Skip to content
Navigation Menu
Sign in
Appearance settings
Platform
AI CODE CREATION
GitHub Copilot
Write better code with AI
GitHub Copilot app
Direct agents from issue to merge
MCP Registry
Integrate external tools
DEVELOPER WORKFLOWS
Actions
Automate any workflow
Codespaces
Instant dev environments
Issues
Plan and track work
Code Review
Manage code changes
Code Quality
Enforce quality at merge
APPLICATION SECURITY
GitHub Advanced Security
Find and fix vulnerabilities
Code security
Secure your code as you build
Secret protection
Stop leaks before they start
EXPLORE
Why GitHub
Documentation
Blog
Changelog
Marketplace
View all features
Solutions
BY COMPANY SIZE
Enterprises
Small and medium teams
Startups
Nonprofits
BY USE CASE
App Modernization
DevSecOps
DevOps
CI/CD
View all use cases
BY INDUSTRY
Healthcare
Financial services
Manufacturing
Government
View all industries
View all solutions
Resources
EXPLORE BY TOPIC
AI
Software Development
DevOps
Security
View all topics
EXPLORE BY TYPE
Customer stories
Events & webinars
Ebooks & reports
Business insights
GitHub Skills
SUPPORT & SERVICES
Documentation
Customer support
Community forum
Trust center
Partners
View all resources
Open Source
COMMUNITY
GitHub Sponsors
Fund open source developers
PROGRAMS
Security Lab
Maintainer Community
GitHub Stars
Archive Program
REPOSITORIES
Topics
Trending
Collections
Enterprise
ENTERPRISE SOLUTIONS
Enterprise platform
AI-powered developer platform
AVAILABLE ADD-ONS
GitHub Advanced Security
Enterprise-grade security features
Copilot for Business
Enterprise-grade AI features
Premium Support
Enterprise-grade 24/7 support
Pricing
Search
/
Sign in
Sign up
Appearance settings
You signed in with another tab or window.
Reload
to refresh your session.
You signed out in another tab or window.
Reload
to refresh your session.
You switched accounts on another tab or window.
Reload
to refresh your session.
Dismiss alert
{{ message }}
Uh oh!
There was an error while loading.
Please reload this page
.
biojava
/
biojava
Public
Notifications
You must be signed in to change notification settings
Fork
399
Star
631
Code
Issues
69
Pull requests
4
Actions
Security and quality
0
Insights
Additional navigation options
Code
Issues
Pull requests
Actions
Security and quality
Insights
Commits
Breadcrumbs
History for
biojava
biojava-structure
src
main
on
master
User selector
All users
Datepicker
All time
Commit history
Commits on Sep 1, 2026
Merge pull request #1150 from aalhossary/aa/ecod-lock-on-failure
Show description for dafb0cd
josemduarte
authored
dafb0cd
View commit details
Copy full SHA for dafb0cd
View code at this point
Browse repository at this point
Commits on Aug 30, 2026
Keep the ECOD read lock balanced when loading fails
Show description for dd9092b
aalhossary
committed
dd9092b
View commit details
Copy full SHA for dd9092b
View code at this point
Browse repository at this point
Commits on Aug 28, 2026
Merge branch 'master' into jd/asa-perf
josemduarte
committed
1216380
View commit details
Copy full SHA for 1216380
View code at this point
Browse repository at this point
Commits on Aug 27, 2026
Logging for resolution parsing: warn only when they are actually different
josemduarte
committed
d6a9604
View commit details
Copy full SHA for d6a9604
View code at this point
Browse repository at this point
Logging cosmetics
josemduarte
committed
8af5253
View commit details
Copy full SHA for 8af5253
View code at this point
Browse repository at this point
Merge pull request #1145 from biojava/jd/cath-fixes
Show description for 7085ddb
josemduarte
authored
7085ddb
View commit details
Copy full SHA for 7085ddb
View code at this point
Browse repository at this point
Demoting
josemduarte
committed
26c03d1
View commit details
Copy full SHA for 26c03d1
View code at this point
Browse repository at this point
Commits on Aug 26, 2026
Logging
josemduarte
committed
27bb418
View commit details
Copy full SHA for 27bb418
View code at this point
Browse repository at this point
Safeguard for case of nothing parseable in file
josemduarte
committed
83fe61a
View commit details
Copy full SHA for 83fe61a
View code at this point
Browse repository at this point
Write the entry identifier as a data item, not only as the block name
Show description for e0b7797
aalhossary
committed
e0b7797
View commit details
Copy full SHA for e0b7797
View code at this point
Browse repository at this point
Merge branch 'master' into jd/cath-fixes
josemduarte
committed
4b4e91f
View commit details
Copy full SHA for 4b4e91f
View code at this point
Browse repository at this point
Merge upstream master into aa/ecod-new-format
Show description for cbab39b
aalhossary
committed
cbab39b
View commit details
Copy full SHA for cbab39b
View code at this point
Browse repository at this point
Fix ArrayIndexOutOfBoundsException and file validation in CathInstallation
josemduarte
committed
72b5ed1
View commit details
Copy full SHA for 72b5ed1
View code at this point
Browse repository at this point
Use parallel primitive arrays for neighbors in AsaCalculator
Show description for 5c8cff0
josemduarte
committed
5c8cff0
View commit details
Copy full SHA for 5c8cff0
View code at this point
Browse repository at this point
Commits on Aug 24, 2026
Pure array solution for sphere points. About 10% faster
josemduarte
committed
60d03c4
View commit details
Copy full SHA for 60d03c4
View code at this point
Browse repository at this point
Commits on Aug 17, 2026
Support the new ECOD distribution format
Show description for 6cb9633
aalhossary
committed
6cb9633
View commit details
Copy full SHA for 6cb9633
View code at this point
Browse repository at this point
Commits on Aug 15, 2026
Reject redirects and error responses in the chem comp download
Show description for 5ec48ac
aalhossary
committed
5ec48ac
View commit details
Copy full SHA for 5ec48ac
View code at this point
Browse repository at this point
Fix CATH downloads: use https, and check the response before caching it
Show description for ed36d3a
aalhossary
committed
ed36d3a
View commit details
Copy full SHA for ed36d3a
View code at this point
Browse repository at this point
Make LocalPDBDirectory.getLastModifiedTime public
Show description for 66d27c7
aalhossary
committed
66d27c7
View commit details
Copy full SHA for 66d27c7
View code at this point
Browse repository at this point
Fix FileDownloadUtils validation and implement checksum verification
Show description for f061f57
aalhossary
committed
f061f57
View commit details
Copy full SHA for f061f57
View code at this point
Browse repository at this point
Commits on Jul 29, 2026
Bugfix: parsing of mmCIF files with empty database_PDB_rev.date
josemduarte
committed
cb3019d
View commit details
Copy full SHA for cb3019d
View code at this point
Browse repository at this point
Commits on May 5, 2026
Adding safeguard, bug introduced in #1116 and reported in Biojava-l
josemduarte
committed
7c3909f
View commit details
Copy full SHA for 7c3909f
View code at this point
Browse repository at this point
Commits on Dec 14, 2025
Refactor: fix SonarQube S1155 issues (#1079)
Pasjonat90D
committed
c0240dd
View commit details
Copy full SHA for c0240dd
View code at this point
Browse repository at this point
Commits on Dec 10, 2025
Merge pull request #1120 from biojava/sym-edgecase
Show description for 8edaed7
josemduarte
authored
8edaed7
View commit details
Copy full SHA for 8edaed7
View code at this point
Browse repository at this point
Commits on Dec 8, 2025
Merge pull request #1119 from Pasjonat90D/fix/use-isempty-instead-of-size-#1079
Show description for 70e9a74
josemduarte
authored
70e9a74
View commit details
Copy full SHA for 70e9a74
View code at this point
Browse repository at this point
Bugfix: edge-case with no equiv residues in alignment wasn't dealt with and led to IllegalArgumentException.
Show description for 423cd86
josemduarte
committed
423cd86
View commit details
Copy full SHA for 423cd86
View code at this point
Browse repository at this point
Commits on Nov 30, 2025
Fix #1079: Use isEmpty() instead of size() == 0
Pasjonat90D
committed
3f039fd
View commit details
Copy full SHA for 3f039fd
View code at this point
Browse repository at this point
Commits on Nov 21, 2025
Fix RSPEC-1940 boolean checks
JayKamsu
committed
0af196f
View commit details
Copy full SHA for 0af196f
View code at this point
Browse repository at this point
Commits on Nov 8, 2025
Fix for #1116
josemduarte
committed
274a36a
View commit details
Copy full SHA for 274a36a
View code at this point
Browse repository at this point
Commits on Mar 19, 2025
Safeguards
josemduarte
committed
7217ee8
View commit details
Copy full SHA for 7217ee8
View code at this point
Browse repository at this point
More cleanup
josemduarte
committed
c33627f
View commit details
Copy full SHA for c33627f
View code at this point
Browse repository at this point
More cleanup
josemduarte
committed
743a9fd
View commit details
Copy full SHA for 743a9fd
View code at this point
Browse repository at this point
Formatting and docs cleanup
josemduarte
committed
381fedd
View commit details
Copy full SHA for 381fedd
View code at this point
Browse repository at this point
Commits on Mar 18, 2025
Update biojava-structure/src/main/java/org/biojava/nbio/structure/EntityType.java
Show description for aa0d576
josemduarte
and
sbittrich
authored
aa0d576
View commit details
Copy full SHA for aa0d576
View code at this point
Browse repository at this point
Commits on Mar 17, 2025
Make entity type case insensitive. Also improved docs
josemduarte
committed
501a09e
View commit details
Copy full SHA for 501a09e
View code at this point
Browse repository at this point
Previous
Next
You can’t perform that action at this time.