GitHub / biojava/biojava / commits
| SHA | Message | Author | Date | Stats |
|---|---|---|---|---|
| d5ea96c9 | Updated to Jakarta JAXB and Java 17 | Gary Murphy <g****m@h****m> | over 2 years ago | |
| 393a98a4 | merge Merge pull request #1073 from sjaenick/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| 06871b8a | merge Merge branch 'biojava:master' into master |
Sebastian Jaenicke <s****n@j****g>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| d276c1a9 | Another gh workflow issue | Jose Duarte <j****e@g****m> | over 2 years ago | |
| 928e0dde | Fixing gh workflow issue after upgrading setup-java | Jose Duarte <j****e@g****m> | over 2 years ago | |
| 7a4be768 | merge Merge branch 'biojava:master' into master |
Sebastian Jaenicke <s****n@j****g>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| 6d23660f | Fixing gh workflow warning and failing test | Jose Duarte <j****e@g****m> | over 2 years ago | |
| 0b09987d | dependency updates | Sebastian Jaenicke <s****k@C****E> | over 2 years ago | |
| 457b6d83 | Fixing test after remediation | josemduarte <j****e@g****m> | almost 3 years ago | |
| 47966636 | merge Merge remote-tracking branch 'origin/master' | josemduarte <j****e@g****m> | almost 3 years ago | |
| 9105226e | Try-with from sonar | josemduarte <j****e@g****m> | almost 3 years ago | |
| 16789586 | Try-with from sonar | josemduarte <j****e@g****m> | almost 3 years ago | |
| d0fa3136 | Try-with from sonar | josemduarte <j****e@g****m> | almost 3 years ago | |
| 6820ce69 | Try-with from sonar and main cleanup | josemduarte <j****e@g****m> | almost 3 years ago | |
| 96140a31 | Init fix from sonar | josemduarte <j****e@g****m> | almost 3 years ago | |
| 4f9cd2a6 | Cast fix from sonar | josemduarte <j****e@g****m> | almost 3 years ago | |
| 2f118bc1 | Regex fix from sonar | josemduarte <j****e@g****m> | almost 3 years ago | |
| 6d07ffe4 | merge Merge pull request #1067 from jlerbsc/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
almost 3 years ago | |
| d5de4b12 | merge Merge pull request #1070 from josemduarte/issue1069 |
Amr ALHOSSARY <a****y@h****m>
Committed by: GitHub <n****y@g****m> |
almost 3 years ago | |
| 9a5c2a97 | Review comment | josemduarte <j****e@g****m> | almost 3 years ago | |
| 5f5b0369 | Fixing #1069 | josemduarte <j****e@g****m> | almost 3 years ago | |
| 4a1863d6 | Sonar S2129 Constructors should not be used to instantiate 'String', 'BigInte... | jlerbsc <j****r@j****m> | almost 3 years ago | |
| 758ceb6b | merge Merge pull request #1065 from jlerbsc/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
almost 3 years ago | |
| 6f8b7932 | merge Merge branch 'biojava:master' into master |
jean pierre Lerbscher <5****c@u****m>
Committed by: GitHub <n****y@g****m> |
almost 3 years ago | |
| 08198196 | Second fix for sonar rule 's1130' throws declarations should not be superfluo... | jlerbsc <j****r@j****m> | almost 3 years ago | |
| 4cb89f83 | Update guava dependency version to 32.0.1-jre. | Michael L Heuer <h****h@a****g> | almost 3 years ago | |
| a9119fc0 | Updating readme and changelog | josemduarte <j****e@g****m> | about 3 years ago | |
| 6d01b691 | [maven-release-plugin] prepare for next development iteration | josemduarte <j****e@g****m> | about 3 years ago | |
| a5170b02 | [maven-release-plugin] prepare release biojava-7.0.2 | josemduarte <j****e@g****m> | about 3 years ago | |
| fc07139b | Cleanup | josemduarte <j****e@g****m> | about 3 years ago | |
| 56b98c8d | merge Merge pull request #1062 from jlerbsc/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| d09477e3 | merge Merge pull request #1063 from josemduarte/more-cif-output |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 4d146e12 | Improvements from review comments | josemduarte <j****e@g****m> | about 3 years ago | |
| 86307e96 | Fix Sonar S1130 throws declarations should not be superfluous | jlerbsc <j****r@j****m> | about 3 years ago | |
| a06ac885 | Latest ciftools | Jose Duarte <j****e@g****m> | about 3 years ago | |
| 6431114f | Fixing empty seqres groups for cif files with no _entity | Jose Duarte <j****e@g****m> | about 3 years ago | |
| 12137bfd | Fixing empty seqres groups for pdb files with not seqres | Jose Duarte <j****e@g****m> | about 3 years ago | |
| a8a96ec1 | Handling nulls in descriptions | josemduarte <j****e@g****m> | about 3 years ago | |
| 3543eb92 | New test | josemduarte <j****e@g****m> | about 3 years ago | |
| 615a5704 | Writing out entity info in CIF | josemduarte <j****e@g****m> | about 3 years ago | |
| 88b51deb | merge Merge pull request #1060 from tmrpavan/tmrpavan-master |
Amr ALHOSSARY <a****y@h****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| caa57898 | Sonar S4973 '==' and '!=' should not be used when 'equals' is overridden #1052 | Pavan Kumar, Thummuru <t****r@c****m> | about 3 years ago | |
| 963dc012 | Sonar S4973 '==' and '!=' should not be used when 'equals' is overridden #1052 | tmrpavan <1****n@u****m> | about 3 years ago | |
| e0b86d01 | Updating README.md | josemduarte <j****e@g****m> | about 3 years ago | |
| 9e4972d2 | Updating CHANGELOG.md | josemduarte <j****e@g****m> | about 3 years ago | |
| 24bda437 | [maven-release-plugin] prepare for next development iteration | josemduarte <j****e@g****m> | about 3 years ago | |
| 7b32a76a | [maven-release-plugin] prepare release biojava-7.0.1 | josemduarte <j****e@g****m> | about 3 years ago | |
| 9872ecb4 | Upgrading nexus staging plugin to avoid known issue happening at release. | josemduarte <j****e@g****m> | about 3 years ago | |
| ea452175 | [maven-release-plugin] rollback the release of biojava-7.0.1 | josemduarte <j****e@g****m> | about 3 years ago | |
| 30a24294 | [maven-release-plugin] prepare for next development iteration | josemduarte <j****e@g****m> | about 3 years ago | |
| a8ea2259 | [maven-release-plugin] prepare release biojava-7.0.1 | josemduarte <j****e@g****m> | about 3 years ago | |
| 27a57990 | merge Merge pull request #1058 from xcalibur91/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| a1356832 | Refactoring : Adding Static constants for NUCLEOTIDE_BACKBONE_ATOMS and AMINO... | Sreejith Nair <s****5@d****a> | about 3 years ago | |
| c573d5bc | merge Merge pull request #1057 from JonStargaryen/master |
Sebastian Bittrich <s****h@r****g>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 4676fe7c | Refactoring : Changes to refactor isPureTranslation method to eliminate compl... | Sreejith Nair <s****5@d****a> | about 3 years ago | |
| 2ddf8b09 | Refactoring Decompose conditional : Changes to refactor getContactOverlapScor... | Sreejith Nair <s****5@d****a> | about 3 years ago | |
| bf40264a | Refactoring : Extract method changes to reduce the cyclomatic complexity of g... | Sreejith Nair <s****5@d****a> | about 3 years ago | |
| 3c83e8b0 | merge Merge remote-tracking branch 'upstream/master' | JonStargaryen <j****0@g****m> | about 3 years ago | |
| a83058a4 | Test fixes after 4hhb remediation | josemduarte <j****e@g****m> | about 3 years ago | |
| f64b73cb | Ignoring a test that broke after 4hhb remediation | josemduarte <j****e@g****m> | about 3 years ago | |
| 04d3f05a | merge Merge remote-tracking branch 'upstream/master' | JonStargaryen <j****0@g****m> | about 3 years ago | |
| b39fb592 | Less garbage in GW actions output | josemduarte <j****e@g****m> | about 3 years ago | |
| 5de01636 | Fixing test after PDB id obsoletion | josemduarte <j****e@g****m> | about 3 years ago | |
| 7e3e7388 | pom cleanup | Sebastian Bittrich <s****h@r****g> | about 3 years ago | |
| 53179add | Updating docs after 7.0.0 release | Jose Duarte <j****e@g****m> | over 3 years ago | |
| a016539d | [maven-release-plugin] prepare for next development iteration | Jose Duarte <j****e@g****m> | over 3 years ago | |
| b7fe72ce | [maven-release-plugin] prepare release biojava-7.0.0 | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 043eb404 |
More nullpdbid tests (#1056)
Co-authored-by: Spencer Bliven <s****n@g****m> |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| 5218e596 | merge Merge pull request #1055 from josemduarte/fixCifSrcNatParsing |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| 3747e5d9 | merge Merge pull request #1046 from BulkSecurityGeneratorProjectV2/fix/JLL/temporar... |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| ad1d2d6b | merge Merge pull request #1053 from josemduarte/v7-java11 |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| 5b99e7ae | More comprehensive fix | Jose Duarte <j****e@g****m> | over 3 years ago | |
| b0a1da5a | Fix for entity_src_nat category parsing, when some items missing | Jose Duarte <j****e@g****m> | over 3 years ago | |
| d61321bd | Latest ciftools-java | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 1a256edb | merge Merge pull request #1024 from aalhossary/add_file_download_validation |
Amr ALHOSSARY <a****y@h****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| f1ef01a7 | Biojava urls | Jose Duarte <j****e@g****m> | over 3 years ago | |
| be227fd1 | Upgrading ciftools to latest j11-based | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 55498783 | Maven enforcer bump to 11, unified variables | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 07e65b22 | Addressing reviewer's comments | Amr ALHOSSARY <a****y@h****m> | over 3 years ago | |
| 1e6cac7d | Upgrading source and target to be java 11 | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 99aae041 | merge Merge pull request #1050 from aalhossary/fix_cif_writing_in_non-US_locale |
Amr ALHOSSARY <a****y@h****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| d045cc23 | Bump dependency ciftools-java-jdk8 to 4.0.5 | Amr ALHOSSARY <a****y@h****m> | over 3 years ago | |
| 3c7b04fa | Adding placeholder for several common hashing algorithms | Amr <a****y@h****m> | over 3 years ago | |
| 630bb64f | Addressing reviewer's comments | Amr <a****y@h****m> | over 3 years ago | |
| 06cde1b6 | Minor corrections | Amr <a****y@h****m> | over 3 years ago | |
| e3ecec52 |
vuln-fix: Temporary File Information Disclosure
Co-authored-by: Moderne <t****m@m****o> Signed-off-by: Jonathan Leitschuh <J****h@g****m> |
Jonathan Leitschuh <J****h@g****m> | over 3 years ago | |
| 4eac468c | Docs | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 53885194 | [maven-release-plugin] prepare for next development iteration | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 2792cd73 | [maven-release-plugin] prepare release biojava-6.1.0 | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 128a24a5 | Changelog update | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 91fe3480 | merge Merge pull request #1044 from josemduarte/pdb_ftp_servername |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| 771e25a6 | merge Merge pull request #1045 from JonStargaryen/master |
Sebastian Bittrich <s****h@r****g>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| 65767c42 | add myself to dev list | Sebastian Bittrich <s****h@r****g> | over 3 years ago | |
| 5c09b3d1 | keep ciftools up-to-date | Sebastian Bittrich <s****h@r****g> | over 3 years ago | |
| 320b35dc | Changelog update | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 16babd4a | Changelog update | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 17a893f1 | Switching to new DNS name for wwpdb http file server | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 977c1ad6 | Indentation | Jose Duarte <j****e@g****m> | over 3 years ago | |
| 7a264ea9 | merge Merge pull request #1039 from simoesrenato/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago | |
| 1c42a7f9 | merge Merge pull request #1043 from jamesmorris/patch-1 |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 3 years ago |