Updating to master branch #1

jkim485 · 2017-06-30T18:32:47Z

What? Why?

Fix # .

Changes proposed in this pull request:

a
b

Checks

Runs on Heroku.
Follows 7 rules of great commit messages. For most PRs a single commit should suffice, in some cases multiple topical commits can be useful. During review it is ok to see tiny commits (e.g. Fix reviewer comments), but right before the code gets merged to master or rc branch, any such commits should be squashed since they are useless to the other developers. Definitely avoid merge commits, use rebase instead.
Follows the Google Style Guide.
Make sure your commit messages end with a Signed-off-by string (this line
can be automatically added by git if you run the git-commit command with
the -s option)
If this is a feature, the PR is to rc. If this is a bug fix, the PR is to
hotfix.

Any screenshots or GIFs?

If this is a new visual feature please add a before/after screenshot or gif
here with e.g. GifGrabber.

Notify reviewers

Read our Pull request merging
policy. If you are part of the
cBioPortal organization, notify the approprate team (remove inappropriate):

@cBioPortal/frontend
@cBioPortal/backend
@cBioPortal/devops

If you are not part of the cBioPortal organization look at who worked on the
file before you. Please use git blame <filename> to determine that
and notify them here:

…ssServlet Add CheckDarwinAccess to proxy controller

Update pom version and frontend version

Prep v6.0 release

Co-authored-by: Jeremy R. Easton-Marks <[email protected]>

* setup redirect to tutorials page * add a default route for SPA traffic * tutorials route is handled by frontend now * remove unused var

…o custom-driver-config

…o mutation-data-counts

Mutation data counts

Customize Custom Driver Name in application.properties file

* rebase master * tutorials route is handled by frontend now * remove unused var * go back to old routes, add tutorial redirect * Add oql route Co-authored-by: Ino de Bruijn <[email protected]> --------- Co-authored-by: Ino de Bruijn <[email protected]>

This way, users do not have to pass the authorization headers every time they make a request, but only need to set it once

Update bravado documentation with persistent authorization

The layout of the ER diagram is also changed to highlight records hierarchy: - study - patient - sample - molecular data type The respective tables are positioned on the main diagonal. Co-authored-by: Ruslan Forostianov <[email protected]>

* Changes Immutable List to Mutable List * Remove Type Specifications

Add /faq route

…10630) Co-authored-by: Qi-Xuan Lu <[email protected]>

* Update Security Integration test to remove selenium container * Fix yml file * Add DirtiesContext annotation * Remove internal.test.host * Add mongo and session service

Add setup guide for Kubernetes deployment

...and fix some broken links

* Adds documentation for managing keycloak instance via API * Add keycloak management doc to retype summary page

Co-authored-by: James Ko <[email protected]>

Co-authored-by: Bryan Lai <[email protected]>

* add donate page to docs * Update Donate.md --------- Co-authored-by: JJ Gao <[email protected]>

Seems like we still use this standalone frontend mode

Add Clickhouse implementation of study view endpoints (off by default) with legacy api intact --------- Co-authored-by: haynescd <[email protected]> --------- Co-authored-by: haynescd <[email protected]> Co-authored-by: Charles Haynes <[email protected]> Co-authored-by: Onur Sumer <[email protected]> Co-authored-by: Neel Kuila <[email protected]> Co-authored-by: Bryan Lai <[email protected]> Co-authored-by: Zhaoyuan (Ryan) Fu <[email protected]> Co-authored-by: Qi-Xuan Lu <[email protected]> Co-authored-by: Bryan Lai <[email protected]> Co-authored-by: Gaofei Zhao <[email protected]> Co-authored-by: Robert Sheridan <[email protected]> Co-authored-by: Zain Nasir <[email protected]> Co-authored-by: Zain Nasir <[email protected]> Co-authored-by: haynescd <[email protected]>

* Add donate button config instructions * add donate_button to example props * add donate to example props

Update News.md

Add documentation for cBioPortal security measures.

haynescd and others added 30 commits February 7, 2024 15:09

Merge pull request #10605 from cBioPortal/feature/Add-CheckDarwinAcce…

f7615aa

…ssServlet Add CheckDarwinAccess to proxy controller

Prep v6.0 release

d834365

Update pom version and frontend version

Merge pull request #10607 from cBioPortal/prep-v6.0.0

ba07ece

Prep v6.0 release

prep pom for v6.0.1

2a0c02a

jsp files deleted (#10587)

d96653d

Co-authored-by: Jeremy R. Easton-Marks <[email protected]>

10584 fix tutorials (#10606)

326823b

* setup redirect to tutorials page * add a default route for SPA traffic * tutorials route is handled by frontend now * remove unused var

rename custom driver properties under oncoprint

befaab1

Merge branch 'master' of https://github.com/cBioPortal/cbioportal int…

1c9d05f

…o custom-driver-config

Merge branch 'master' of https://github.com/cBioPortal/cbioportal int…

972949b

…o mutation-data-counts

Merge pull request #10559 from cBioPortal/mutation-data-counts

950ce91

Mutation data counts

Merge branch 'master' into custom-driver-config

d539d0c

Merge pull request #10611 from cBioPortal/custom-driver-config

1ca2687

Customize Custom Driver Name in application.properties file

10584 fix tutorials (#10614)

994f846

* rebase master * tutorials route is handled by frontend now * remove unused var * go back to old routes, add tutorial redirect * Add oql route Co-authored-by: Ino de Bruijn <[email protected]> --------- Co-authored-by: Ino de Bruijn <[email protected]>

Update bravado documentation with persistent authorization

94b95a0

This way, users do not have to pass the authorization headers every time they make a request, but only need to set it once

Merge pull request #10616 from cBioPortal/update-bravado-docs

ef5c8fd

Update bravado documentation with persistent authorization

fix migrate_db.py path in entrypoint (#10535)

23ebb38

Add back frontend app name property (#10619)

e1f5cf1

Update ER diagram to db schema 2.13.1 (#10617)

7a6ece7

The layout of the ER diagram is also changed to highlight records hierarchy: - study - patient - sample - molecular data type The respective tables are positioned on the main diagonal. Co-authored-by: Ruslan Forostianov <[email protected]>

Changes Immutable List to Mutable List (#10620)

9354afc

* Changes Immutable List to Mutable List * Remove Type Specifications

Update frontend v6.0.1

351e81f

Prepare for v6.0.2

cd82be1

add document for inter-repository dependencies (#10621)

336c2ec

Add /faq route

d327a10

Merge pull request #10624 from cBioPortal/add-faq

35a6dc5

Add /faq route

Change List to Immutable List (#10629)

41e5b8c

support default_sort_column config for mutation, CNA, and SV tables (#…

5d95f35

…10630) Co-authored-by: Qi-Xuan Lu <[email protected]>

Add news until May 2023

3d5a3fd

fix newlines issue in news

701b7bb

update custom bins screenshot

6673d82

Update Security Integration test to remove selenium container (#10615)

accee3b

* Update Security Integration test to remove selenium container * Fix yml file * Add DirtiesContext annotation * Remove internal.test.host * Add mongo and session service

zainasir and others added 30 commits November 25, 2024 18:49

rm unneccessary config files

3f4dffa

Add link to corresponding page.

14f99d4

Merge pull request #11232 from zainasir/helm-docs

aac4871

Add setup guide for Kubernetes deployment

Frontend v6.0.21

3fc9b25

Prepare for v6.0.22

10325e1

Fix broken links in cBioPortal-ER-Diagram.md

228ad9e

Fix typo in feature-development-guide.md

9546b22

Improve data loading docs (#11251)

18599b2

...and fix some broken links

Adds documentation for managing keycloak instance via API (#11264)

8c669a3

* Adds documentation for managing keycloak instance via API * Add keycloak management doc to retype summary page

Add GDC Target studies to news (#11269)

4272b09

Co-authored-by: James Ko <[email protected]>

fix issue with full data download failing with pie chart (#11239)

5c89dbc

Co-authored-by: Bryan Lai <[email protected]>

add donate page to docs (#11282)

31fa62f

* add donate page to docs * Update Donate.md --------- Co-authored-by: JJ Gao <[email protected]>

Add redirect to donate page (#11283)

079b532

fix donate TOC link in retype

31b05a9

Add property for donate button configuration (#11284)

8018c7d

Fix seed database commands in docs (#11279)

2834b0b

add show_donate button to config_service.jsp

cee4161

Seems like we still use this standalone frontend mode

Frontend v6.0.22

6c49b10

Prepare for v6.0.23

711a61d

Add donate button to docs

be86bae

Update News.md

e2c400d

Update News.md

55f259c

Add donate button config instructions (#11286)

1e82621

* Add donate button config instructions * add donate_button to example props * add donate to example props

Merge branch 'master' into sbabyanusha-patch-5

c86c239

Merge pull request #11295 from cBioPortal/sbabyanusha-patch-5

8091d79

Update News.md

Add security page summarizing our security mechanisms

c14ecac

Merge pull request #11300 from zainasir/fix/security-docs

8aff60d

Add documentation for cBioPortal security measures.

Update contribution link

e8fe7ee

Fix typo in security docs

28c1be6

Provide feedback

Saved searches

Use saved searches to filter your results more quickly

Updating to master branch #1

Updating to master branch #1

jkim485 commented Jun 30, 2017

Updating to master branch #1

Are you sure you want to change the base?

Updating to master branch #1

Conversation

jkim485 commented Jun 30, 2017

What? Why?

Checks

Any screenshots or GIFs?

Notify reviewers