commits

SHA	Message	Author	Date
e3d58c03	Updating after release	josemduarte <j**e@g**m>	21 days ago
670525ac	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	21 days ago
5d047ab4	[maven-release-plugin] prepare release biojava-7.2.5	josemduarte <j**e@g**m>	21 days ago
7c3909fc	Adding safeguard, bug introduced in #1116 and reported in Biojava-l	josemduarte <j**e@g**m>	21 days ago
3a9f34fe	merge Merge pull request #1123 from heuermh/guava-33.6.0-jre	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	21 days ago
693154ad	merge Merge pull request #1124 from biojava/dependabot/maven/org.apache.logging.log...	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	21 days ago
96de89a5	Duplicate plugin	josemduarte <j**e@g**m>	21 days ago
97db9acd	Bump org.apache.logging.log4j:log4j-core from 2.25.3 to 2.25.4 Signed-off-by: dependabot[bot] <s**t@g**m>	dependabot[bot] <4**]@um> Committed by: GitHub <ny@g**m>	21 days ago
854ba8b3	merge Merge pull request #1121 from Pasjonat90D/issue-1079-improvements	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	21 days ago
6ac10bd5	merge Merge pull request #1122 from biojava/dependabot/maven/org.apache.logging.log...	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	21 days ago
01669f8a	Update guava dependency version to 33.6.0-jre	Michael L Heuer <h**h@a**g>	29 days ago
ffff7687	Bump org.apache.logging.log4j:log4j-core from 2.23.1 to 2.25.3 Signed-off-by: dependabot[bot] <s**t@g**m>	dependabot[bot] <4**]@um> Committed by: GitHub <ny@g**m>	5 months ago
c0240dd9	Refactor: fix SonarQube S1155 issues (#1079)	Pasjonat90D <2**D@u**m>	5 months ago
51f48cd5	Updating after release	josemduarte <j**e@g**m>	6 months ago
006e5eff	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	6 months ago
f55940c0	[maven-release-plugin] prepare release biojava-7.2.4	josemduarte <j**e@g**m>	6 months ago
8edaed75	merge Merge pull request #1120 from biojava/sym-edgecase	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	6 months ago
70e9a742	merge Merge pull request #1119 from Pasjonat90D/fix/use-isempty-instead-of-size-#1079	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	6 months ago
423cd86f	Bugfix: edge-case with no equiv residues in alignment wasn't dealt with and l...	josemduarte <j**e@g**m>	6 months ago
e6ba3798	merge Merge pull request #1118 from JayKamsu/fix-rspec-1940-booleans	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	6 months ago
3f039fd3	Fix #1079: Use isEmpty() instead of size() == 0	Pasjonat90D <2**D@u**m>	6 months ago
0af196ff	Fix RSPEC-1940 boolean checks	JasonKamsu <s**j@3**r>	6 months ago
94c6ebca	Updating after release	Jose Duarte <j**e@g**m>	6 months ago
515c6235	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	6 months ago
611fcade	[maven-release-plugin] prepare release biojava-7.2.3	josemduarte <j**e@g**m>	6 months ago
c7261dfd	merge Merge pull request #1117 from biojava/jd/issue1116	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	6 months ago
274a36ab	Fix for #1116	Jose Duarte <j**e@g**m>	7 months ago
21d61b1e	merge Merge pull request #1115 from biojava/jd/mvncentralplugin	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	7 months ago
7b82b27b	Using new mvn central plugin	Jose Duarte <j**e@g**m>	10 months ago
5a699eb6	Updating after release	josemduarte <j**e@g**m>	about 1 year ago
b9c4cd0a	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	about 1 year ago
6e7891b6	[maven-release-plugin] prepare release biojava-7.2.2	josemduarte <j**e@g**m>	about 1 year ago
4617c333	merge Merge pull request #1111 from josemduarte/safeguard-polchain	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
7217ee82	Safeguards	josemduarte <j**e@g**m>	about 1 year ago
c33627f8	More cleanup	josemduarte <j**e@g**m>	about 1 year ago
743a9fdc	More cleanup	josemduarte <j**e@g**m>	about 1 year ago
381fedd4	Formatting and docs cleanup	josemduarte <j**e@g**m>	about 1 year ago
fe85d304	merge Merge pull request #1110 from josemduarte/ciftools-upgrade	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
e7211792	merge Merge pull request #1109 from josemduarte/case-insens-ent-type	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
a24b6f60	Latest ciftools: should fix performance for some bcif edgecases	josemduarte <j**e@g**m>	about 1 year ago
aa0d5767	Update biojava-structure/src/main/java/org/biojava/nbio/structure/EntityType.... Co-authored-by: Sebastian Bittrich <j**0@g**m>	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
501a09e2	Make entity type case insensitive. Also improved docs	josemduarte <j**e@g**m>	about 1 year ago
602b4d52	Updating after release	josemduarte <j**e@g**m>	about 1 year ago
82894183	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	about 1 year ago
5589e1ee	[maven-release-plugin] prepare release biojava-7.2.1	josemduarte <j**e@g**m>	about 1 year ago
09f175a5	merge Merge pull request #1108 from biojava/cif-ihm	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
48cb462e	Update biojava-structure/src/main/java/org/biojava/nbio/structure/io/cif/CifS... Co-authored-by: Sebastian Bittrich <s**h@r**g>	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
2841770e	Deal with missing strand_id	josemduarte <j**e@g**m>	about 1 year ago
fdf98644	Revert "Dealing with struct_ref_seq_dif strand_id by referencing through stru...	josemduarte <j**e@g**m>	about 1 year ago
58136fe3	Logging	josemduarte <j**e@g**m>	about 1 year ago
82862605	Dealing with struct_ref_seq_dif strand_id by referencing through struct_ref_s...	josemduarte <j**e@g**m>	about 1 year ago
a6723d42	Deal with some missing fields in IHM	josemduarte <j**e@g**m>	about 1 year ago
b03fb3f5	Updates after release	josemduarte <j**e@g**m>	about 1 year ago
6da7fd90	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	about 1 year ago
48992a6b	[maven-release-plugin] prepare release biojava-7.2.0	josemduarte <j**e@g**m>	about 1 year ago
77c2911e	merge Merge pull request #1106 from josemduarte/cifparsing-lenient	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
e0e7904d	merge Merge pull request #1107 from josemduarte/asafix-multimodel	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	about 1 year ago
a5b46ab0	Review comment	josemduarte <j**e@g**m>	over 1 year ago
324319e2	Fix: first model is model index 0	josemduarte <j**e@g**m>	over 1 year ago
c45c3dd0	Bugfix: ASA calculation was by default using all models. Now it will use mode...	josemduarte <j**e@g**m>	over 1 year ago
12dcb2ce	Another safeguard, that applies to some PDB-IHM entries	josemduarte <j**e@g**m>	over 1 year ago
65d3dcde	Lenient to missing atom_site.occupancy	josemduarte <j**e@g**m>	over 1 year ago
93c1c8f9	Handle more missing fields in struct_ref_seq	josemduarte <j**e@g**m>	over 1 year ago
be55381c	Update guava dependency version to 33.4.0-jre	Michael L Heuer <h**h@a**g>	over 1 year ago
e170fc9d	Avoiding a (harmless) error in mvn site by upgrading javadoc plugin	josemduarte <j**e@g**m>	over 1 year ago
f271214e	Docs	josemduarte <j**e@g**m>	over 1 year ago
ac2084b9	Forcing enforcer plugin upgrade: somehow version wasn't being taken from plug...	josemduarte <j**e@g**m>	over 1 year ago
d4242d26	Hopefully good final solution for generating apidocs site	josemduarte <j**e@g**m>	over 1 year ago
0cd5bd77	Updating after release	Jose Duarte <j**e@g**m>	over 1 year ago
a1bb15f9	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	over 1 year ago
c1c8c506	[maven-release-plugin] prepare release biojava-7.1.4	josemduarte <j**e@g**m>	over 1 year ago
54fd26ad	Hopefully fixing issue with site:deploy which was failing (as part of release...	josemduarte <j**e@g**m>	over 1 year ago
3a312186	[maven-release-plugin] rollback the release of biojava-7.1.4	josemduarte <j**e@g**m>	over 1 year ago
76dfee8c	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	over 1 year ago
f29a5213	[maven-release-plugin] prepare release biojava-7.1.4	josemduarte <j**e@g**m>	over 1 year ago
d2ce0893	Adding explicit plugin versions to profile "release". Somehow the profile doe...	josemduarte <j**e@g**m>	over 1 year ago
9ef2c300	[maven-release-plugin] rollback the release of biojava-7.1.4	josemduarte <j**e@g**m>	over 1 year ago
3ec109c9	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	over 1 year ago
7286c3fe	[maven-release-plugin] prepare release biojava-7.1.4	josemduarte <j**e@g**m>	over 1 year ago
5ad2964a	Reports plugin update	josemduarte <j**e@g**m>	over 1 year ago
6387a2ed	[maven-release-plugin] rollback the release of biojava-7.1.4	josemduarte <j**e@g**m>	over 1 year ago
cdf14076	[maven-release-plugin] prepare for next development iteration	josemduarte <j**e@g**m>	over 1 year ago
de1598c0	[maven-release-plugin] prepare release biojava-7.1.4	josemduarte <j**e@g**m>	over 1 year ago
f880d18f	merge Merge pull request #1103 from josemduarte/cifparser-gemmifile	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	over 1 year ago
bac14fdc	Format fix	josemduarte <j**e@g**m>	over 1 year ago
93fe015a	Adding pom metadata required for mvn site:stage. Adding release instructions ...	josemduarte <j**e@g**m>	over 1 year ago
e0084505	merge Merge pull request #1104 from biojava/javadocfixes	Jose Manuel Duarte <j**e@gm> Committed by: GitHub <ny@g**m>	over 1 year ago
48c29b1c	merge Merge branch 'master' into javadocfixes	josemduarte <j**e@g**m>	over 1 year ago
e516a408	Plugin updates	josemduarte <j**e@g**m>	over 1 year ago
c3079eae	Javadoc fix: errors in integration-test module	josemduarte <j**e@g**m>	over 1 year ago
b55dc80c	Javadoc fix: errors in ontology module	josemduarte <j**e@g**m>	over 1 year ago
24310c31	Javadoc fix: errors in aaprops and survival and modules	josemduarte <j**e@g**m>	over 1 year ago
0183dc62	Javadoc fix: errors in protein-disorder module	josemduarte <j**e@g**m>	over 1 year ago
d483bba0	Javadoc fix: errors in ws module	josemduarte <j**e@g**m>	over 1 year ago
bb073294	Javadoc fix: errors in modfinder module	josemduarte <j**e@g**m>	over 1 year ago
3580f7ba	Javadoc fix: errors in genome module	josemduarte <j**e@g**m>	over 1 year ago
aefa34a5	Javadoc fix: errors in structure-gui module	josemduarte <j**e@g**m>	over 1 year ago
2bbc8243	Javadoc fix: remaining errors in structure module. Mostly obsolete references	josemduarte <j**e@g**m>	over 1 year ago
0c7e9f5f	Javadoc fix: most other errors in structure module	josemduarte <j**e@g**m>	over 1 year ago
435ebe98	Javadoc fix: many errors in struct align package	josemduarte <j**e@g**m>	over 1 year ago

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