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Markup-driven lipid CID spectrum generator (experimental) - #806

Draft

YukiMatsuzawa wants to merge 93 commits into

masterfrom

experimental/lipid_spectrum_generator_by_markup

Draft

Markup-driven lipid CID spectrum generator (experimental)#806
YukiMatsuzawa wants to merge 93 commits into
masterfrom
experimental/lipid_spectrum_generator_by_markup

Commits on Jul 20, 2023
- Fix conflict
  mikiko.takahashi
  committed
  8de58f2
Commits on Jul 21, 2023
- Merge branch 'master' into Add_Cacao_lipid
  mikiko.takahashi
  committed
  440b14c
- Add NAAnt annotation(Anthranilic acid) method
  mikiko.takahashi
  committed
  c5f52e7
- Fix NALeu (neg) annotation method
  mikiko.takahashi
  committed
  d5f64e7
Commits on Jul 25, 2023
- Merge branch 'master' into Add_Cacao_lipid
  mikiko.takahashi
  committed
  20c5789
- Add BisMeLPA [M-H]- and some fix
  mikiko.takahashi
  committed
  2600098
Commits on Jan 6, 2025
- added temporatly file of pc spectrum generator
  htsugawa
  committed
  54d3e7b
Commits on Jan 7, 2025
- Add SourceGenerator for lipid spectrum
  YukiMatsuzawa
  committed
  39b4e15
- Add test project for lipid spectrum generator
  YukiMatsuzawa
  committed
  f6d7b64
Commits on Jan 8, 2025
- Fix LipidSpectrumGeneratorTypeGenerator
  YukiMatsuzawa
  committed
  7c606f5
- Add LipidSpectrumGeneratorTest
  YukiMatsuzawa
  committed
  504acb2
Commits on Apr 28, 2025
- Add FormulaStringParser and related tests
  YukiMatsuzawa
  committed
  c105277
- Refactor element parsing and update ion metadata
  YukiMatsuzawa
  committed
  5d90e75
Commits on May 9, 2025
- Add support for ion charge and formula in calculations
  YukiMatsuzawa
  committed
  62e8edd
- Add FormulaSentenceParser with tests for chemical formulas
  YukiMatsuzawa
  committed
  ad79bac
Commits on May 13, 2025
- Update metadata key and enhance test project setup
  YukiMatsuzawa
  committed
  69a63f9
- Fix class name
  YukiMatsuzawa
  committed
  409aff4
- Add Term class
  YukiMatsuzawa
  committed
  115a3d1
- Refactor and test Context class for term resolution
  YukiMatsuzawa
  committed
  90a6945
- Reorder Context.Resolve process
  YukiMatsuzawa
  committed
  5368212
- Move types
  YukiMatsuzawa
  committed
  8b88029
Commits on May 14, 2025
- Enhance Context and parsing with dynamic variable resolution
  YukiMatsuzawa
  committed
  ae1728d
Commits on May 15, 2025
- Refactor constants handling and improve test coverage
  YukiMatsuzawa
  committed
  03f3909
- Improve term resolution formatting in Context class
  YukiMatsuzawa
  committed
  13c1d2c
Commits on May 16, 2025
Commits on May 26, 2025
- update \CompMs.Common.Lipidomics.SourceGeneratorTests\MsdialLipidCidSpectrumModel.xml
  mikiko.takahashi
  committed
  be80734
- update xml
  mikiko.takahashi
  committed
  1e00a93
- update xml(test)
  mikiko.takahashi
  committed
  ffc5b8e
Commits on May 27, 2025
- Fix a bug
  YukiMatsuzawa
  committed
  a80941e
Commits on May 30, 2025
- add xml description and test code
  mikiko.takahashi
  committed
  030c7fe
- Fix xml and some
  mikiko.takahashi
  committed
  8abc05b
Commits on Jun 3, 2025
- Update LipidClass Parsers and TotalChainParser
  mikiko.takahashi
  committed
  47b6096
- Update Lipid Source Generator
  mikiko.takahashi
  committed
  d8b670d
Commits on Jun 16, 2025
- Update (WIP)
  mikiko.takahashi
  committed
  abc12f6
Commits on Jun 18, 2025
- update (WIP)
  mikiko.takahashi
  committed
  b8eea43
- Merge branch 'master' into experimental/lipid_spectrum_generator_by_markup
  mikiko.takahashi
  committed
  4a13b63
Commits on Jun 20, 2025
- update
  mikiko.takahashi
  committed
  2001e61
Commits on Jun 23, 2025
- update
  mikiko.takahashi
  committed
  05b8935
- update
  mikiko.takahashi
  committed
  29783df
Commits on Jul 2, 2025
- update lipid parsers (WIP)
  mikiko.takahashi
  committed
  8e742fa
- Merge branch 'master' into experimental/lipid_spectrum_generator_by_markup
  mikiko.takahashi
  committed
  a8a4e22
- update (lipid parser)
  mikiko.takahashi
  committed
  ec3606d
Commits on Jul 4, 2025
- Merge remote-tracking branch 'origin/master' into experimental/lipid_spectrum_generator_by_markup
  mikiko.takahashi
  committed
  27f9b76
- fix
  mikiko.takahashi
  committed
  0782e6f
- Restore
  mikiko.takahashi
  committed
  0f65125
- update
  mikiko.takahashi
  committed
  70add4d
Commits on Jul 8, 2025
- (WIP) add TG_ESTLipidParser
  mikiko.takahashi
  committed
  1a59819
Commits on Jul 9, 2025
- update tg_est lipid parser
  mikiko.takahashi
  committed
  7943e69
- update TG_EST lipid parser
  mikiko.takahashi
  committed
  e2c9a9f
Commits on Jul 16, 2025
- update (cer classes)
  mikiko.takahashi
  committed
  e6dda08
Commits on Jul 23, 2025
- update Lipid parsers and Lipidmics type generator
  mikiko.takahashi
  committed
  5190ba9
Commits on Jul 31, 2025
- update (cer classes and some)
  mikiko.takahashi
  committed
  8f6d2be
Commits on Aug 7, 2025
- Add lipidParsers
  mikiko.takahashi
  committed
  c7d5ee6
- update
  mikiko.takahashi
  committed
  4678ecf
Commits on Aug 22, 2025
- Modified to enable calculation of divalent ions
  mikiko.takahashi
  committed
  792b04b
- update (about HexCer and some)
  mikiko.takahashi
  committed
  2a4d11d
Commits on Sep 17, 2025
- Merge branch 'master' into experimental/lipid_spectrum_generator_by_markup
  mikiko.takahashi
  committed
  bc0413d
- Update LipidParser and more (WIP)
  mikiko.takahashi
  committed
  65e683c
Commits on Sep 18, 2025
- Add lipid parsers
  mikiko.takahashi
  committed
  cd7e786
Commits on Sep 19, 2025
- update
  mikiko.takahashi
  committed
  484c6aa
- Temporary
  mikiko.takahashi
  committed
  0e2d18f
- Merge branch 'Add_Cacao_lipid' into recovering_forgotten_merges
  mikiko.takahashi
  committed
  71318a0
- fix error
  mikiko.takahashi
  committed
  9148c77
- Fix error
  mikiko.takahashi
  committed
  bdab109
- Merge branch 'recovering_forgotten_merges' into experimental/lipid_spectrum_generator_by_markup
  mikiko.takahashi
  committed
  cdfc267
- update
  mikiko.takahashi
  committed
  d0acafe
Commits on Oct 1, 2025
- Merge branch 'master' into experimental/lipid_spectrum_generator_by_markup
  mikiko.takahashi
  committed
  f4ac66c
Commits on Oct 28, 2025
- Merge branch 'master' into experimental/lipid_spectrum_generator_by_markup
  mikiko.takahashi
  committed
  921b814
Commits on Oct 29, 2025
- add lipid parser
  mikiko.takahashi
  committed
  8147539
Commits on Nov 4, 2025
- update
  mikiko.takahashi
  committed
  5b867d5
Commits on Nov 13, 2025
- Add lipid parsers
  mikiko.takahashi
  committed
  09d4a92
- update
  mikiko.takahashi
  committed
  de4e447
Commits on Nov 20, 2025
- add lipid parsers
  mikiko.takahashi
  committed
  718bb94
- Fix error
  mikiko.takahashi
  committed
  94e728d
Commits on Nov 26, 2025
- update lipid parsers
  mikiko.takahashi
  committed
  54339a3
- update lipidSpectrumGenerator
  mikiko.takahashi
  committed
  c516e82
Commits on Dec 16, 2025
- update
  mikiko.takahashi
  committed
  83e0f76
- update
  mikiko.takahashi
  committed
  f383070
Commits on Dec 25, 2025
- update XML
  mikiko.takahashi
  committed
  5b0441a
Commits on Jan 29, 2026
- update xml and modify LipidSpectrumGeneratorTypeGenerator
  mikiko.takahashi
  committed
  d532125
Commits on Feb 2, 2026
- update xml
  mikiko.takahashi
  committed
  e39ae89
Commits on Feb 3, 2026
- update xml
  mikiko.takahashi
  committed
  dbdd3ff
- fix xml
  mikiko.takahashi
  committed
  9654d16
Commits on Sep 16, 2026
- Remove accidentally committed temp files
  
  YukiMatsuzawa
  and
  claude
  committed
  d7e4024
- Merge remote-tracking branch 'origin/master' into claude/branch-verification-catchup-21d98d
  YukiMatsuzawa
  committed
  2934aa4
- Fix type mismatch in FormulaSentenceParserTest
  
  YukiMatsuzawa
  and
  claude
  committed
  2f5e0c9
Commits on Oct 16, 2026
- Merge remote-tracking branch 'origin/master' into claude/sync-with-master-8a243c
  YukiMatsuzawa
  committed
  b1d5aaa

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