Code

Release 0.4#21

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Merged

YaphetKG merged 159 commits intomasterhelxplatform/tranql:masterfrom release-0.4helxplatform/tranql:release-0.4Copy head branch name to clipboardMar 4, 2022

+16,839-1,255

Commits

Commits on Sep 29, 2020

• Merging Griffin's changes (NCATS-Tangerine#118)

  Show description for d7b8cf5
  

  4 peopleauthored
  d7b8cf5

Commits on Oct 1, 2020

• when using schema the expand nodes function fails to set starting nodes, and hence causing all graph grabbing, this was overlooked in initial merge.

  YaphetKG

  committed
  aedb097

• Udfs functions for parents and sibilings looking up wrong keys fix

  YaphetKG

  committed
  3521f12

• Error modal not closing properly fix

  YaphetKG

  committed
  cb3e287

• docker image version bump for new dev image

  YaphetKG

  committed
  c5f7825

Commits on Oct 28, 2020

• Update for planner, to fail iff no results can be found after trying all capable KPs.

  YaphetKG

  committed
  8acb458

• docker version bump

  YaphetKG

  committed
  fbaba7f

Commits on Nov 9, 2020

• Varnish docker image to slim debian version

  YaphetKG

  committed
  4093ea0

Commits on Dec 11, 2020

• Trapi updates (NCATS-Tangerine#122)

  Show description for 33645de
  YaphetKG

  authored
  33645de

Commits on Dec 15, 2020

• Merge branch 'master' into develop

  YaphetKG

  committed
  cf453c3

Commits on Jan 21, 2021

• Merge branch 'master' into develop

  

  yaphetkg

  committed
  1de6754

Commits on Feb 8, 2021

• Trapi 1.0 (NCATS-Tangerine#126)

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  YaphetKG

  authored
  16bf91d

Commits on Mar 3, 2021

• Web prefix (NCATS-Tangerine#129)

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  YaphetKG

  authored
  75f491d

• Convert renciorg refs to helxplatform refs.

  cnbennett3

  committed
  be33cc9

Commits on Mar 25, 2021

• Web prefix (NCATS-Tangerine#133)

  Show description for 7063532
  YaphetKG

  authored
  7063532

Commits on Apr 5, 2021

• Add UI conversion from TRAPI 1.0 to TRAPI 0.9.

  cnbennett3

  committed
  bbc2154

Commits on Apr 6, 2021

• Merge pull request NCATS-Tangerine#138 from NCATS-Tangerine/chuck_kg

  Show description for af2ee76
  cnbennett3

  authored
  af2ee76

Commits on May 17, 2021

• Web prefix for UI (NCATS-Tangerine#139)

  Show description for a2765b0
  YaphetKG

  authored
  a2765b0

Commits on May 18, 2021

• Parameterizes docker file to support building a branch for CI/CD. (NCATS-Tangerine#145)

  Show description for d44c8a9
  YaphetKG

  authored
  d44c8a9

Commits on May 25, 2021

• Configure message not being called filters out important nodes. (NCATS-Tangerine#147)

  YaphetKG

  authored
  61c1ce6

Commits on May 27, 2021

• skip and limit additions for cypher queries

  YaphetKG

  committed
  6623981

• plater lib version bump

  YaphetKG

  committed
  929b72f

Commits on May 28, 2021

• test for skip and limit options on redis

  YaphetKG

  committed
  d31c14c

Commits on Jun 7, 2021

• fixes test , upgrades plater

  YaphetKG

  committed
  565d5c3

Commits on Jun 8, 2021

• Merge pull request NCATS-Tangerine#148 from NCATS-Tangerine/plater-version-bump

  Show description for 0d7bb58
  stevencox

  authored
  0d7bb58

Commits on Jun 11, 2021

• strips / from main url (NCATS-Tangerine#154)

  YaphetKG

  authored
  980e765

Commits on Jul 16, 2021

• Adding db to schema so it shows up on UI auto complete

  YaphetKG

  committed
  7a923c2

• Refactoring merge endpoint.

  Show description for 30e2bfe
  YaphetKG

  committed
  30e2bfe

• Modify schema factory sending tranql config so its able to resolve redis password

  YaphetKG

  committed
  ad108ae

• Parsing tweaks for 1. Suggesting concepts only base on context, i.e considering start and end nodes ,

  Show description for 20d48a9
  YaphetKG

  committed
  20d48a9

• merge for trapi 1.0

  YaphetKG

  committed
  fed19cc

• test overhaul for merge and schema supporting redis

  YaphetKG

  committed
  c479e78

• Score as summation of publication counts on each edge

  YaphetKG

  committed
  4daf132

• score test disable

  YaphetKG

  committed
  dec3ef6

• Support for max connections

  YaphetKG

  committed
  d4dc2ac

Commits on Jul 19, 2021

• fixing api test for score

  YaphetKG

  committed
  a1a66a5

• Merge pull request #1 from helxplatform/feature/redis-schema

  Show description for d40752a
  stevencox

  authored
  d40752a

Commits on Jul 20, 2021

• Adding Makefile, Jenkinsfile, consolidated Docker, tranql src dir

  

  Carl Schreep

  committed
  2a0ff1a

• Makefile and Jenkinsfile

  

  Carl Schreep

  committed
  c2c70ad

• Starting to organize & cleanup tests

  

  Carl Schreep

  committed
  0cf8061

• Makefile

  

  Carl Schreep

  committed
  6946155

• Test cleanup

  

  Carl Schreep

  committed
  376a491

• Bumping version

  

  Carl Schreep

  committed
  42ce0e3

• Makefile

  

  Carl Schreep

  committed
  161fe93

Commits on Jul 21, 2021

• Testing jenkins file

  

  Carl Schreep

  committed
  49f9cd1

• Temp changing jenkins control flow

  

  Carl Schreep

  committed
  fffa8b5

• Update Dockerfile

  YaphetKG

  authored
  f48f28a

• Merge pull request #2 from helxplatform/fix/docker-file-update-to-new-repo

  Show description for 8dd58b6
  YaphetKG

  authored
  8dd58b6

Commits on Jul 22, 2021

• Structural changes for simplified deployment

  

  Carl Schreep

  committed
  8518491

• Jenkins and Makefile

  

  Carl Schreep

  committed
  76362d4

Commits on Jul 28, 2021

• using first message query graph fixed, now questions are also merged.

  YaphetKG

  committed
  33e9d92

• root question as query graph for merged answers when using schema on from clause . Redis timeout placed

  YaphetKG

  committed
  aab933e

• schema to updated dynamically after redis is populated, and some tests

  YaphetKG

  committed
  6b81b49

• test for empty schema tweak

  YaphetKG

  committed
  e2fecd7

• import at top

  YaphetKG

  committed
  c07ec30

• plater version bump

  YaphetKG

  committed
  e409ffd

Commits on Jul 29, 2021

• when grabbing trapi option, if tranql query parser does not set it, set to empty dict

  YaphetKG

  committed
  828bea2

• Merge pull request #3 from helxplatform/bugfix/schema-and-timeout

  Show description for 06ae535
  stevencox

  authored
  06ae535

Commits on Aug 11, 2021

• Merge branch 'develop' of github.com:helxplatform/tranql into feature/cicd-improvements

  

  Carl Schreep

  committed
  2f3f878

• Fixing merge conflicts

  

  Carl Schreep

  committed
  b10bb62

Commits on Aug 18, 2021

• bump plater version

  

  Yaphetkg

  committed
  ae43a70

• requirements to fix tests

  

  Yaphetkg

  committed
  4c6f5d3

Commits on Aug 30, 2021

• Removing travis file

  

  Carl Schreep

  committed
  9f68a99

• Merge branch 'feature/cicd-improvements' of github.com:helxplatform/tranql into feature/cicd-improvements

  

  Carl Schreep

  committed
  0f90dff

Commits on Aug 31, 2021

• - Update requirements.txt , just the required libs

  Show description for de55d10
  

  Yaphetkg

  committed
  de55d10

Commits on Sep 1, 2021

• Merge pull request #4 from helxplatform/feature/cicd-improvements

  Show description for ea5e8e9
  cschreep

  authored
  ea5e8e9

Commits on Sep 2, 2021

• upgrade bmt concept model, and tests to remove chemical substance

  

  Yaphetkg

  committed
  dbaf5c5

• upgrade bmt concept model, and tests to remove chemical substance (#6)

  Show description for baeada2
  

  YaphetKG

  and

  Yaphetkg

  authored
  baeada2

Commits on Sep 3, 2021

• Updates schema.yaml to be redis dependent.

  Show description for 0a5521f
  

  Yaphetkg

  committed
  0a5521f

• Merge branch 'develop' into feature/local-development

  

  Yaphetkg

  committed
  c2ba135

Commits on Sep 7, 2021

• Make schema.yaml path configurable via env var

  

  Yaphetkg

  committed
  4122c9a

Commits on Sep 8, 2021

• Feature/local development (#7)

  Show description for b5f0ae6
  

  YaphetKG

  and

  Yaphetkg

  authored
  b5f0ae6

Commits on Sep 10, 2021

• Updates number of major web dependencies. Notes a bug in App.js

  Show description for 8ce132a
  

  Griffin Roupe

  committed
  8ce132a

• Updates numerous web dependencies

  Show description for b1a4701
  

  Griffin Roupe

  committed
  b1a4701

• Removes a few unused dependencies

  

  Griffin Roupe

  committed
  d01d47a

Commits on Sep 16, 2021

• Adds boilerplate jest testing and sample test

  Show description for 56f7d5c
  

  Griffin Roupe

  committed
  56f7d5c

Commits on Sep 17, 2021

• Replaces domjs with Puppeteer testing

  Show description for 5960a44
  

  Griffin Roupe

  committed
  5960a44

• Small change to App in order ot make it easier to resolve API url outside of React (i.e. in unit tests

  

  Griffin Roupe

  committed
  bacfce1

• Downgrades react-force-graph to fix dependency conflict

  Show description for 214e183
  

  Griffin Roupe

  committed
  214e183

• Undo react-force-graph downgrade beacuse it only causes more errors

  

  Griffin Roupe

  committed
  27f8dc3

Commits on Sep 18, 2021

• Adds schema testing, request mocking, test setup/env

  

  Griffin Roupe

  committed
  9d66c4a

Commits on Sep 22, 2021

• Adds graph testing

  

  Griffin Roupe

  committed
  9c29e6d

Commits on Sep 23, 2021

• Polishes aspects of schema/graph unit tests and tidies things up

  

  Griffin Roupe

  committed
  e46b26a

• Fixes non-mocked tests. Verifies that non-mocked tests work correctly.

  

  Griffin Roupe

  committed
  a9d38f5

Commits on Sep 24, 2021

• Adds web tests to makefile

  

  Griffin Roupe

  authored and

  Griffin Roupe

  committed
  8b21d3e

• Updates API/backplane to use Flask-RESTX

  

  Griffin Roupe

  committed
  ccdbb27

• Updates graph unit test to throughly check node/edge existence in Three graph

  

  Griffin Roupe

  committed
  bbb8e91

Commits on Sep 25, 2021

• Adds legend unit test

  

  Griffin Roupe

  committed
  0015e91

Commits on Sep 27, 2021

• Adds simple autocompletion test and slightly restructures tests to use a globally-specified website URL

  

  Griffin Roupe

  committed
  ef60a3c

• Adds more comprehensive request mocking utility and fixes autocomplete test

  

  Griffin Roupe

  committed
  856da92

• Restructures autocomplete unit test so that it can test multiple types of completions. Adds an autocomplete tests for context-aware select prediction. Polishes mocking system

  

  Griffin Roupe

  committed
  b3c5f8a

Commits on Sep 29, 2021

• Fixes a bug that made it so that mocking didn't work properly in autocompletion test

  

  Griffin Roupe

  committed
  ac28835

Commits on Sep 30, 2021

• Slight syntactic change to testUtil

  

  Griffin Roupe

  committed
  a268ee3

• Remove test block that was accidentally left in

  

  Griffin Roupe

  committed
  2fa53df

• Modularizes and refactors various parts of App

  Show description for d7c2bb2
  

  Griffin Roupe

  committed
  d7c2bb2

Commits on Oct 1, 2021

• Moves bulky table viewer initialization into AppTableViewer under TableViewer.js

  

  Griffin Roupe

  committed
  89b1308

• Fixes error in Makefile test.npm

  

  Griffin Roupe

  committed
  89f5517

• Makes sure Jenkins installs package.json before running tests

  

  Griffin Roupe

  committed
  e31f9c7

• setupTests.js will load environment variables when cnofiguring test vars. Jenkins sets web testing env variables. make test.npm runs tests a single time (without watching).

  

  Griffin Roupe

  committed
  6e964d6

• Fixes environment directive under test stage

  

  Griffin Roupe

  committed
  c536483

• Fixes Jenkinsfile environment directive?

  

  Griffin Roupe

  committed
  12fe6dd

• Wrap after all in try block to see if it fixes Jenkins build

  

  Griffin Roupe

  committed
  292ea85

• Removes web build from web test installation

  

  Griffin Roupe

  committed
  f48fc8e

• Stops jenkins from building production build. Hopefully fixes puppeteer running in Jenkins.

  

  Griffin Roupe

  committed
  ebfd1ef

• Hopefully fixes Jenkins puppeteer browser launch

  

  Griffin Roupe

  committed
  9e1f27c

• Jenkins list chrome dpeendnecies

  

  Griffin Roupe

  committed
  93a41cf

• Another change to see if browser is being properly initialized

  

  Griffin Roupe

  committed
  1281984

• Hopefully locates chromium executable on Jenkins

  

  Griffin Roupe

  committed
  ac2ca08

• Adds find_chromium to makefile

  

  Griffin Roupe

  committed
  c8f7ccd

• Adds test_puppeteer to get error information on browser installation in Jenkins

  

  Griffin Roupe

  committed
  209ea68

• fixes typo in test_puppeteer

  

  Griffin Roupe

  committed
  17bd0ed

• Fix bug in test_puppeteer

  

  Griffin Roupe

  committed
  5899d8d

Commits on Oct 4, 2021

• Should fix Jenkins Puppeteer by installing chrome dependencies

  

  Griffin Roupe

  committed
  50b9ca4

Commits on Oct 7, 2021

• Should fix Puppeteer problem in Jenkins

  

  Griffin Roupe

  committed
  717dc66

• Fixes improper quotes/apostrophes in Jenkinsfile

  

  Griffin Roupe

  committed
  cd91e25

• Adds test_puppeteer back for additional debugging

  

  Griffin Roupe

  committed
  30a884d

• Adds env variable/option to disable chromium sandboxing

  

  Griffin Roupe

  committed
  afde45e

• Tests will launch webserver prior to launching Puppeteer

  

  Griffin Roupe

  committed
  7e88c10

• Fixes merge conflict?

  

  Griffin Roupe

  committed
  2368d8b

• Merge branch 'develop' into feature/jest-e2e-testing

  frostyfan109

  authored
  4138e3f

• Jenkinks should now launch webserver in background

  

  Griffin Roupe

  committed
  eefe8fe

• Merge branch 'feature/jest-e2e-testing' of https://github.com/helxplatform/tranql into feature/jest-e2e-testing

  

  Griffin Roupe

  committed
  2b60e05

Commits on Oct 8, 2021

• Changes wget to curl in Jenkinsfile. Adds brief comment of what it's doing.

  

  Griffin Roupe

  committed
  9406b0f

• Remove null output of curl

  

  Griffin Roupe

  committed
  4aaeed5

• Adds wget back

  

  Griffin Roupe

  committed
  ea6d2b2

• Kill webserver after testing is complete

  

  Griffin Roupe

  committed
  445326f

• Changes lsof to npx kill-port since lsof is not installed on the build

  

  Griffin Roupe

  committed
  bd68caf

Commits on Oct 14, 2021

• Fix bug that stopped app from being served on root path

  

  Griffin Roupe

  committed
  cf0aa8a

Commits on Oct 15, 2021

• Merge pull request #9 from helxplatform/feature/jest-e2e-testing

  Show description for 52d91b8
  frostyfan109

  authored
  52d91b8

Commits on Nov 1, 2021

• Adds embeddable functionality with qs arg "embed" and adds try catch around getReasonerURLs

  Show description for 6a965cc
  

  Griffin Roupe

  committed
  6a965cc

Commits on Nov 2, 2021

• Adds empty state to embedded graph when a query returns no results. Removes window.localStorage when embedded so that the embedded App cannot make localStorage modifications

  

  Griffin Roupe

  committed
  f1382b5

Commits on Nov 3, 2021

• Adds EmbedMode enum that allows embedding to either be simple (just the graph) or more complete (with banner, run button, and codemirror.

  

  Griffin Roupe

  committed
  16516d1

Commits on Nov 5, 2021

• More changes to how embedding works. Adds debounced query auto-execution on simple embedding (without run button).

  

  Griffin Roupe

  committed
  e960360

• Replaces old Robokop answer viewer with gamma-viewer-web component. Adds answer viewer into embedded page as well.

  

  Griffin Roupe

  committed
  2990e84

Commits on Nov 9, 2021

• Moves embedded tranql rendering to inside a hook. Changes the way answer viewer works inside of embedded version (component instead of modal now).

  

  Griffin Roupe

  committed
  08018dc

• Fixes repo-wide dependency conflict bug

  

  Griffin Roupe

  committed
  fd55500

• Fixes Dockerfile and Makefile to be up to date with develop

  Show description for 8fd4bcb
  

  Griffin Roupe

  committed
  8fd4bcb

Commits on Nov 10, 2021

• Remove extraneous console log & bump debounce on codemirror query from 250ms -> 1000ms.

  

  Griffin Roupe

  committed
  8a5ae59

• Fixes styling on Gamma Viewer inside Bootstrap modal

  

  Griffin Roupe

  committed
  c6efed5

• Merge pull request #10 from helxplatform/feature/modularization

  Show description for 4fd04ef
  frostyfan109

  authored
  4fd04ef

• Merge develop into feature/embeddable-iframe

  

  Griffin Roupe

  committed
  bca3926

Commits on Nov 11, 2021

• Adds check for ?embed=false

  

  Griffin Roupe

  committed
  821e596

• Merge pull request #11 from helxplatform/feature/embeddable-iframe

  Show description for 9b02786
  frostyfan109

  authored
  9b02786

• Update _version.py (#12)

  YaphetKG

  authored
  8e8c2f7

Commits on Nov 12, 2021

• add heap size for build (#13)

  Show description for 86b78db
  

  YaphetKG

  and

  Yaphetkg

  authored
  86b78db

Commits on Nov 15, 2021

• add publish to (#14)

  YaphetKG

  authored
  386c888

Commits on Nov 16, 2021

• Fixes tranqlURL parsing on production env (#15)

  frostyfan109

  authored
  eca6260

Commits on Nov 17, 2021

• Where statement autocomplete, TranQLIncompleteParser unit tests, and curie-to-English-name codemirror tooltips (#16)

  Show description for 95ba45d
  

  5 peopleauthored
  95ba45d

• Update _version.py

  YaphetKG

  authored
  1f73fd8

• Update _version.py

  Show description for 30376af
  YaphetKG

  authored
  30376af

Commits on Jan 18, 2022

• HeLx-UI/TranQL Integration Iteration 2 and Autocompletion Improvements (#17)

  Show description for 1c93825
  

  3 peopleauthored
  1c93825

• Update _version.py

  YaphetKG

  authored
  0f18e49

Commits on Feb 17, 2022

• New autocomplete changes (#18)

  Show description for 8ecc119
  

  3 peopleauthored
  8ecc119

• use latest plater with connection fix (#19)

  Show description for f96a696
  

  YaphetKG

  and

  Yaphetkg

  authored
  f96a696

• Update _version.py

  Show description for de5d653
  YaphetKG

  authored
  de5d653

Commits on Feb 18, 2022

• Bmt version fix (#20)

  Show description for 642c208
  YaphetKG

  authored
  642c208

Commits on Feb 24, 2022

• Update _version.py

  YaphetKG

  authored
  f479f16

• Merge branch 'release-0.4'

  YaphetKG

  committed
  9601997

Commits on Mar 3, 2022

• Update _version.py

  YaphetKG

  authored
  6c9cab2