Code

Sync with NCBO upstream #10

Code

Merged

syphax-bouazzouni merged 98 commits intoontoportal:masterontoportal/ontologies_linked_data:masterfrom ncbo:masterncbo/ontologies_linked_data:masterCopy head branch name to clipboardNov 29, 2023

+646-344

Commits

Commits on Mar 1, 2022

• fix to use the unzipped file in the diff process

  syphax-bouazzouni

  committed
  408314c

• fix and update the way the diff output folder is computed

  syphax-bouazzouni

  committed
  b10b9bf

Commits on Mar 2, 2022

• adding gzip support

  syphax-bouazzouni

  committed
  3ea86a9

Commits on Mar 3, 2022

• Merge branch 'upstream' into pl/fix-diff-zip-and-output-folder-bugs

  syphax-bouazzouni

  committed
  03b1c01

• fix function argument default

  syphax-bouazzouni

  committed
  3024620

Commits on May 19, 2022

• add the owlapi_parser builder

  syphax-bouazzouni

  committed
  a8711f5

• use the owlapi_parser builder in the submission generate_rdf

  syphax-bouazzouni

  committed
  6a1dcba

• add the parsable? method to the submissions

  syphax-bouazzouni

  committed
  1cec803

• use zipped? in the master_file_path method

  syphax-bouazzouni

  committed
  5360eb5

• make the owlapi_parser builder private

  syphax-bouazzouni

  committed
  3255281

• use the uploadFilePath as path for missing_labels and obsolete_classes

  syphax-bouazzouni

  committed
  de1a207

• bring the uploadFilePath before doing the diff

  syphax-bouazzouni

  committed
  4b46464

Commits on Sep 5, 2022

• add url prefix replacement utilities functions to base model

  syphax-bouazzouni

  committed
  e758198

• update with the new replace_url_prefix_to_id in the base find

  syphax-bouazzouni

  committed
  22aefee

• update with the new replace_url_prefix_to_id every where its used

  syphax-bouazzouni

  committed
  65740af

• refactor rest mappings tests by extracting some commun methods

  syphax-bouazzouni

  committed
  454e87d

• add get_rest_mapping unit test

  syphax-bouazzouni

  committed
  f365f83

• save the created rest mapping id with the initializer

  syphax-bouazzouni

  committed
  94eeb65

• use replace_url_prefix_to_id in the get_rest_mapping method

  syphax-bouazzouni

  committed
  dc35d50

Commits on Oct 17, 2022

• improved exception handling for datatype mismatch errors

  mdorf

  committed
  0b56a04

• fixed a case described in ncbo/bioportal-project#251

  mdorf

  committed
  9358ab4

Commits on Oct 18, 2022

• another fix to ncbo/bioportal-project#251

  mdorf

  committed
  5922343

Commits on Nov 3, 2022

• a partial fix to ncbo/bioportal-project#251

  mdorf

  committed
  a00dac9

• Gemfile.lock update

  mdorf

  committed
  6080753

Commits on Nov 17, 2022

• Bump up version of actions/checkout

  Show description for 323696d
  alexskr

  committed
  323696d

• Remove duplicate file

  alexskr

  committed
  a9a28f4

• New version of the owlapi-wrapper JAR (v 1.4.1)

  jvendetti

  committed
  8628abe

• Merge branch 'develop'

  alexskr

  committed
  4f9139d

Commits on Dec 14, 2022

• Use dedicated solr containers for term search and property search.

  Show description for fb024ac
  alexskr

  committed
  fb024ac

Commits on Dec 16, 2022

• Merge branch 'master' into pl/enhance-zipped-submissions-support

  syphax-bouazzouni

  authored
  29153b6

• Add health check to backend services which removes the need for whait-for-it

  alexskr

  committed
  8698363

Commits on Dec 17, 2022

• Merge remote-tracking branch 'upstream/master' into upstream

  syphax-bouazzouni

  committed
  168eccf

Commits on Jan 25, 2023

• added code to sort labels prior to selecting one from multiple options

  mdorf

  committed
  0b55ace

• Merge branch 'develop' of github.com:ncbo/ontologies_linked_data into develop

  mdorf

  committed
  acf516b

• Gemfile.lock update

  mdorf

  committed
  cf3daaa

Commits on Jan 27, 2023

• fixed run_tests.rb to work with the latest AG image (replaced REST calls with agtool calls)

  mdorf

  committed
  74d533f

• Gemfile.lock update

  mdorf

  committed
  61d8cd5

Commits on Jan 28, 2023

• Bump up AG version

  alexskr

  committed
  67cc38a

• Remove wait-for-it; we are using healthcheck instead

  alexskr

  committed
  d7425e5

Commits on Jan 31, 2023

• Gemfile.lock update

  mdorf

  committed
  e6372f1

Commits on Feb 1, 2023

• Merge staging for release

  mdorf

  committed
  b22237d

• Gemfile.lock update

  mdorf

  committed
  546b3a4

Commits on Feb 10, 2023

• implemented ncbo/ncbo_cron#64 - ability to generate labels independently of RDF processing (and vise versa)

  mdorf

  committed
  2b98096

• Gemfile.lock update

  mdorf

  committed
  297f630

Commits on Mar 1, 2023

• working on an alternate fix for ncbo/bioportal-project#264

  mdorf

  committed
  f398622

• Gemfile.lock update

  mdorf

  committed
  0f16d91

Commits on Mar 9, 2023

• fixed ncbo/bioportal-project#277

  mdorf

  committed
  fe40625

• Gemfile.lock update

  mdorf

  committed
  79527b9

Commits on Apr 12, 2023

• Fix: remove submission directory and files on submission delete (#136)

  Show description for 0db3da4
  syphax-bouazzouni

  authored
  0db3da4

Commits on May 3, 2023

• update Gemfile.lock

  alexskr

  committed
  67bcea2

• set amd64 platform for containers that do not support arm

  alexskr

  committed
  c41a87e

• Merge branch 'master' into develop

  alexskr

  committed
  1f53531

• update Gemfile.lock

  alexskr

  committed
  d858e2e

Commits on Jul 19, 2023

• fixed a bug that caused all ontology processing tasks to regenerate labels

  mdorf

  committed
  f15bad0

• Gemfile.lock update

  mdorf

  committed
  1abc69f

• Gemfile.lock update

  mdorf

  committed
  13bb138

Commits on Jul 27, 2023

• update Gemfile.lock

  alexskr

  committed
  8159914

• unpin libxml-ruby, rsolr, libxml-ruby, rack gem version to make it consistent with ontologies_api

  alexskr

  committed
  3eda822

• Merge branch 'develop'

  alexskr

  committed
  cd07b5c

• unpin gem version of faraday

  alexskr

  committed
  e4a670c

Commits on Jul 29, 2023

• Remove dependency on minitest wrapper for Test::Unit (#168)

  Show description for afda3aa
  alexskr

  authored
  afda3aa

Commits on Aug 1, 2023

• use patched version of agraph untill v7.4.0 is released

  alexskr

  committed
  df675c4

Commits on Aug 7, 2023

• Merge branch 'develop' of github.com:ncbo/ontologies_linked_data into develop

  mdorf

  committed
  f9176ce

• fixed an issue with the GA4 Analytics migration

  mdorf

  committed
  98bb4f7

• Merge branch 'develop'

  alexskr

  committed
  0cdb8f8

Commits on Aug 9, 2023

• Merge pull request #156 from ontoportal-lirmm/pr/fix/get-rest-mapping-with-prefix-url

  Show description for e00c4e3
  mdorf

  authored
  e00c4e3

Commits on Aug 29, 2023

• Gemfile.lock update

  mdorf

  committed
  0b4fe28

• Gemfile.lock update

  mdorf

  committed
  1fa5e42

Commits on Aug 30, 2023

• Merge master to develop

  mdorf

  committed
  83e5052

• Gemfile.lock update

  mdorf

  committed
  9ec0414

Commits on Sep 5, 2023

• fixed unit tests after merging ncbo/goo#138 and ncbo/goo#139

  mdorf

  committed
  9f5c7e3

• Gemfile.lock update

  mdorf

  committed
  69b6e60

Commits on Sep 6, 2023

• had to remove a redundant block of code during merge

  mdorf

  committed
  629aa39

• Gemfile.lock update

  mdorf

  committed
  663baa3

• Merge branch 'ontoportal-lirmm-pl/enhance-zipped-submissions-support'

  mdorf

  committed
  aae2e20

• Merge pull request #144 from master

  mdorf

  committed
  f797d9d

• fix for pull request #144

  mdorf

  committed
  e33a0e4

Commits on Sep 7, 2023

• Merge staging for release

  mdorf

  committed
  6f88452

• fixed Gemfile after merging from master

  mdorf

  committed
  89474fa

Commits on Sep 8, 2023

• fix mimitype string for gzip files

  Show description for 7d26cfb
  alexskr

  committed
  7d26cfb

• fix filename

  alexskr

  committed
  5ddd9ae

• parse sumbission for .gz file to test gzip support

  alexskr

  committed
  72c950a

• Revert "parse sumbission for .gz file to test gzip support"

  Show description for 8d1209e
  alexskr

  committed
  8d1209e

• add unit test for parsing gzipped submission

  alexskr

  committed
  4f9fcd3

Commits on Sep 9, 2023

• use "zlib" to read and unzip Gz files and raise an error if unsupported file submitted

  syphax-bouazzouni

  committed
  ce4d2c4

• make sure the gzip process test assert that parsed content is not empty

  syphax-bouazzouni

  committed
  299a01c

Commits on Sep 11, 2023

• Merge pull request #174 from ontoportal-lirmm/pl/enhance-zipped-submissions-support

  Show description for 711ebf2
  alexskr

  authored
  711ebf2

• Merge branch 'develop'

  alexskr

  committed
  f430fd3

Commits on Sep 12, 2023

• Gemfile.lock update

  alexskr

  committed
  a7ad210

Commits on Oct 28, 2023

• Merge remote-tracking branch 'upstream/master' into upstream

  syphax-bouazzouni

  committed
  8615bca

Commits on Nov 1, 2023

• make the slice acronym validator not accepting underscores

  syphax-bouazzouni

  committed
  c9e05b2

• Merge pull request #176 from ontoportal-lirmm/pr/feature/extend-slice-acronym-validator

  Show description for d5bbed1
  mdorf

  authored
  d5bbed1

• merged PR #176 and updated Gemfile.lock

  mdorf

  committed
  ff10e5f

Commits on Nov 2, 2023

• Gemfile.lock update

  mdorf

  committed
  32e93d5

• added more informative exception output to cases of bad data

  mdorf

  committed
  5600020

Commits on Nov 4, 2023

• New version of the owlapi-wrapper JAR (v 1.4.2)

  jvendetti

  committed
  9487c7f

Commits on Nov 8, 2023

• Merge branch 'develop'

  alexskr

  committed
  c391037

• Gemfile update

  alexskr

  committed
  7783784