briard 2.4.2 → 2.6.1

Sign up to get free protection for your applications and to get access to all the features.
Files changed (83) hide show
  1. checksums.yaml +4 -4
  2. data/.github/workflows/codeql-analysis.yml +72 -0
  3. data/.github/workflows/rubocop.yml +50 -0
  4. data/.gitignore +1 -0
  5. data/.rubocop.yml +144 -620
  6. data/.rubocop_todo.yml +76 -0
  7. data/CHANGELOG.md +18 -0
  8. data/Gemfile +2 -0
  9. data/Gemfile.lock +43 -9
  10. data/Rakefile +1 -1
  11. data/{bolognese.gemspec → briard.gemspec} +46 -39
  12. data/lib/briard/array.rb +2 -2
  13. data/lib/briard/author_utils.rb +79 -71
  14. data/lib/briard/cli.rb +12 -13
  15. data/lib/briard/crossref_utils.rb +73 -61
  16. data/lib/briard/datacite_utils.rb +132 -106
  17. data/lib/briard/doi_utils.rb +10 -10
  18. data/lib/briard/metadata.rb +96 -106
  19. data/lib/briard/metadata_utils.rb +87 -78
  20. data/lib/briard/readers/bibtex_reader.rb +65 -65
  21. data/lib/briard/readers/cff_reader.rb +88 -70
  22. data/lib/briard/readers/citeproc_reader.rb +90 -84
  23. data/lib/briard/readers/codemeta_reader.rb +68 -50
  24. data/lib/briard/readers/crosscite_reader.rb +2 -2
  25. data/lib/briard/readers/crossref_reader.rb +249 -210
  26. data/lib/briard/readers/datacite_json_reader.rb +3 -3
  27. data/lib/briard/readers/datacite_reader.rb +225 -189
  28. data/lib/briard/readers/npm_reader.rb +49 -42
  29. data/lib/briard/readers/ris_reader.rb +82 -80
  30. data/lib/briard/readers/schema_org_reader.rb +182 -159
  31. data/lib/briard/string.rb +1 -1
  32. data/lib/briard/utils.rb +4 -4
  33. data/lib/briard/version.rb +3 -1
  34. data/lib/briard/whitelist_scrubber.rb +11 -4
  35. data/lib/briard/writers/bibtex_writer.rb +14 -8
  36. data/lib/briard/writers/cff_writer.rb +33 -26
  37. data/lib/briard/writers/codemeta_writer.rb +19 -15
  38. data/lib/briard/writers/csv_writer.rb +6 -4
  39. data/lib/briard/writers/datacite_json_writer.rb +8 -2
  40. data/lib/briard/writers/jats_writer.rb +33 -28
  41. data/lib/briard/writers/rdf_xml_writer.rb +1 -1
  42. data/lib/briard/writers/ris_writer.rb +30 -18
  43. data/lib/briard/writers/turtle_writer.rb +1 -1
  44. data/lib/briard.rb +6 -6
  45. data/rubocop.sarif +0 -0
  46. data/spec/array_spec.rb +5 -5
  47. data/spec/author_utils_spec.rb +151 -132
  48. data/spec/datacite_utils_spec.rb +135 -83
  49. data/spec/doi_utils_spec.rb +168 -164
  50. data/spec/find_from_format_spec.rb +69 -69
  51. data/spec/fixtures/vcr_cassettes/Briard_Metadata/sanitize/onlies_keep_specific_tags.yml +65 -0
  52. data/spec/fixtures/vcr_cassettes/Briard_Metadata/sanitize/removes_a_tags.yml +65 -0
  53. data/spec/metadata_spec.rb +91 -90
  54. data/spec/readers/bibtex_reader_spec.rb +43 -38
  55. data/spec/readers/cff_reader_spec.rb +165 -153
  56. data/spec/readers/citeproc_reader_spec.rb +45 -40
  57. data/spec/readers/codemeta_reader_spec.rb +128 -115
  58. data/spec/readers/crosscite_reader_spec.rb +34 -24
  59. data/spec/readers/crossref_reader_spec.rb +1098 -939
  60. data/spec/readers/datacite_json_reader_spec.rb +53 -40
  61. data/spec/readers/datacite_reader_spec.rb +1541 -1337
  62. data/spec/readers/npm_reader_spec.rb +48 -43
  63. data/spec/readers/ris_reader_spec.rb +53 -47
  64. data/spec/readers/schema_org_reader_spec.rb +329 -267
  65. data/spec/spec_helper.rb +6 -5
  66. data/spec/utils_spec.rb +371 -347
  67. data/spec/writers/bibtex_writer_spec.rb +143 -143
  68. data/spec/writers/cff_writer_spec.rb +96 -90
  69. data/spec/writers/citation_writer_spec.rb +34 -33
  70. data/spec/writers/citeproc_writer_spec.rb +226 -224
  71. data/spec/writers/codemeta_writer_spec.rb +18 -16
  72. data/spec/writers/crosscite_writer_spec.rb +91 -73
  73. data/spec/writers/crossref_writer_spec.rb +99 -91
  74. data/spec/writers/csv_writer_spec.rb +70 -70
  75. data/spec/writers/datacite_json_writer_spec.rb +78 -68
  76. data/spec/writers/datacite_writer_spec.rb +417 -322
  77. data/spec/writers/jats_writer_spec.rb +177 -161
  78. data/spec/writers/rdf_xml_writer_spec.rb +68 -63
  79. data/spec/writers/ris_writer_spec.rb +162 -162
  80. data/spec/writers/schema_org_writer_spec.rb +329 -294
  81. data/spec/writers/turtle_writer_spec.rb +47 -47
  82. metadata +242 -166
  83. data/.github/workflows/release.yml +0 -47
checksums.yaml CHANGED
@@ -1,7 +1,7 @@
1
1
  ---
2
2
  SHA256:
3
- metadata.gz: 9d102f34767d0f3b43de70026785553f7072a6403adc75202f8bbae5b4b56fa5
4
- data.tar.gz: 389fddc4d9e20582a9ab1601ddca2a7de2ed20975fe3a043edccd0f73cb0c237
3
+ metadata.gz: '079443c6a699983314b50894d71e41f9f00fb37ac345c3c9adce1b393390232c'
4
+ data.tar.gz: 1daacb3634f9dca35e94af70d6240efda36b9d44c66a923837d86199acdd80e0
5
5
  SHA512:
6
- metadata.gz: 5175d278f9c20c1588a746605a52d2f2ee52f8f3b29e5b08d84e4fc13eb2098d3f50e8ade81561eb13292330771c33bca681e6aaf128c793bd7d82039ae2c4d5
7
- data.tar.gz: 5ccc596bc40684482b96be17b00742e9d06696d9efb650ca30525d184fa7c21b1311e1eb78eac2b6caedc98dc081b5b8e2958291d503cfc12eb50a92f6597aac
6
+ metadata.gz: 5dc7a33c5a48e8e18921dc7e7e32717a4a743bdb15008ec1c53f70738b9bb42019aa29aaef9d792a187c28f12acc09011128815bfda0c1889e0f98d903eec551
7
+ data.tar.gz: 875cae3964a4a6716729f521779f1e6344483420da3843023b11312217f1a3524c4ec7f8220676f18d4956d752f08827228d152233d6c8913ac7e6ac5e408d86
@@ -0,0 +1,72 @@
1
+ # For most projects, this workflow file will not need changing; you simply need
2
+ # to commit it to your repository.
3
+ #
4
+ # You may wish to alter this file to override the set of languages analyzed,
5
+ # or to provide custom queries or build logic.
6
+ #
7
+ # ******** NOTE ********
8
+ # We have attempted to detect the languages in your repository. Please check
9
+ # the `language` matrix defined below to confirm you have the correct set of
10
+ # supported CodeQL languages.
11
+ #
12
+ name: "CodeQL"
13
+
14
+ on:
15
+ push:
16
+ branches: [ "master" ]
17
+ pull_request:
18
+ # The branches below must be a subset of the branches above
19
+ branches: [ "master" ]
20
+ schedule:
21
+ - cron: '42 21 * * 1'
22
+
23
+ jobs:
24
+ analyze:
25
+ name: Analyze
26
+ runs-on: ubuntu-latest
27
+ permissions:
28
+ actions: read
29
+ contents: read
30
+ security-events: write
31
+
32
+ strategy:
33
+ fail-fast: false
34
+ matrix:
35
+ language: [ 'ruby' ]
36
+ # CodeQL supports [ 'cpp', 'csharp', 'go', 'java', 'javascript', 'python', 'ruby' ]
37
+ # Learn more about CodeQL language support at https://aka.ms/codeql-docs/language-support
38
+
39
+ steps:
40
+ - name: Checkout repository
41
+ uses: actions/checkout@v3
42
+
43
+ # Initializes the CodeQL tools for scanning.
44
+ - name: Initialize CodeQL
45
+ uses: github/codeql-action/init@v2
46
+ with:
47
+ languages: ${{ matrix.language }}
48
+ # If you wish to specify custom queries, you can do so here or in a config file.
49
+ # By default, queries listed here will override any specified in a config file.
50
+ # Prefix the list here with "+" to use these queries and those in the config file.
51
+
52
+ # Details on CodeQL's query packs refer to : https://docs.github.com/en/code-security/code-scanning/automatically-scanning-your-code-for-vulnerabilities-and-errors/configuring-code-scanning#using-queries-in-ql-packs
53
+ # queries: security-extended,security-and-quality
54
+
55
+
56
+ # Autobuild attempts to build any compiled languages (C/C++, C#, or Java).
57
+ # If this step fails, then you should remove it and run the build manually (see below)
58
+ - name: Autobuild
59
+ uses: github/codeql-action/autobuild@v2
60
+
61
+ # ℹ️ Command-line programs to run using the OS shell.
62
+ # 📚 See https://docs.github.com/en/actions/using-workflows/workflow-syntax-for-github-actions#jobsjob_idstepsrun
63
+
64
+ # If the Autobuild fails above, remove it and uncomment the following three lines.
65
+ # modify them (or add more) to build your code if your project, please refer to the EXAMPLE below for guidance.
66
+
67
+ # - run: |
68
+ # echo "Run, Build Application using script"
69
+ # ./location_of_script_within_repo/buildscript.sh
70
+
71
+ - name: Perform CodeQL Analysis
72
+ uses: github/codeql-action/analyze@v2
@@ -0,0 +1,50 @@
1
+ # This workflow uses actions that are not certified by GitHub.
2
+ # They are provided by a third-party and are governed by
3
+ # separate terms of service, privacy policy, and support
4
+ # documentation.
5
+
6
+ # pulled from repo
7
+ name: "Rubocop"
8
+
9
+ on:
10
+ push:
11
+ branches: [ "master" ]
12
+ pull_request:
13
+ # The branches below must be a subset of the branches above
14
+ branches: [ "master" ]
15
+ schedule:
16
+ - cron: '33 21 * * 2'
17
+
18
+ jobs:
19
+ rubocop:
20
+ runs-on: ubuntu-latest
21
+ strategy:
22
+ fail-fast: false
23
+
24
+ steps:
25
+ - name: Checkout repository
26
+ uses: actions/checkout@v3
27
+
28
+ # If running on a self-hosted runner, check it meets the requirements
29
+ # listed at https://github.com/ruby/setup-ruby#using-self-hosted-runners
30
+ - name: Set up Ruby
31
+ uses: ruby/setup-ruby@v1
32
+ with:
33
+ ruby-version: 2.7
34
+
35
+ - name: Install dependencies
36
+ run: bundle install
37
+
38
+ - name: RuboCop run
39
+ run: |
40
+ bash -c "
41
+ bundle exec rubocop --require code_scanning --format CodeScanning::SarifFormatter -o rubocop.sarif
42
+ [[ $? -ne 2 ]]
43
+ "
44
+
45
+ # - name: Upload Sarif output
46
+ # if: steps.check_files.outputs.files_exists == 'true'
47
+ # uses: github/codeql-action/upload-sarif@v2
48
+ # with:
49
+ # # Path to SARIF file relative to the root of the repository
50
+ # sarif_file: rubocop.sarif
data/.gitignore CHANGED
@@ -57,3 +57,4 @@ coverage/
57
57
  !.env.travis
58
58
 
59
59
  .vscode
60
+ .dccache