GeezerVison

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1. Commits on Dec 10, 2025

   • Merge pull request #1120 from biojava/sym-edgecase

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2. Commits on Dec 8, 2025

   • Merge pull request #1119 from Pasjonat90D/fix/use-isempty-instead-of-size-#1079

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   • Bugfix: edge-case with no equiv residues in alignment wasn't dealt with and led to IllegalArgumentException.

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3. Commits on Nov 30, 2025

   • Fix #1079: Use isEmpty() instead of size() == 0

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4. Commits on Nov 21, 2025

   • Fix RSPEC-1940 boolean checks

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5. Commits on Nov 8, 2025

   • Fix for #1116

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6. Commits on Mar 19, 2025

   • Safeguards

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   • More cleanup

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   • More cleanup

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   • Formatting and docs cleanup

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7. Commits on Mar 18, 2025

   • Update biojava-structure/src/main/java/org/biojava/nbio/structure/EntityType.java

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8. Commits on Mar 17, 2025

   • Make entity type case insensitive. Also improved docs

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9. Commits on Mar 4, 2025

   • Update biojava-structure/src/main/java/org/biojava/nbio/structure/io/cif/CifStructureConsumerImpl.java

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10. Commits on Feb 28, 2025

    • Deal with missing strand_id

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    • Revert "Dealing with struct_ref_seq_dif strand_id by referencing through struct_ref_seq and struct_ref"

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    • Logging

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    • Dealing with struct_ref_seq_dif strand_id by referencing through struct_ref_seq and struct_ref

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    • Deal with some missing fields in IHM

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11. Commits on Feb 27, 2025

    • Merge pull request #1106 from josemduarte/cifparsing-lenient

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12. Commits on Feb 22, 2025

    • Review comment

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    • Fix: first model is model index 0

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13. Commits on Feb 21, 2025

    • Bugfix: ASA calculation was by default using all models. Now it will use model 1 by default. Added new constructor to choose model.

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    • Another safeguard, that applies to some PDB-IHM entries

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    • Lenient to missing atom_site.occupancy

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    • Handle more missing fields in struct_ref_seq

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14. Commits on Jan 8, 2025

    • Merge pull request #1103 from josemduarte/cifparser-gemmifile

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15. Commits on Jan 7, 2025

    • Javadoc fix: remaining errors in structure module. Mostly obsolete references

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    • Javadoc fix: most other errors in structure module

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    • Javadoc fix: many errors in struct align package

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    • Javadoc fix: many errors in struct align package

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16. Commits on Jan 6, 2025

    • Javadoc fix: many errors in struct align package

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    • More lenient parsing if some fields are missing (e.g. in files output by Gemmi)

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17. Commits on Jan 4, 2025

    • Javadoc fix: some more errors from structure module

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18. Commits on Jan 3, 2025

    • Javadoc fix: some more errors from structure module

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    • Javadoc fix: a few errors from structure module

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