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212 commits

Author SHA1 Message Date
Asim
752f9d1229 Fixed the tests 2018-05-09 13:51:11 +02:00
Ben
c9ce576f6b [VIVO-1488] Look in vitro.home/config directory for runtime.properties at startup (#63) 
* Look in vitro.home/config directory for runtime.properties at startup

* Show deprecation warning on startup if runtime.properties in vivo.home

* Reuse string variable, use .equals()
 2018-05-07 10:21:03 -04:00
Jim Blake
b406f99fec VIVO-1478 mysql driver throws exception (#69) 
* VIVO-1478 Add time zone to the MySQL URL, to avoid an InvalidConnectionAttributeOption. 
* Go with proven driver version, rather than the most recent.
 2018-05-04 08:44:43 -06:00
Ben
efe8f265dc Upgrade to Jena 3.6.0 (#67) 
Resolves: https://jira.duraspace.org/browse/VIVO-1458
 2018-05-03 10:26:06 -04:00
Andrew Woods
80625e3b4c Change project version from 2.0.0-SNAPSHOT to 1.10.0-SNAPSHOT 
Resolves: https://jira.duraspace.org/browse/VIVO-1479
 2018-04-24 17:09:02 -04:00
Jim Blake
7f8b16bc1b VIVO-1408 Allow the use of a #-terminated prefix on JAVA class URIs 2018-01-08 11:19:53 -05:00
Jim Blake
8fbfc6d4ff ConfigurationBeanLoader will ignore unexpected properties on instances. 
If no method has been annotated to accept that property, don't complain,
don't throw an exception, just continue.
 2018-01-06 14:09:03 -05:00
Jim Blake
9e3ac4fb54 Remove implicit call to deprecated constructor. 2018-01-05 09:50:42 -05:00
Jim Blake
b00633326e VIVO-1405 Add pseudo-version to requests for scripts and stylesheets. 
The result is that the user does not need to refresh the browser cache when a new version of VIVO is deployed on the server.
 2017-12-01 11:41:04 -05:00
Graham Triggs
0e15b9a69a [VIVO-1404] Disable XSS protection on the SPARQL query page 2017-11-10 12:01:23 -05:00
Graham Triggs
f4c9d23af0 Fix NPE when no ontology URI is specified 2017-11-10 10:00:17 -05:00
Graham Triggs
41be1c22f4 Fix building on JDK 9 2017-10-23 19:24:32 +01:00
Steve McKay
00f7b95266 [VIVO-1315] Enable Plum print by default (#61) 
* [VIVO-1315] Plum print integration

* VIVO-1315 default Plum print to enabled
 2017-10-21 20:20:32 +01:00
Graham Triggs
e0b723354d Update project version numbers 2017-10-20 15:02:14 +01:00
Graham Triggs
95e336d862 List view improvements for Vitro 2017-10-19 11:21:37 +01:00
Graham Triggs
0ef3018ae3 [VIVO-1403] Improve update performance by ensuring the bulk updater can be exposed correctly 2017-10-19 11:21:04 +01:00
Graham Triggs
4da85f0d82 Graph cache fix 2017-10-18 17:19:10 +01:00
Graham Triggs
963c04340f [VIVO-1401] Don't return a constructed model if there are no construct queries 2017-10-12 09:45:07 +01:00
Graham Triggs
792ca4138f [VIVO-1400] Add the capability to use / parse out precise-subquery tags. 2017-10-12 09:30:37 +01:00
Graham Triggs
107c2bff03 [VIVO-1399] Improve performance of Graph URI lookups 2017-10-11 19:37:07 +01:00
Graham Triggs
a610e0ed25 [VIVO-1397] Faster and more reliable Solr indexing 2017-10-10 13:06:44 +01:00
Graham Triggs
ca68c2c610 Script for running findbugs 2017-10-05 19:54:50 +01:00
Graham Triggs
16efd306f7 Fix pom error with <build> tags 2017-10-05 18:46:13 +01:00
Graham Triggs
3d28c6a037 Configuration for Findbugs, with security plugin, and script to start gui 2017-10-05 18:43:29 +01:00
Graham Triggs
aac062cdfe Add Findbugs reporting 2017-10-05 18:10:24 +01:00
Graham Triggs
fcc476a237 [VIVO-1394] Make AboxRecomputer deal with inferred types correctly 2017-10-05 08:48:56 +01:00
Graham Triggs
d737f86084 Small bug fixes from static analysis 2017-10-05 00:04:12 +01:00
Graham Triggs
3ad80a9cf6 Consolidate local overrides of messages and styles in "local" subdirectory. Allows customisation without creating a new thmee. 2017-10-02 18:23:49 +01:00
Graham Triggs
69c4f5460c Convert TPF from Gson to Jackson 2017-09-29 00:54:14 +01:00
Graham Triggs
93884142b4 Minor dependency updates 2017-09-28 22:14:07 +01:00
Graham Triggs
ff71245de1 Allow with form of SPARQL 2017-09-28 22:13:51 +01:00
Graham Triggs
cf702ea08c Remove semargl dependencies that were only used to get one OWL definition, which is available in owlapi 2017-09-28 16:18:08 +01:00
Graham Triggs
2979cdadae Fully consume input stream so that error message can be displayed in file upload 2017-09-27 15:59:01 +01:00
Graham Triggs
aef83490cf Fix permissions in site 2017-09-23 13:24:35 +01:00
Graham Triggs
b8583b63d8 Improve options passed to MySQL driver 2017-09-20 15:08:40 +01:00
Graham Triggs
4543e65d08 Replace c3p0 with dbcp2, so there is only one pooling library in use 2017-09-20 14:08:36 +01:00
Graham Triggs
6cbdcd6842 Update to Easymock 3.2.5 2017-09-20 13:40:42 +01:00
Graham Triggs
d594f8ac11 Fix string comparisons 2017-09-18 18:31:09 +01:00
Graham Triggs
351e363047 StringBuilder bug fix 2017-09-18 18:15:57 +01:00
Graham Triggs
f03ec3f940 Support 6.x mysql drivers 2017-09-18 16:53:35 +01:00
Graham Triggs
5320a4f665 Updated dependencies 2017-09-18 15:58:09 +01:00
Graham Triggs
99efe2a1cd StringBuilder bug fix 2017-09-18 15:57:48 +01:00
Graham Triggs
ec1feee076 Updated dependencies 2017-09-18 15:08:42 +01:00
Graham Triggs
0cff29fa2a Minor code improvements 2017-09-18 13:47:04 +01:00
Graham Triggs
9e411253c4 Minor code improvements 2017-09-18 13:39:17 +01:00
Graham Triggs
751d50f93a Minor code improvements 2017-09-18 12:20:01 +01:00
Graham Triggs
d97544b991 Minor code improvements 2017-09-18 11:49:47 +01:00
Graham Triggs
d87bb782eb Minor code improvements 2017-09-18 10:57:49 +01:00
Graham Triggs
60017600a3 Minor performance improvements 2017-09-18 10:27:38 +01:00
Graham Triggs
4859eb7da1 Various code improvements from IntelliJ inspections 2017-09-18 00:21:04 +01:00