
M src/styles/tasks.css
Log Message:
-----------
- Warn if organisms are different
- Create task list component
Commit: c5dc3e0e66b25d6842500690b113f5b8e1889102
https://github.com/PathwayCommons/factoid/commit/c5dc3e0e66b25d6842500690b113f5b8e1889102
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-08 (Thu, 08 Oct 2020)
Changed paths:
M src/client/components/tasks.js
Log Message:
-----------
Make the message for organisms more generic
Commit: 9d7bfe4a1b1437a55497595b0d0e9150a14f9a45
https://github.com/PathwayCommons/factoid/commit/9d7bfe4a1b1437a55497595b0d0e9150a14f9a45
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/tasks.js
Log Message:
-----------
Irregular organism message and list text
Commit: ff88cfa44ad873528dffd50dd52580ab1b079db7
https://github.com/PathwayCommons/factoid/commit/ff88cfa44ad873528dffd50dd52580ab1b079db7
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/editor/submit.js
M src/client/components/tasks.js
Log Message:
-----------
- Add warning for no entity in submit
- Add components for closing tooltip on click
Commit: 6f188549f20ca283f9fc0f198081059f353f56a8
https://github.com/PathwayCommons/factoid/commit/6f188549f20ca283f9fc0f198081059f353f56a8
Author: Max Franz <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/model/document/document.js
Log Message:
-----------
Allow for excluding entities in doc organism counts
Commit: b0431a20c3ace13ddeed366ce6942fddf9234198
https://github.com/PathwayCommons/factoid/commit/b0431a20c3ace13ddeed366ce6942fddf9234198
Author: Max Franz <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/model/element/element.js
Log Message:
-----------
Allow for entity comparison via `ele.same(otherEle)`
Commit: 79c9ca34b8ed0943f19437421994299f4fb60e49
https://github.com/PathwayCommons/factoid/commit/79c9ca34b8ed0943f19437421994299f4fb60e49
Author: Max Franz <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
Log Message:
-----------
Exclude popover entity from being included in organism count
E.g. while typing 'smad3':
(1) You probably type 'smad' quickly. That's one query. The node is now
grounded to smad9 (mouse).
(2) You now add '3'. The grounding is now for smad3 mouse instead of human,
because (1) added a bias to mouse.
Commit: 4eee4b6b8b28e030a92867899b78d21895cc9c99
https://github.com/PathwayCommons/factoid/commit/4eee4b6b8b28e030a92867899b78d21895cc9c99
Author: Max Franz <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
Log Message:
-----------
Use grounding IDs instead of indices for dropdowns
- Use `ns:id` as ID.
- Use `value` instead of `defaultValue`. React doesn't use `defaultValue`
properly.
Commit: 6588858e7d9edab23601718c368c764b6e546d30
https://github.com/PathwayCommons/factoid/commit/6588858e7d9edab23601718c368c764b6e546d30
Author: Max Franz <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/server/routes/api/document/indra.js
Log Message:
-----------
Merge pull request #865 from PathwayCommons/indra-more-retries-851
More aggressive Indra retries
Commit: 0102a3f99974c62401ecbae6df4267dd1d250bba
https://github.com/PathwayCommons/factoid/commit/0102a3f99974c62401ecbae6df4267dd1d250bba
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/tasks.js
Log Message:
-----------
Swap out 'Submit' with 'Show me how' button
Commit: 9c2039e8646499d6e85637144f2bd0dc386202c6
https://github.com/PathwayCommons/factoid/commit/9c2039e8646499d6e85637144f2bd0dc386202c6
Author: Jeffrey <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/editor/submit.js
M src/client/components/tasks.js
M src/model/element/entity.js
M src/styles/tasks.css
Log Message:
-----------
Merge pull request #868 from
PathwayCommons/iss860_empty-submit_iss861_irregular-org
Iss860 empty submit iss861 irregular org
Commit: 7ae22ec9e6625d69a5ce32561873673e1bab77c8
https://github.com/PathwayCommons/factoid/commit/7ae22ec9e6625d69a5ce32561873673e1bab77c8
Author: Max Franz <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
M src/model/document/document.js
M src/model/element/element.js
Log Message:
-----------
Merge pull request #869 from PathwayCommons/org-dropdown-misc
Organism dropdown misc
Commit: e95cc4284ed4935682770988138ff7ae734b8158
https://github.com/PathwayCommons/factoid/commit/e95cc4284ed4935682770988138ff7ae734b8158
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/document-management-components.js
Log Message:
-----------
Remove disabling of email buttons
Commit: 132469357f9270c245d14de2250e3ab9528299ce
https://github.com/PathwayCommons/factoid/commit/132469357f9270c245d14de2250e3ab9528299ce
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/document-management.js
M src/styles/document-management.css
Log Message:
-----------
Add spinner on load
Commit: b5b7d8c10d6dfd5ec1990f2d3b7d18c3f84f289d
https://github.com/PathwayCommons/factoid/commit/b5b7d8c10d6dfd5ec1990f2d3b7d18c3f84f289d
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/styles/document-management.css
Log Message:
-----------
Remove the extremely large width of the page.
Commit: 8de2c0a5e0620dee959c7e3bca3734df641ab965
https://github.com/PathwayCommons/factoid/commit/8de2c0a5e0620dee959c7e3bca3734df641ab965
Author: Jeffrey <[email protected]>
Date: 2020-10-09 (Fri, 09 Oct 2020)
Changed paths:
M src/client/components/document-management-components.js
M src/client/components/document-management.js
M src/styles/document-management.css
Log Message:
-----------
Merge pull request #870 from PathwayCommons/iss852_eliminate-disable-email
Admin: Email disabling, spinner and large page width
Commit: 74ceb106f67faec335b601d2e5b487a7630c9c51
https://github.com/PathwayCommons/factoid/commit/74ceb106f67faec335b601d2e5b487a7630c9c51
Author: Max Franz <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M package-lock.json
M package.json
M src/client/index.js
M src/client/polyfills.js
Log Message:
-----------
Use smooth scroll polyfill for the carousel on Safari
Commit: 0388c7e2e7cc9f4cc1b8eadc912ac6912c05cf52
https://github.com/PathwayCommons/factoid/commit/0388c7e2e7cc9f4cc1b8eadc912ac6912c05cf52
Author: Max Franz <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M src/styles/carousel.css
Log Message:
-----------
Allow long interaction strings to be readable in the carousel
Commit: 52568e9b0df73a1b663994f8a95e164acd26e653
https://github.com/PathwayCommons/factoid/commit/52568e9b0df73a1b663994f8a95e164acd26e653
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M package-lock.json
M package.json
Log Message:
-----------
0.12.0
Commit: 6751b8551227b3ce15f2824bce069922a767f947
https://github.com/PathwayCommons/factoid/commit/6751b8551227b3ce15f2824bce069922a767f947
Author: Max Franz <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M package-lock.json
M package.json
M src/client/index.js
M src/client/polyfills.js
M src/styles/carousel.css
Log Message:
-----------
Merge pull request #871 from PathwayCommons/carousel-misc-tweaks
Carousel misc tweaks
Commit: c7c45b52beed2cc7eef2b074997ea1bff19fcf02
https://github.com/PathwayCommons/factoid/commit/c7c45b52beed2cc7eef2b074997ea1bff19fcf02
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M package-lock.json
M package.json
M src/client/index.js
M src/client/polyfills.js
M src/styles/carousel.css
Log Message:
-----------
Merge branch 'unstable' into v0.12.0
Commit: 4d85fedc4ade225ffe1d9dc110fe3560ec4d30fd
https://github.com/PathwayCommons/factoid/commit/4d85fedc4ade225ffe1d9dc110fe3560ec4d30fd
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M package-lock.json
M package.json
Log Message:
-----------
0.12.1
Commit: 56f7ef32ab0a1b6d8c98ab37710213832b520902
https://github.com/PathwayCommons/factoid/commit/56f7ef32ab0a1b6d8c98ab37710213832b520902
Author: Jeffrey <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M package-lock.json
M package.json
Log Message:
-----------
Merge pull request #873 from PathwayCommons/v0.12.0
V0.12.0
Commit: 026ab18edd422c87ab156d04fd19f96fad208a9c
https://github.com/PathwayCommons/factoid/commit/026ab18edd422c87ab156d04fd19f96fad208a9c
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M Dockerfile
M entrypoint.sh
Log Message:
-----------
Adding missing dependency for google-chrome-stable.
Commit: 803d65694471d2d8a7c05b56c6320750188f8154
https://github.com/PathwayCommons/factoid/commit/803d65694471d2d8a7c05b56c6320750188f8154
Author: Jeffrey <[email protected]>
Date: 2020-10-13 (Tue, 13 Oct 2020)
Changed paths:
M Dockerfile
M entrypoint.sh
Log Message:
-----------
Merge pull request #875 from PathwayCommons/iss874_google-chrome-lib
Adding missing dependency for google-chrome-stable.
Commit: a8037050d5ec3a78b55a9d1061fef08ce4b3b076
https://github.com/PathwayCommons/factoid/commit/a8037050d5ec3a78b55a9d1061fef08ce4b3b076
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-14 (Wed, 14 Oct 2020)
Changed paths:
M Dockerfile
Log Message:
-----------
Add the chrome deps explicitly
Commit: 4a8931fb3d7f44484b6b85a50b206339a06b30e5
https://github.com/PathwayCommons/factoid/commit/4a8931fb3d7f44484b6b85a50b206339a06b30e5
Author: Jeffrey <[email protected]>
Date: 2020-10-14 (Wed, 14 Oct 2020)
Changed paths:
M Dockerfile
Log Message:
-----------
Merge pull request #876 from PathwayCommons/iss874_chrome-dependencies
Docker: Add google-chrome deps explicitly
Commit: 821f13bd2241c3b12f9bad4327b0829f08709e6a
https://github.com/PathwayCommons/factoid/commit/821f13bd2241c3b12f9bad4327b0829f08709e6a
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-14 (Wed, 14 Oct 2020)
Changed paths:
M package-lock.json
M package.json
Log Message:
-----------
0.12.2
Commit: 5733c0649d2e8e7e66fd8b6d58ae3ff85c8d70e7
https://github.com/PathwayCommons/factoid/commit/5733c0649d2e8e7e66fd8b6d58ae3ff85c8d70e7
Author: Jeffrey <[email protected]>
Date: 2020-10-14 (Wed, 14 Oct 2020)
Changed paths:
M package-lock.json
M package.json
Log Message:
-----------
Merge pull request #878 from PathwayCommons/v0.12.2
0.12.2
Commit: 104f9c2ae2346c243210c046e163cdeabfb43c6d
https://github.com/PathwayCommons/factoid/commit/104f9c2ae2346c243210c046e163cdeabfb43c6d
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-14 (Wed, 14 Oct 2020)
Changed paths:
M src/server/sitemap.js
M test/sitemap/docs2Sitemap.js
Log Message:
-----------
Supplement the sitemap urls with PNG image URL and metadata
Commit: 4992a35fdf1e3dc554de28dfe548389c67098b69
https://github.com/PathwayCommons/factoid/commit/4992a35fdf1e3dc554de28dfe548389c67098b69
Author: Jeffrey <[email protected]>
Date: 2020-10-14 (Wed, 14 Oct 2020)
Changed paths:
M src/server/sitemap.js
M test/sitemap/docs2Sitemap.js
Log Message:
-----------
Merge pull request #880 from PathwayCommons/iss842_sitemap-images
Supplement the sitemap urls with PNG image URL and metadata
Commit: 1c1a2292dd05b344a5e55a9b848968c0ed081c3a
https://github.com/PathwayCommons/factoid/commit/1c1a2292dd05b344a5e55a9b848968c0ed081c3a
Author: metincansiper <[email protected]>
Date: 2020-10-16 (Fri, 16 Oct 2020)
Changed paths:
M src/model/element/interaction-type/deubiquitination.js
Log Message:
-----------
Fixed a typo in effect of deubiquitination interaction type
Commit: 6a0c27a9065f2d7d30e3b5a0bd9999ed29446a3f
https://github.com/PathwayCommons/factoid/commit/6a0c27a9065f2d7d30e3b5a0bd9999ed29446a3f
Author: Max Franz <[email protected]>
Date: 2020-10-21 (Wed, 21 Oct 2020)
Changed paths:
M src/model/element/interaction-type/deubiquitination.js
Log Message:
-----------
Merge pull request #883 from PathwayCommons/deubiquitination_typo
Fixed a typo in effect of deubiquitination interaction type
Commit: 8f63b3883edcf9e4976590ea8cc7f71d975eef4f
https://github.com/PathwayCommons/factoid/commit/8f63b3883edcf9e4976590ea8cc7f71d975eef4f
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-26 (Mon, 26 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
Friendlier message for editors submit
Commit: 80fffdc11862e99bbdc2a4c764ffb9032333537d
https://github.com/PathwayCommons/factoid/commit/80fffdc11862e99bbdc2a4c764ffb9032333537d
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-26 (Mon, 26 Oct 2020)
Changed paths:
M src/client/components/tasks.js
Log Message:
-----------
Warning text
Commit: c3d3712d24d244ff8219868661e097234f81a4f5
https://github.com/PathwayCommons/factoid/commit/c3d3712d24d244ff8219868661e097234f81a4f5
Author: Max Franz <[email protected]>
Date: 2020-10-26 (Mon, 26 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
Merge pull request #884 from PathwayCommons/iss861_warnings-nicer
Friendlier message for editor Task warnings
Commit: fada0b9721a90f546cf4e7e2ceb179bde232d04d
https://github.com/PathwayCommons/factoid/commit/fada0b9721a90f546cf4e7e2ceb179bde232d04d
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-27 (Tue, 27 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
- TextEditable component
- Using the new component in the submit done TaskView to set name
Commit: d378c77b98dbb17b610fb8d7cd469d05b6f5d9b6
https://github.com/PathwayCommons/factoid/commit/d378c77b98dbb17b610fb8d7cd469d05b6f5d9b6
Author: metincansiper <[email protected]>
Date: 2020-10-27 (Tue, 27 Oct 2020)
Changed paths:
M src/server/routes/api/document/export.js
M src/util/document.js
Log Message:
-----------
During bulk export skip the files where the conversion is failing and give an
error message summarizing the case.
Commit: 8be4a1b12b29c38d270dc53ec70c0c399a65778f
https://github.com/PathwayCommons/factoid/commit/8be4a1b12b29c38d270dc53ec70c0c399a65778f
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-27 (Tue, 27 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
- Drop autofocus
- Emphasize the editing state
Commit: 397f95a519069d94995c86294b88ed93c94bb339
https://github.com/PathwayCommons/factoid/commit/397f95a519069d94995c86294b88ed93c94bb339
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-27 (Tue, 27 Oct 2020)
Changed paths:
M src/client/components/tasks.js
Log Message:
-----------
Add autofocus as option, default to false
Commit: 3476d49939fd0feeacc548b9001b604c0887e808
https://github.com/PathwayCommons/factoid/commit/3476d49939fd0feeacc548b9001b604c0887e808
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-28 (Wed, 28 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
Using the focus HTML attribute rather than the 'editing' state
Commit: 715ede09df6219cec28ba2f54961d86a2a32bac1
https://github.com/PathwayCommons/factoid/commit/715ede09df6219cec28ba2f54961d86a2a32bac1
Author: Max Franz <[email protected]>
Date: 2020-10-28 (Wed, 28 Oct 2020)
Changed paths:
M src/config.js
M src/model/document/document.js
M src/server/routes/api/document/index.js
M src/util/email.js
Log Message:
-----------
Related papers notification
Details:
- This is currently a prototype.
- A new email template type is defined as `relatedPaperNotification`.
- The emails are triggered whenever the related papers are updated for a
document.
- A new metadata field is available on a document.
`doc.relatedPapersNotified()` can be used to set or get whether the
notifications have been sent. This prevents duplicates.
- Novel interactions are an optional enhancement in the emails: An author can
receive an email whether or not the originating factoid has a novel
interaction. However, if there is a novel interaction, this should be
mentioned in the email.
- Currently, only notifications are sent to the terminal. The emails are
disabled until the template is set up.
- Action items are marked by `// TODO RPM`
Action items:
- [ ] Add a template to Mailjet (@jvwong), based on our email document on
Google Docs.
- [ ] Reuse our Indra querying code to determine whether there is a novel
interaction -- i.e. an interaction that has zero results in Indra
(@metincansiper).
- [ ] Verify that our emails send correctly on unstable. We'll temporary set
unstable to send these notifications to Max and Jeff (@maxkfranz @jvwong).
- [ ] Finalise the email template text (@maxkfranz).
- [ ] Research the feasibility of the bonus 'factoidable' nudge: Can we
determine using AI whether a paper is a good candidate for Biofactoid?
Ref. : Novel interaction notification #858
Commit: 2aede654b7494dd415447d4c1617523681516388
https://github.com/PathwayCommons/factoid/commit/2aede654b7494dd415447d4c1617523681516388
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-28 (Wed, 28 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
make it appear as native text input (persistent border)
Commit: 04e60f5e06b243efd539618a6679af04461bd7bb
https://github.com/PathwayCommons/factoid/commit/04e60f5e06b243efd539618a6679af04461bd7bb
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-28 (Wed, 28 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
Show a check on save. Don't show check for empty string.
Commit: af776e68211fb38369839950d6736f4ae11c4bd6
https://github.com/PathwayCommons/factoid/commit/af776e68211fb38369839950d6736f4ae11c4bd6
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-29 (Thu, 29 Oct 2020)
Changed paths:
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
- Fixed bug in placeholder blur/focus
- Add back no transition
Commit: 0e4fd2c162c948291a9c6adc09e9064fd8fcdf03
https://github.com/PathwayCommons/factoid/commit/0e4fd2c162c948291a9c6adc09e9064fd8fcdf03
Author: Jeffrey Wong <[email protected]>
Date: 2020-10-29 (Thu, 29 Oct 2020)
Changed paths:
M src/client/components/editor/submit.js
Log Message:
-----------
Use sticky tippy opt for submit button popover.
Commit: ac70b70206ab37b3c98853b2992efdc0d3b35b25
https://github.com/PathwayCommons/factoid/commit/ac70b70206ab37b3c98853b2992efdc0d3b35b25
Author: Max Franz <[email protected]>
Date: 2020-10-29 (Thu, 29 Oct 2020)
Changed paths:
M src/server/routes/api/document/export.js
M src/util/document.js
Log Message:
-----------
Merge pull request #885 from PathwayCommons/zip_error_handle
During bulk export skip the files where the conversion is failing
Commit: 54313112e94cacad1294ad22f0aacfd46a31eeb1
https://github.com/PathwayCommons/factoid/commit/54313112e94cacad1294ad22f0aacfd46a31eeb1
Author: Jeffrey <[email protected]>
Date: 2020-10-29 (Thu, 29 Oct 2020)
Changed paths:
M src/client/components/editor/submit.js
M src/client/components/tasks.js
M src/styles/tasks.css
Log Message:
-----------
Merge pull request #887 from PathwayCommons/iss729_curator-name
Additional info: Curator name
Commit: e300e9f7f47f80a67a0907126a64db6f35705460
https://github.com/PathwayCommons/factoid/commit/e300e9f7f47f80a67a0907126a64db6f35705460
Author: Max Franz <[email protected]>
Date: 2020-10-29 (Thu, 29 Oct 2020)
Changed paths:
M src/styles/carousel.css
Log Message:
-----------
Remove the date from the carousel entries
Commit: 0a14cdcaa20c6c65cca6994815ec6c933fda7b78
https://github.com/PathwayCommons/factoid/commit/0a14cdcaa20c6c65cca6994815ec6c933fda7b78
Author: Max Franz <[email protected]>
Date: 2020-10-30 (Fri, 30 Oct 2020)
Changed paths:
M src/styles/carousel.css
Log Message:
-----------
Merge pull request #890 from PathwayCommons/carousel-rm-date
Remove the date from the carousel entries
Commit: f78c6115ac73c187afc1e8eee8e44d2ac87b5941
https://github.com/PathwayCommons/factoid/commit/f78c6115ac73c187afc1e8eee8e44d2ac87b5941
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-02 (Mon, 02 Nov 2020)
Changed paths:
M Dockerfile
Log Message:
-----------
Upgrade nodeJS image.
Commit: 182418399e970cc8d13bc0f25d149ffd892828a5
https://github.com/PathwayCommons/factoid/commit/182418399e970cc8d13bc0f25d149ffd892828a5
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-02 (Mon, 02 Nov 2020)
Changed paths:
M src/client/components/element-info/entity-assoc-display.js
Log Message:
-----------
Check for the existence of chemical synonyms and formulae.
Commit: c4ce1a042f100c208be4fa9e693b987b36b5df52
https://github.com/PathwayCommons/factoid/commit/c4ce1a042f100c208be4fa9e693b987b36b5df52
Author: Jeffrey <[email protected]>
Date: 2020-11-02 (Mon, 02 Nov 2020)
Changed paths:
M Dockerfile
Log Message:
-----------
Merge pull request #891 from PathwayCommons/iss889_docker-nodejs
Upgrade nodeJS image.
Commit: 9192dc8fc5abb9a5cb6c385a0e9f91b60ab0edb5
https://github.com/PathwayCommons/factoid/commit/9192dc8fc5abb9a5cb6c385a0e9f91b60ab0edb5
Author: Jeffrey <[email protected]>
Date: 2020-11-03 (Tue, 03 Nov 2020)
Changed paths:
M src/client/components/element-info/entity-assoc-display.js
Log Message:
-----------
Merge pull request #892 from PathwayCommons/iss888_empty-chebi-fields
Chemical synonyms and formulae field labels shown if they exist
Commit: 2f2e4a8c60e6d98e28cf601be91906b83550c576
https://github.com/PathwayCommons/factoid/commit/2f2e4a8c60e6d98e28cf601be91906b83550c576
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-04 (Wed, 04 Nov 2020)
Changed paths:
M package.json
Log Message:
-----------
Declare license .
Commit: 6e972b289a9407f5be792a54ef8043ddcef6313d
https://github.com/PathwayCommons/factoid/commit/6e972b289a9407f5be792a54ef8043ddcef6313d
Author: Max Franz <[email protected]>
Date: 2020-11-04 (Wed, 04 Nov 2020)
Changed paths:
A LICENSE
Log Message:
-----------
Add LICENSE file (MIT)
Commit: 57b5929ccd76cc2b5eb728f9c9c2564c561dd7e9
https://github.com/PathwayCommons/factoid/commit/57b5929ccd76cc2b5eb728f9c9c2564c561dd7e9
Author: Jeffrey <[email protected]>
Date: 2020-11-04 (Wed, 04 Nov 2020)
Changed paths:
A LICENSE
M package.json
Log Message:
-----------
Merge pull request #894 from PathwayCommons/iss893_license
Declare license .
Commit: 1d1a5ed21f6f86ee31b7b32ab9dc315b4f5d2cae
https://github.com/PathwayCommons/factoid/commit/1d1a5ed21f6f86ee31b7b32ab9dc315b4f5d2cae
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-06 (Fri, 06 Nov 2020)
Changed paths:
M src/model/document/document.js
Log Message:
-----------
Attribute for stashing references for the article
Commit: 6dd39ccd92fb39f1c2aabf2af56c2571d4f7b73c
https://github.com/PathwayCommons/factoid/commit/6dd39ccd92fb39f1c2aabf2af56c2571d4f7b73c
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-06 (Fri, 06 Nov 2020)
Changed paths:
M src/server/routes/api/document/pubmed/linkPubmed.js
Log Message:
-----------
- Expose helper function elink2UidList (renamed from data2UidList)
- Accept an optional filter for linknames
Commit: ddfb05c40f3b770abea9ccacd417552def08a892
https://github.com/PathwayCommons/factoid/commit/ddfb05c40f3b770abea9ccacd417552def08a892
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-06 (Fri, 06 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Add a capability for setting the subset of referenced papers inside the
'getRelPprsForDoc'
Commit: dd4b45a2b15dc8ef8754b1cb5b1e78fea9c7a0e2
https://github.com/PathwayCommons/factoid/commit/dd4b45a2b15dc8ef8754b1cb5b1e78fea9c7a0e2
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-06 (Fri, 06 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Use the new set of referenced papers.
Commit: fa2050ac8213e66ee38d664742dc6b7bd3563b15
https://github.com/PathwayCommons/factoid/commit/fa2050ac8213e66ee38d664742dc6b7bd3563b15
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-09 (Mon, 09 Nov 2020)
Changed paths:
M src/config.js
M src/server/routes/api/document/index.js
Log Message:
-----------
Add an admin email, use in the relatedPapers emailer.
Commit: 062ee8cd52de38679d4db68c72614f30c761ee3e
https://github.com/PathwayCommons/factoid/commit/062ee8cd52de38679d4db68c72614f30c761ee3e
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-09 (Mon, 09 Nov 2020)
Changed paths:
M src/config.js
M src/server/routes/api/document/index.js
Log Message:
-----------
- emailRelatedPaperAuthors bundled with code for document status being
switched to 'public', following submission
- EMAIL_RELPPRS_CONTACT config that flags whether the relatedPapersEmails
should be sent to contacts (default true)
Commit: d67ad38f17f94cbaaf713bdba36ea696fae9737d
https://github.com/PathwayCommons/factoid/commit/d67ad38f17f94cbaaf713bdba36ea696fae9737d
Author: metincansiper <[email protected]>
Date: 2020-11-09 (Mon, 09 Nov 2020)
Changed paths:
M src/model/element/interaction.js
M src/server/routes/api/document/index.js
Log Message:
-----------
Mark novel interactios.
Commit: fc92759ac2af1a68a654639d0eb5e01b3e8dc297
https://github.com/PathwayCommons/factoid/commit/fc92759ac2af1a68a654639d0eb5e01b3e8dc297
Author: metincansiper <[email protected]>
Date: 2020-11-09 (Mon, 09 Nov 2020)
Changed paths:
M src/model/element/interaction.js
Log Message:
-----------
remove a console statement
Commit: 827d70be7be7086dafefa7644def4f0e9af76711
https://github.com/PathwayCommons/factoid/commit/827d70be7be7086dafefa7644def4f0e9af76711
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-09 (Mon, 09 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Tie the relatedPapers contact emailing to the admin refresh
Commit: b6623cf93e3b0bdf1b798efc4d93c5b246bc2eec
https://github.com/PathwayCommons/factoid/commit/b6623cf93e3b0bdf1b798efc4d93c5b246bc2eec
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/util/email.js
Log Message:
-----------
Use `logger` to remove linting warning in preparation for merging
Commit: fbbef392e87797f9b89f7bcf3137af0ea2b4dea1
https://github.com/PathwayCommons/factoid/commit/fbbef392e87797f9b89f7bcf3137af0ea2b4dea1
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Set `doc.relatedPapersNotified()` flag
Commit: bf0f241733ea2bcdfecb1524128a28bea5507d8d
https://github.com/PathwayCommons/factoid/commit/bf0f241733ea2bcdfecb1524128a28bea5507d8d
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/config.js
M src/util/email.js
Log Message:
-----------
Set template ID
Commit: 41b4bfe066fa22338b40993d8c5e5d9f5ebbae2e
https://github.com/PathwayCommons/factoid/commit/41b4bfe066fa22338b40993d8c5e5d9f5ebbae2e
Author: metincansiper <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/model/element/interaction.js
Log Message:
-----------
Set the default novel value of interactions as false.
Commit: 88fab26f744599b994472e5cc3037fb01ec7089e
https://github.com/PathwayCommons/factoid/commit/88fab26f744599b994472e5cc3037fb01ec7089e
Author: metincansiper <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/model/element/interaction.js
M src/server/routes/api/document/index.js
Log Message:
-----------
Merge branch 'novel_intn' into email-rel-pprs
Commit: 5526dd7d789c0540c3d690a21e57de524f3a002c
https://github.com/PathwayCommons/factoid/commit/5526dd7d789c0540c3d690a21e57de524f3a002c
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Add interactions filter based on `isNovel()` and add guard within
`emailRelatedPaperAuthors()` re. `doc.relatedPapersNotified()`
Commit: 1e75e29f015377fe759b393da5ce1b0f63b7ae3f
https://github.com/PathwayCommons/factoid/commit/1e75e29f015377fe759b393da5ce1b0f63b7ae3f
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
Log Message:
-----------
Remove the organism dropdown when there are no alternative organism matches :
Removes case where a dropdown with only 'Other' is displayed.
Commit: 3c1fde47b4aa36ec66188ec55f986a3480c28f60
https://github.com/PathwayCommons/factoid/commit/3c1fde47b4aa36ec66188ec55f986a3480c28f60
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
Log Message:
-----------
Hide the organism entry in the manual match mode for grounding
Commit: bd4df1e41854ecd82aa99f7a418977db736b4501
https://github.com/PathwayCommons/factoid/commit/bd4df1e41854ecd82aa99f7a418977db736b4501
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
Log Message:
-----------
Change 'Current match' label to 'Selected' in manual match mode for grounding
: Avoids overlap
Commit: 2496c5f459e51b7843b6d34eab91a252b5e3a6ba
https://github.com/PathwayCommons/factoid/commit/2496c5f459e51b7843b6d34eab91a252b5e3a6ba
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
Log Message:
-----------
Use the selected grounding as the top-level organism dropdown ID, if possible
: Removes the case where the dropdown resets to the top entry, when a non-first
'Which p53?' value is selected.
Commit: 96e6d539dbdeb0a893a46ebad02220d4999b1a59
https://github.com/PathwayCommons/factoid/commit/96e6d539dbdeb0a893a46ebad02220d4999b1a59
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/styles/element-info/entity-info.css
Log Message:
-----------
Increase spacing between synonyms : Increases visual separation to ease the
visual identification of where a synonym starts and ends.
Commit: 194043930023f359aac8767b50971f7ec3a5ffd1
https://github.com/PathwayCommons/factoid/commit/194043930023f359aac8767b50971f7ec3a5ffd1
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/client/components/element-info/entity-info.js
M src/styles/element-info/entity-info.css
Log Message:
-----------
Merge pull request #897 from PathwayCommons/org-dropdown-etc
Org dropdown etc.
Commit: bee0cd55849a5b4471cce73c90dfbd00fa67293f
https://github.com/PathwayCommons/factoid/commit/bee0cd55849a5b4471cce73c90dfbd00fa67293f
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
M src/config.js
M src/model/document/document.js
M src/model/element/interaction.js
M src/server/routes/api/document/index.js
M src/server/routes/api/document/pubmed/linkPubmed.js
M src/util/email.js
Log Message:
-----------
Merge pull request #886 from PathwayCommons/email-rel-pprs
Related papers notification
Commit: 7a52c9f90951cf7ebb0b55e8d2e25797ff6aab60
https://github.com/PathwayCommons/factoid/commit/7a52c9f90951cf7ebb0b55e8d2e25797ff6aab60
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
A src/server/email.js
M src/server/routes/api/document/index.js
R src/util/email.js
M src/util/index.js
Log Message:
-----------
Moving email.js util to server-side.
Commit: 7fdf9f2de5de346240cd319bc0bf21bf6db2212e
https://github.com/PathwayCommons/factoid/commit/7fdf9f2de5de346240cd319bc0bf21bf6db2212e
Author: Max Franz <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
R src/client/client-util/file.js
R src/client/client-util/index.js
M src/client/components/carousel.js
M src/client/components/document-management-components.js
M src/client/components/document-management.js
M src/client/components/editor/help.js
M src/client/components/editor/index.js
M src/client/components/editor/info-panel.js
M src/client/components/editor/submit.js
M src/client/components/element-info/entity-info.js
M src/client/components/element-info/progression-stepper.js
M src/client/components/home.js
M src/client/components/notification/base.js
M src/client/components/notification/corner.js
M src/client/components/notification/inline.js
M src/client/components/notification/panel.js
M src/client/components/tasks.js
M src/client/components/twitter-share.js
A src/client/dom.js
M src/client/index.js
A src/server/document-util.js
M src/server/routes/api/document/export.js
R src/util/document.js
R src/util/dom.js
M src/util/index.js
Log Message:
-----------
Move util/dom and util/document
Commit: 5c3b4b5132a4892e31cf218cb871902cfdf942aa
https://github.com/PathwayCommons/factoid/commit/5c3b4b5132a4892e31cf218cb871902cfdf942aa
Author: Jeffrey <[email protected]>
Date: 2020-11-10 (Tue, 10 Nov 2020)
Changed paths:
R src/client/client-util/file.js
R src/client/client-util/index.js
M src/client/components/carousel.js
M src/client/components/document-management-components.js
M src/client/components/document-management.js
M src/client/components/editor/help.js
M src/client/components/editor/index.js
M src/client/components/editor/info-panel.js
M src/client/components/editor/submit.js
M src/client/components/element-info/entity-info.js
M src/client/components/element-info/progression-stepper.js
M src/client/components/home.js
M src/client/components/notification/base.js
M src/client/components/notification/corner.js
M src/client/components/notification/inline.js
M src/client/components/notification/panel.js
M src/client/components/tasks.js
M src/client/components/twitter-share.js
A src/client/dom.js
M src/client/index.js
A src/server/document-util.js
A src/server/email.js
M src/server/routes/api/document/export.js
M src/server/routes/api/document/index.js
R src/util/document.js
R src/util/dom.js
R src/util/email.js
M src/util/index.js
Log Message:
-----------
Merge pull request #898 from PathwayCommons/iss858_move-email-server
Moving email.js util to server-side.
Commit: 52ce17cf396ff4945d8127ad6a399633013f9a60
https://github.com/PathwayCommons/factoid/commit/52ce17cf396ff4945d8127ad6a399633013f9a60
Author: Max Franz <[email protected]>
Date: 2020-11-11 (Wed, 11 Nov 2020)
Changed paths:
M src/server/email.js
M src/util/strings.js
Log Message:
-----------
Related papers emails: strip out final period in title and add
firstAuthorEtAl var
Commit: ebbcdf3d94220fa1cbb5ab9b484efdd7ec592224
https://github.com/PathwayCommons/factoid/commit/ebbcdf3d94220fa1cbb5ab9b484efdd7ec592224
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-11 (Wed, 11 Nov 2020)
Changed paths:
M src/util/pubmed.js
Log Message:
-----------
Provide the individual name parts (if they exist) in the citation attribute.
Commit: 67643f86a783719479d674b3888ab09164010bff
https://github.com/PathwayCommons/factoid/commit/67643f86a783719479d674b3888ab09164010bff
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-11 (Wed, 11 Nov 2020)
Changed paths:
M src/util/pubmed.js
Log Message:
-----------
Add name parts to contact
Commit: ebd0086384bb4f5cae866f438776211a1e45e2a1
https://github.com/PathwayCommons/factoid/commit/ebd0086384bb4f5cae866f438776211a1e45e2a1
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-11 (Wed, 11 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Use the contact ForeName as name for email message
Commit: 430eb1c2064a48a7454b6386505d04218f1c1e3f
https://github.com/PathwayCommons/factoid/commit/430eb1c2064a48a7454b6386505d04218f1c1e3f
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-12 (Thu, 12 Nov 2020)
Changed paths:
M src/util/pubmed.js
Log Message:
-----------
Support citation with ISODate string.
Commit: 94a9bcdc0d447f9fe1c90b1d6a30d4e05485ac29
https://github.com/PathwayCommons/factoid/commit/94a9bcdc0d447f9fe1c90b1d6a30d4e05485ac29
Author: Max Franz <[email protected]>
Date: 2020-11-12 (Thu, 12 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
M src/util/pubmed.js
Log Message:
-----------
Merge pull request #899 from PathwayCommons/iss858_name-parts
Provide author name parts and use in emails to ref'd paper authors
Commit: 61557c171372f9996e193a171823e8a6297e2d2b
https://github.com/PathwayCommons/factoid/commit/61557c171372f9996e193a171823e8a6297e2d2b
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-12 (Thu, 12 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Add two criteria to sendable papers: not older than (5 years), and isn't a
review.
Commit: b1cde716da67156d85430a4aebf7334ed78e3aaa
https://github.com/PathwayCommons/factoid/commit/b1cde716da67156d85430a4aebf7334ed78e3aaa
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-12 (Thu, 12 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
Log Message:
-----------
Filter by date first
Commit: 7ab9081bb19f4165b1430049c0aab7014c614526
https://github.com/PathwayCommons/factoid/commit/7ab9081bb19f4165b1430049c0aab7014c614526
Author: Jeffrey Wong <[email protected]>
Date: 2020-11-12 (Thu, 12 Nov 2020)
Changed paths:
M src/util/pubmed.js
Log Message:
-----------
Null out all the date fields be default in case you get a MedlineDate.
Commit: e4e597c9e2188263274b758e72cca0a38d71c3ee
https://github.com/PathwayCommons/factoid/commit/e4e597c9e2188263274b758e72cca0a38d71c3ee
Author: Jeffrey <[email protected]>
Date: 2020-11-13 (Fri, 13 Nov 2020)
Changed paths:
M src/server/routes/api/document/index.js
M src/util/pubmed.js
Log Message:
-----------
Merge pull request #900 from PathwayCommons/iss858_rank-filter-papers
Applying additional selection criteria to emails for related papers
Commit: c773034f36ca20dccfd49dc1e6d660c16841c78e
https://github.com/PathwayCommons/factoid/commit/c773034f36ca20dccfd49dc1e6d660c16841c78e
Author: metincansiper <[email protected]>
Date: 2020-11-16 (Mon, 16 Nov 2020)
Changed paths:
M Dockerfile
A LICENSE
M entrypoint.sh
M package-lock.json
M package.json
R src/client/client-util/file.js
R src/client/client-util/index.js
M src/client/components/carousel.js
M src/client/components/document-management-components.js
M src/client/components/document-management.js
M src/client/components/editor/help.js
M src/client/components/editor/index.js
M src/client/components/editor/info-panel.js
M src/client/components/editor/submit.js
M src/client/components/element-info/entity-assoc-display.js
M src/client/components/element-info/entity-info.js
M src/client/components/element-info/progression-stepper.js
M src/client/components/home.js
M src/client/components/notification/base.js
M src/client/components/notification/corner.js
M src/client/components/notification/inline.js
M src/client/components/notification/panel.js
M src/client/components/tasks.js
M src/client/components/twitter-share.js
A src/client/dom.js
M src/client/index.js
M src/client/polyfills.js
M src/config.js
M src/model/document/document.js
M src/model/element/element.js
M src/model/element/entity.js
M src/model/element/interaction-type/deubiquitination.js
M src/model/element/interaction.js
M src/model/organism.js
A src/server/document-util.js
A src/server/email.js
M src/server/routes/api/document/export.js
M src/server/routes/api/document/index.js
M src/server/routes/api/document/indra.js
M src/server/routes/api/document/pubmed/linkPubmed.js
M src/server/sitemap.js
M src/styles/carousel.css
M src/styles/document-management.css
M src/styles/element-info/entity-info.css
M src/styles/tasks.css
R src/util/document.js
R src/util/dom.js
R src/util/email.js
M src/util/index.js
M src/util/pubmed.js
M src/util/strings.js
M test/sitemap/docs2Sitemap.js
Log Message:
-----------
Merge branch 'unstable' into pc2_data
Compare:
https://github.com/PathwayCommons/factoid/compare/d60bcd22bea7...c773034f36ca
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