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biojava
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Commits on Aug 27, 2026
Logging for resolution parsing: warn only when they are actually different
josemduarte
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d6a9604
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Logging cosmetics
josemduarte
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Merge pull request #1145 from biojava/jd/cath-fixes
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Test fix suggested by AI: test was failing when download was too slow
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954d75a
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Demoting
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Merge pull request #1130 from biojava/dependabot/maven/biojava-structure/com.fasterxml.jackson.core-jackson-databind-2.18.9
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Commits on Aug 26, 2026
Merge pull request #1144 from aalhossary/aa/emit-entry-id
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Logging
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Safeguard for case of nothing parseable in file
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Write the entry identifier as a data item, not only as the block name
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aalhossary
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Merge pull request #1125 from arkanar611/ISSUE-1038-Test-refactoring
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Bump com.fasterxml.jackson.core:jackson-databind in /biojava-structure
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Merge branch 'master' into jd/cath-fixes
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Merge pull request #1141 from aalhossary/aa/ecod-new-format
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Merge upstream master into aa/ecod-new-format
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Fix ArrayIndexOutOfBoundsException and file validation in CathInstallation
josemduarte
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72b5ed1
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Merge pull request #1137 from aalhossary/aa/ci-integration-tests-nightly
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Merge pull request #1133 from aalhossary/aa/filedownloadutils-hash-validation
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Merge pull request #1132 from biojava/dependabot/maven/org.apache.logging.log4j-log4j-api-2.25.5
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Commits on Aug 17, 2026
Test every ECOD layout offline
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aalhossary
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Support the new ECOD distribution format
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Commits on Aug 16, 2026
Test that a redirect or error is never cached as a chem comp definition
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aalhossary
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Commits on Aug 15, 2026
Reject redirects and error responses in the chem comp download
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Fix CATH downloads: use https, and check the response before caching it
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aalhossary
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Run integration tests nightly rather than on every pull request
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Make LocalPDBDirectory.getLastModifiedTime public
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Test that a 404 is neither cached nor recorded as valid
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Fix FileDownloadUtils validation and implement checksum verification
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Commits on Aug 13, 2026
Bump org.apache.logging.log4j:log4j-api from 2.25.4 to 2.25.5
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Commits on Jul 30, 2026
[maven-release-plugin] prepare for next development iteration
josemduarte
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[maven-release-plugin] prepare release biojava-7.2.6
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Disabling tests in release process. Tests are done at CI time
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Merge pull request #1129 from biojava/jd/cifparse-empty-revdate
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Commits on Jul 29, 2026
Bugfix: parsing of mmCIF files with empty database_PDB_rev.date
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Commits on May 27, 2026
Issue 1038 - Test was refactored by using junit5 features
Sergey Pyatykh
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60450a2
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