René's URL Explorer Experiment


Title: Parsing PDB-IHM CIF files by josemduarte · Pull Request #1108 · biojava/biojava · GitHub

Open Graph Title: Parsing PDB-IHM CIF files by josemduarte · Pull Request #1108 · biojava/biojava

X Title: Parsing PDB-IHM CIF files by josemduarte · Pull Request #1108 · biojava/biojava

Description: Lenient cif parsing: allowing more missing fields. Also improved logging for the case of no atom_site

Open Graph Description: Lenient cif parsing: allowing more missing fields. Also improved logging for the case of no atom_site

X Description: Lenient cif parsing: allowing more missing fields. Also improved logging for the case of no atom_site

Opengraph URL: https://github.com/biojava/biojava/pull/1108

X: @github

direct link

Domain: github.com

route-pattern/_view_fragments/voltron/pull_requests/show/:user_id/:repository/:id/pull_request_layout(.:format)
route-controllervoltron_pull_requests_fragments
route-actionpull_request_layout
fetch-noncev2:3cecef6e-0ab4-f20b-47f5-29d47e5778db
current-catalog-service-hashae870bc5e265a340912cde392f23dad3671a0a881730ffdadd82f2f57d81641b
request-id8B9A:396FB5:D81D7B:12C965D:697391D6
html-safe-nonce745b01966e4af06e0d70ca24a220a49f3c8b4cfc95d15167458aa9aaa725c7da
visitor-payloadeyJyZWZlcnJlciI6IiIsInJlcXVlc3RfaWQiOiI4QjlBOjM5NkZCNTpEODFEN0I6MTJDOTY1RDo2OTczOTFENiIsInZpc2l0b3JfaWQiOiI4NjA1MjQ2MTYwNzY5MzU2MjQ2IiwicmVnaW9uX2VkZ2UiOiJpYWQiLCJyZWdpb25fcmVuZGVyIjoiaWFkIn0=
visitor-hmac770e88b25c3f2cfe6f9030a27b5e276e50362d9795ac09295a32c2b67238a501
hovercard-subject-tagpull_request:2365415606
github-keyboard-shortcutsrepository,pull-request-list,pull-request-conversation,pull-request-files-changed,copilot
google-site-verificationApib7-x98H0j5cPqHWwSMm6dNU4GmODRoqxLiDzdx9I
octolytics-urlhttps://collector.github.com/github/collect
analytics-location///voltron/pull_requests_fragments/pull_request_layout
fb:app_id1401488693436528
apple-itunes-appapp-id=1477376905, app-argument=https://github.com/_view_fragments/voltron/pull_requests/show/biojava/biojava/1108/pull_request_layout
twitter:imagehttps://opengraph.githubassets.com/bccb553104d116ea6c2f051d9f54b7d4844ba181d805530de069c50677746061/biojava/biojava/pull/1108
twitter:cardsummary_large_image
og:imagehttps://opengraph.githubassets.com/bccb553104d116ea6c2f051d9f54b7d4844ba181d805530de069c50677746061/biojava/biojava/pull/1108
og:image:altLenient cif parsing: allowing more missing fields. Also improved logging for the case of no atom_site
og:image:width1200
og:image:height600
og:site_nameGitHub
og:typeobject
og:author:usernamejosemduarte
hostnamegithub.com
expected-hostnamegithub.com
Nonef0b5e2d1da32de5a0b7bcfbc5ba007c93e8e63098fba29e1200efb674aa72e66
turbo-cache-controlno-preview
go-importgithub.com/biojava/biojava git https://github.com/biojava/biojava.git
octolytics-dimension-user_id237402
octolytics-dimension-user_loginbiojava
octolytics-dimension-repository_id9199359
octolytics-dimension-repository_nwobiojava/biojava
octolytics-dimension-repository_publictrue
octolytics-dimension-repository_is_forkfalse
octolytics-dimension-repository_network_root_id9199359
octolytics-dimension-repository_network_root_nwobiojava/biojava
turbo-body-classeslogged-out env-production page-responsive
disable-turbofalse
browser-stats-urlhttps://api.github.com/_private/browser/stats
browser-errors-urlhttps://api.github.com/_private/browser/errors
release6fc3acd8abe8a5ec0c4bf4d09d9e27d14301112d
ui-targetfull
theme-color#1e2327
color-schemelight dark

Links:

Skip to contenthttps://github.com/biojava/biojava/pull/1108#start-of-content
https://github.com/
Sign in https://github.com/login?return_to=https%3A%2F%2Fgithub.com%2Fbiojava%2Fbiojava%2Fpull%2F1108
GitHub CopilotWrite better code with AIhttps://github.com/features/copilot
GitHub SparkBuild and deploy intelligent appshttps://github.com/features/spark
GitHub ModelsManage and compare promptshttps://github.com/features/models
MCP RegistryNewIntegrate external toolshttps://github.com/mcp
ActionsAutomate any workflowhttps://github.com/features/actions
CodespacesInstant dev environmentshttps://github.com/features/codespaces
IssuesPlan and track workhttps://github.com/features/issues
Code ReviewManage code changeshttps://github.com/features/code-review
GitHub Advanced SecurityFind and fix vulnerabilitieshttps://github.com/security/advanced-security
Code securitySecure your code as you buildhttps://github.com/security/advanced-security/code-security
Secret protectionStop leaks before they starthttps://github.com/security/advanced-security/secret-protection
Why GitHubhttps://github.com/why-github
Documentationhttps://docs.github.com
Bloghttps://github.blog
Changeloghttps://github.blog/changelog
Marketplacehttps://github.com/marketplace
View all featureshttps://github.com/features
Enterpriseshttps://github.com/enterprise
Small and medium teamshttps://github.com/team
Startupshttps://github.com/enterprise/startups
Nonprofitshttps://github.com/solutions/industry/nonprofits
App Modernizationhttps://github.com/solutions/use-case/app-modernization
DevSecOpshttps://github.com/solutions/use-case/devsecops
DevOpshttps://github.com/solutions/use-case/devops
CI/CDhttps://github.com/solutions/use-case/ci-cd
View all use caseshttps://github.com/solutions/use-case
Healthcarehttps://github.com/solutions/industry/healthcare
Financial serviceshttps://github.com/solutions/industry/financial-services
Manufacturinghttps://github.com/solutions/industry/manufacturing
Governmenthttps://github.com/solutions/industry/government
View all industrieshttps://github.com/solutions/industry
View all solutionshttps://github.com/solutions
AIhttps://github.com/resources/articles?topic=ai
Software Developmenthttps://github.com/resources/articles?topic=software-development
DevOpshttps://github.com/resources/articles?topic=devops
Securityhttps://github.com/resources/articles?topic=security
View all topicshttps://github.com/resources/articles
Customer storieshttps://github.com/customer-stories
Events & webinarshttps://github.com/resources/events
Ebooks & reportshttps://github.com/resources/whitepapers
Business insightshttps://github.com/solutions/executive-insights
GitHub Skillshttps://skills.github.com
Documentationhttps://docs.github.com
Customer supporthttps://support.github.com
Community forumhttps://github.com/orgs/community/discussions
Trust centerhttps://github.com/trust-center
Partnershttps://github.com/partners
GitHub SponsorsFund open source developershttps://github.com/sponsors
Security Labhttps://securitylab.github.com
Maintainer Communityhttps://maintainers.github.com
Acceleratorhttps://github.com/accelerator
Archive Programhttps://archiveprogram.github.com
Topicshttps://github.com/topics
Trendinghttps://github.com/trending
Collectionshttps://github.com/collections
Enterprise platformAI-powered developer platformhttps://github.com/enterprise
GitHub Advanced SecurityEnterprise-grade security featureshttps://github.com/security/advanced-security
Copilot for BusinessEnterprise-grade AI featureshttps://github.com/features/copilot/copilot-business
Premium SupportEnterprise-grade 24/7 supporthttps://github.com/premium-support
Pricinghttps://github.com/pricing
Search syntax tipshttps://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
documentationhttps://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
Sign in https://github.com/login?return_to=https%3A%2F%2Fgithub.com%2Fbiojava%2Fbiojava%2Fpull%2F1108
Sign up https://github.com/signup?ref_cta=Sign+up&ref_loc=header+logged+out&ref_page=%2F%3Cuser-name%3E%2F%3Crepo-name%3E%2Fvoltron%2Fpull_requests_fragments%2Fpull_request_layout&source=header-repo&source_repo=biojava%2Fbiojava
Reloadhttps://github.com/biojava/biojava/pull/1108
Reloadhttps://github.com/biojava/biojava/pull/1108
Reloadhttps://github.com/biojava/biojava/pull/1108
biojava https://github.com/biojava
biojavahttps://github.com/biojava/biojava
Notifications https://github.com/login?return_to=%2Fbiojava%2Fbiojava
Fork 395 https://github.com/login?return_to=%2Fbiojava%2Fbiojava
Star 623 https://github.com/login?return_to=%2Fbiojava%2Fbiojava
Code https://github.com/biojava/biojava
Issues 67 https://github.com/biojava/biojava/issues
Pull requests 2 https://github.com/biojava/biojava/pulls
Actions https://github.com/biojava/biojava/actions
Security 0 https://github.com/biojava/biojava/security
Insights https://github.com/biojava/biojava/pulse
Code https://github.com/biojava/biojava
Issues https://github.com/biojava/biojava/issues
Pull requests https://github.com/biojava/biojava/pulls
Actions https://github.com/biojava/biojava/actions
Security https://github.com/biojava/biojava/security
Insights https://github.com/biojava/biojava/pulse
Sign up for GitHub https://github.com/signup?return_to=%2Fbiojava%2Fbiojava%2Fissues%2Fnew%2Fchoose
terms of servicehttps://docs.github.com/terms
privacy statementhttps://docs.github.com/privacy
Sign inhttps://github.com/login?return_to=%2Fbiojava%2Fbiojava%2Fissues%2Fnew%2Fchoose
Jump to bottomhttps://github.com/biojava/biojava/pull/1108#issue-comment-box
josemduartehttps://github.com/josemduarte
masterhttps://github.com/biojava/biojava/tree/master
cif-ihmhttps://github.com/biojava/biojava/tree/cif-ihm
Parsing PDB-IHM CIF files https://github.com/biojava/biojava/pull/1108#top
josemduartehttps://github.com/josemduarte
masterhttps://github.com/biojava/biojava/tree/master
cif-ihmhttps://github.com/biojava/biojava/tree/cif-ihm
Conversation 3 https://github.com/biojava/biojava/pull/1108
Commits 6 https://github.com/biojava/biojava/pull/1108/commits
Checks 5 https://github.com/biojava/biojava/pull/1108/checks
Files changed https://github.com/biojava/biojava/pull/1108/files
Please reload this pagehttps://github.com/biojava/biojava/pull/1108
https://github.co/hiddenchars
https://github.com/biojava/biojava/pull/{{ revealButtonHref }}
https://github.com/josemduarte
josemduartehttps://github.com/josemduarte
Feb 28, 2025https://github.com/biojava/biojava/pull/1108#issue-2888096454
Please reload this pagehttps://github.com/biojava/biojava/pull/1108
josemduartehttps://github.com/josemduarte
February 28, 2025 11:12https://github.com/biojava/biojava/pull/1108#commits-pushed-a6723d4
https://github.com/josemduarte
Deal with some missing fields in IHMhttps://github.com/biojava/biojava/pull/1108/commits/a6723d42a22166de949bed6a6c4f4f1f29a87ee7
a6723d4https://github.com/biojava/biojava/pull/1108/commits/a6723d42a22166de949bed6a6c4f4f1f29a87ee7
https://github.com/josemduarte
Dealing with struct_ref_seq_dif strand_id by referencing through stru…https://github.com/biojava/biojava/pull/1108/commits/8286260589643583c6d631a989b708b4d8c7b956
8286260https://github.com/biojava/biojava/pull/1108/commits/8286260589643583c6d631a989b708b4d8c7b956
https://github.com/josemduarte
Logginghttps://github.com/biojava/biojava/pull/1108/commits/58136fe36f4c0c25d3227580e9e3d0b7f869dc7d
58136fehttps://github.com/biojava/biojava/pull/1108/commits/58136fe36f4c0c25d3227580e9e3d0b7f869dc7d
https://github.com/josemduarte
Revert "Dealing with struct_ref_seq_dif strand_id by referencing thro…https://github.com/biojava/biojava/pull/1108/commits/fdf98644c046416531cb53da0f67e8b7fc6a44cf
fdf9864https://github.com/biojava/biojava/pull/1108/commits/fdf98644c046416531cb53da0f67e8b7fc6a44cf
8286260https://github.com/biojava/biojava/commit/8286260589643583c6d631a989b708b4d8c7b956
https://github.com/josemduarte
Deal with missing strand_idhttps://github.com/biojava/biojava/pull/1108/commits/2841770e794679818e8eab458b387d157b97f9ec
2841770https://github.com/biojava/biojava/pull/1108/commits/2841770e794679818e8eab458b387d157b97f9ec
https://github.com/josemduarte
josemduartehttps://github.com/josemduarte
sbittrichhttps://github.com/sbittrich
February 28, 2025 21:33https://github.com/biojava/biojava/pull/1108#event-16518145826
https://github.com/sbittrich
sbittrichhttps://github.com/sbittrich
Mar 4, 2025 https://github.com/biojava/biojava/pull/1108#pullrequestreview-2655787862
View reviewed changes https://github.com/biojava/biojava/pull/1108/files/2841770e794679818e8eab458b387d157b97f9ec
sbittrichhttps://github.com/sbittrich
https://github.com/biojava/biojava/pull/1108#pullrequestreview-2655787862
Learn morehttps://docs.github.com/articles/managing-disruptive-comments/#hiding-a-comment
Please reload this pagehttps://github.com/biojava/biojava/pull/1108
biojava-structure/src/main/java/org/biojava/nbio/structure/io/cif/CifStructureConsumerImpl.javahttps://github.com/biojava/biojava/pull/1108/files/2841770e794679818e8eab458b387d157b97f9ec#diff-5a312c2ba571afb5c2dfc3413e652961881e136043f24fcfe36c4fb8b8e3b032
Please reload this pagehttps://github.com/biojava/biojava/pull/1108
https://github.com/josemduarte
https://github.com/sbittrich
Update biojava-structure/src/main/java/org/biojava/nbio/structure/io/…https://github.com/biojava/biojava/pull/1108/commits/48cb462e137a17d5161f390bbf265a11bc4f48ee
48cb462https://github.com/biojava/biojava/pull/1108/commits/48cb462e137a17d5161f390bbf265a11bc4f48ee
https://github.com/sbittrich
sbittrichhttps://github.com/sbittrich
Mar 4, 2025 https://github.com/biojava/biojava/pull/1108#pullrequestreview-2659162512
View reviewed changes https://github.com/biojava/biojava/pull/1108/files/48cb462e137a17d5161f390bbf265a11bc4f48ee
sbittrichhttps://github.com/sbittrich
https://github.com/biojava/biojava/pull/1108#pullrequestreview-2659162512
Learn morehttps://docs.github.com/articles/managing-disruptive-comments/#hiding-a-comment
Please reload this pagehttps://github.com/biojava/biojava/pull/1108
https://github.com/josemduarte
josemduartehttps://github.com/josemduarte
09f175ahttps://github.com/biojava/biojava/commit/09f175a5783bca6b7f8211aca99c9dfe1e40a584
Mar 5, 2025https://github.com/biojava/biojava/pull/1108#event-16605606099
Please reload this pagehttps://github.com/biojava/biojava/pull/1108
Sign up for freehttps://github.com/join?source=comment-repo
Sign in to commenthttps://github.com/login?return_to=https%3A%2F%2Fgithub.com%2Fbiojava%2Fbiojava%2Fpull%2F1108
https://github.com/sbittrich
sbittrich https://github.com/sbittrich
https://github.com/biojava/biojava/pull/1108/files/48cb462e137a17d5161f390bbf265a11bc4f48ee
Please reload this pagehttps://github.com/biojava/biojava/pull/1108
https://github.com/josemduarte
https://github.com/sbittrich
https://github.com/apps/copilot-swe-agent
https://github.com
Termshttps://docs.github.com/site-policy/github-terms/github-terms-of-service
Privacyhttps://docs.github.com/site-policy/privacy-policies/github-privacy-statement
Securityhttps://github.com/security
Statushttps://www.githubstatus.com/
Communityhttps://github.community/
Docshttps://docs.github.com/
Contacthttps://support.github.com?tags=dotcom-footer

Viewport: width=device-width


URLs of crawlers that visited me.