GitHub / biojava/biojava / commits
| SHA | Message | Author | Date | Stats |
|---|---|---|---|---|
| d2053f30 | Javadoc fix: many errors in struct align package | josemduarte <j****e@g****m> | over 1 year ago | |
| 2b33a56b | Javadoc fix: many errors in struct align package | josemduarte <j****e@g****m> | over 1 year ago | |
| 5a505242 | More lenient parsing if some fields are missing (e.g. in files output by Gemmi) | josemduarte <j****e@g****m> | over 1 year ago | |
| 52d10538 | Javadoc fix: some more errors from structure module | josemduarte <j****e@g****m> | over 1 year ago | |
| 280f2398 | Javadoc fix: some more errors from structure module | josemduarte <j****e@g****m> | over 1 year ago | |
| ed7ab8e3 | Javadoc fix: a few errors from structure module | josemduarte <j****e@g****m> | over 1 year ago | |
| 71fe1790 | Javadoc fix: all error in alignment module | josemduarte <j****e@g****m> | over 1 year ago | |
| 13e3afef | Javadoc fix: all other errors in core module | josemduarte <j****e@g****m> | over 1 year ago | |
| 1c8d5878 | Javadoc fix: bad tags | josemduarte <j****e@g****m> | over 1 year ago | |
| 2fab7b03 | Javadoc fix: html escaping | josemduarte <j****e@g****m> | over 1 year ago | |
| d1048095 | Javadoc fix: html-like tag not allowed | josemduarte <j****e@g****m> | over 1 year ago | |
| 193287b7 | Javadoc fix: param fixes | josemduarte <j****e@g****m> | over 1 year ago | |
| 27a88ff9 | Javadoc fix: <p> | josemduarte <j****e@g****m> | over 1 year ago | |
| 26e1a4d6 | Plugin update: site and javadoc. Removed deprecated findbugs that was produci... | josemduarte <j****e@g****m> | over 1 year ago | |
| 5ed782bf | Use official url instead of github | josemduarte <j****e@g****m> | over 1 year ago | |
| d69435b6 | Updating after release | josemduarte <j****e@g****m> | over 1 year ago | |
| 65b734a7 | [maven-release-plugin] prepare for next development iteration | josemduarte <j****e@g****m> | over 1 year ago | |
| 7786545c | [maven-release-plugin] prepare release biojava-7.1.3 | josemduarte <j****e@g****m> | over 1 year ago | |
| b50e9905 | merge Merge pull request #1101 from sbliven/fix-symmetry-118 |
Spencer Bliven <s****n@g****m>
Committed by: GitHub <n****y@g****m> |
over 1 year ago | |
| 5b35c70b | Add additional error checks to QuatSymmetry functions | Spencer Bliven <s****n@g****m> | almost 2 years ago | |
| bfbe710f | Fix test result. | Spencer Bliven <s****n@g****m> | almost 2 years ago | |
| 57a487df | Fix CE-Symm bug relating to short subunits. | Spencer Bliven <s****n@g****m> | almost 2 years ago | |
| 403241f1 | Fix some typos | Spencer Bliven <s****n@g****m> | almost 2 years ago | |
| e9e0f007 | Add test for rcsb/symmetry#118 | Spencer Bliven <s****n@g****m> | almost 2 years ago | |
| 53bdc012 | update guava dependency version to 33.3.0-jre | Michael L Heuer <h****h@a****g> | almost 2 years ago | |
| 95489c09 | Latest release in README | josemduarte <j****e@g****m> | almost 2 years ago | |
| 5ad25aec | [maven-release-plugin] prepare for next development iteration | josemduarte <j****e@g****m> | almost 2 years ago | |
| bf16dfed | [maven-release-plugin] prepare release biojava-7.1.2 | josemduarte <j****e@g****m> | almost 2 years ago | |
| 8b348bc1 | Updating changelog ahead of release | josemduarte <j****e@g****m> | almost 2 years ago | |
| 09d0a1e6 | merge Merge pull request #1098 from josemduarte/issue1096 |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
almost 2 years ago | |
| d39bdee1 | merge Merge pull request #1099 from biojava/mmtf-deprec |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
almost 2 years ago | |
| 1a98eeb5 | Removing functionality that uses mmtf.rcsb.org, now deprecated | josemduarte <j****e@g****m> | almost 2 years ago | |
| 92ff571a | merge Merge branch 'refs/heads/master' into issue1096 | Jose Duarte <j****e@g****m> | almost 2 years ago | |
| 2274ea30 | Make test work with bcif, instead of mmtf | Jose Duarte <j****e@g****m> | almost 2 years ago | |
| aeb93793 | merge Merge branch 'refs/heads/master' into issue1096 | Jose Duarte <j****e@g****m> | almost 2 years ago | |
| 335d0bba | Obsolete test: mmtf.rcsb.org was discontinued | Jose Duarte <j****e@g****m> | almost 2 years ago | |
| 2e8138c5 | Bringing back alignPairs option, should fix #1096 | josemduarte <j****e@g****m> | almost 2 years ago | |
| 28e0d442 | Some cleanups | josemduarte <j****e@g****m> | almost 2 years ago | |
| 62b0426e | merge Merge pull request #1095 from jlerbsc/s1319 |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
almost 2 years ago | |
| 0f4983cc | Fix issue s1319 Declarations should use Java collection interfaces on biojava... | jlerbsc <j****r@j****m> | almost 2 years ago | |
| 51e125bc | merge Merge branch 'biojava:master' into s1319 |
jean pierre Lerbscher <5****c@u****m>
Committed by: GitHub <n****y@g****m> |
almost 2 years ago | |
| 50ac975e | merge Merge pull request #1094 from josemduarte/slf4j2 |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| 1ae6b526 | Fix issue s1319 Declarations should use Java collection interfaces on biojava... | jlerbsc <j****r@j****m> | about 2 years ago | |
| d019fb3a | merge Merge branch 'master' into slf4j2 | josemduarte <j****e@g****m> | about 2 years ago | |
| b33d74cc | merge Merge pull request #1093 from cometbroom/issue-1092-windows-tests |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| e7d09d00 | Fixing logging clash in structure module | josemduarte <j****e@g****m> | about 2 years ago | |
| 1be0260e | Bumping up to slf4j2 and log4j2. Logging doesn't work correctly yet, at least... | josemduarte <j****e@g****m> | about 2 years ago | |
| 4fcb3b1b | Adding windows, #1092 | josemduarte <j****e@g****m> | about 2 years ago | |
| d96cae47 | Reverting changes to pom files | alawi <a****w@g****m> | about 2 years ago | |
| 19640407 | Use toURI instead of getFile which doesn't have file scheme | alawi <a****w@g****m> | about 2 years ago | |
| 64cb3033 | merge Merge pull request #1087 from heuermh/guava-33.1.0-jre |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| 73e99cae | merge Merge pull request #1091 from jlerbsc/S2293 |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| e7c31d74 | merge Merge pull request #1089 from cinsttool/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| b1821216 | Fix sonar issue S2293 Replace the type specification in this constructor call... | jlerbsc <j****r@j****m> | about 2 years ago | |
| 21c0434c | merge Merge branch 'biojava:master' into master |
cinsttool <1****l@u****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| 266d835b | Fixing test | josemduarte <j****e@g****m> | about 2 years ago | |
| b7a04c5b | fix container inefficiency in GenericFastaHeaderParser.java | cinsttool <v****3@g****m> | about 2 years ago | |
| 756e2d01 | Update guava dependency version to 33.1.0-jre. | Michael L Heuer <h****h@a****g> | about 2 years ago | |
| 1042a330 | Updating for new release | josemduarte <j****e@g****m> | about 2 years ago | |
| 181e5d5d | [maven-release-plugin] prepare for next development iteration | josemduarte <j****e@g****m> | about 2 years ago | |
| 3eaf1651 | [maven-release-plugin] prepare release biojava-7.1.1 | josemduarte <j****e@g****m> | about 2 years ago | |
| 7ed50c1a | Updating changelog for next release | josemduarte <j****e@g****m> | about 2 years ago | |
| 81e05442 | merge Merge pull request #1086 from jlerbsc/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| f94e5771 | merge Merge pull request #1085 from josemduarte/miscfixes |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| 1ac29b3f | fix sonar issue 2629 Logging arguments should not require evaluation | jlerbsc <j****r@j****m> | over 2 years ago | |
| 7f8f95e1 | Typo | josemduarte <j****e@g****m> | over 2 years ago | |
| 874ce885 | merge Merge remote-tracking branch 'origin/master' | josemduarte <j****e@g****m> | over 2 years ago | |
| de0ef2a5 | Docs | josemduarte <j****e@g****m> | over 2 years ago | |
| 8b0c4303 | merge Merge pull request #1083 from josemduarte/parseEsmCifFix |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| df2e83df | merge Merge branch 'master' into miscfixes | josemduarte <j****e@g****m> | over 2 years ago | |
| 30a6002e | Forgot to use zulu | josemduarte <j****e@g****m> | over 2 years ago | |
| 9d59f598 | merge Merge branch 'master' into miscfixes | josemduarte <j****e@g****m> | over 2 years ago | |
| a76e0bc3 | Trying to fix openjdk 11 error in workflows | josemduarte <j****e@g****m> | over 2 years ago | |
| 37b5fca4 | Replacing home-made copy by Files.copy. Other minor fixes | josemduarte <j****e@g****m> | over 2 years ago | |
| a9542ca1 | merge Merge pull request #1082 from jlerbsc/master |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| 1b5fa3c5 | Upgrading actions workflow versions and java versions used | josemduarte <j****e@g****m> | over 2 years ago | |
| 3e26abe7 | Adding test case | josemduarte <j****e@g****m> | over 2 years ago | |
| ac14da47 | Better with ternary if | Jose Duarte <j****e@g****m> | over 2 years ago | |
| 805a9023 | Be more lenient with some missing atom_site fields | Jose Duarte <j****e@g****m> | over 2 years ago | |
| ac75f312 | fix: issue #1081 Sonar S1132 Strings literals should be placed on the left si... | jlerbsc <j****r@j****m> | over 2 years ago | |
| ab17e627 | Updating after release | josemduarte <j****e@g****m> | over 2 years ago | |
| bf0cfe68 | [maven-release-plugin] prepare for next development iteration | josemduarte <j****e@g****m> | over 2 years ago | |
| 1b6159d3 | [maven-release-plugin] prepare release biojava-7.1.0 | josemduarte <j****e@g****m> | over 2 years ago | |
| 41a6e4b7 | Updating changelog in preparation for release | josemduarte <j****e@g****m> | over 2 years ago | |
| c672d013 | merge Merge pull request #1080 from hilbertglm/20240113-streaming |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| 84998b92 | Added an entry to the changelog for FastaStreamer | Gary Murphy <g****m@h****m> | over 2 years ago | |
| 2d1f32ea | Missed a RuntimeException. Changed to UncheckedIOException | Gary Murphy <g****m@h****m> | over 2 years ago | |
| d081b125 | Changed the version to 7.1.0-SNAPSHOT. Made changes per review. | Gary Murphy <g****m@h****m> | over 2 years ago | |
| c00ed2fc | merge Merge pull request #1078 from heuermh/guava-33.0.0-jre |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| 79f2062d | merge Merge pull request #1077 from hilbertglm/20240108-scop |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| 21751a7d | Update guava dependency version to 33.0.0-jre. | Michael L Heuer <h****h@a****g> | over 2 years ago | |
| 26b21d7c | Added access to the iterable | Gary Murphy <g****m@h****m> | over 2 years ago | |
| ef665e26 | Added comments | Gary Murphy <g****m@h****m> | over 2 years ago | |
| fd3be7e9 | Removed the MagicNumber class after finding InputStreamProvider | Gary Murphy <g****m@h****m> | over 2 years ago | |
| 96c81269 | Before finding the InputStreamProvider | Gary Murphy <g****m@h****m> | over 2 years ago | |
| f45e0187 | Changed the URLs to the mirrors from http to https. Changed the name of the ... | Gary Murphy <g****m@h****m> | over 2 years ago | |
| a3d94378 | Updating test | josemduarte <j****e@g****m> | over 2 years ago | |
| 05c229ce | merge Merge pull request #1076 from hilbertglm/20231229-jaxb |
Jose Manuel Duarte <j****e@g****m>
Committed by: GitHub <n****y@g****m> |
over 2 years ago | |
| f0320f5b | Removed explicit versioning for JAX-B API and runtime, except for the depende... | Gary Murphy <g****m@h****m> | over 2 years ago | |
| 171aef0a | Changed the JDK back to Java 11 and reran tests | Gary Murphy <g****m@h****m> | over 2 years ago |