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210 commits

Author SHA1 Message Date
Georgy Litvinov
38e8d326a6 Fix compile error 2020-08-03 16:16:23 +02:00
Georgy Litvinov
d2a3a73d3c Antisamy policy fixes 2020-08-03 16:16:02 +02:00
Georgy Litvinov
06e1e104df Added search queries 2020-07-14 14:14:00 +02:00
Ben
e198fce908
[VIVO-1872] - Add download option to SPARQL Query page (#164) 
* Add download option to SPARQL Query page

* Set SPARQL query results content type even if downloading

* Address pull request comments
 2020-05-27 23:58:20 -05:00
Ben
42c69ef04b
[VIVO-1851] - Add 'remove' option to named graph management page (#162) 
* Add 'remove' option to named graph management page

Resolves: https://jira.lyrasis.org/browse/VIVO-1851
 2020-05-13 13:19:52 -04:00
Andrew Woods
6d30a0fcd4
Change Model writer lang from "N3-PP" to "N3" (#149) 
Resolves: https://jira.lyrasis.org/browse/VIVO-1761

Co-authored-by: Andrew Woods <awoods@duraspace.org>
 2020-04-07 21:30:56 +03:00
Ben
edef9309ab
[VIVO-1755] - Better error handling when reasoner disabled (#137) 
* Better error handling when reasoner disabled

* Change reasoner error log message to debug

* Extend reasoner status error handling

* Improve reasoner error log message and extend to JenaAdminActions

* Bump up log level for admin action to 'warn' and edit admin panel error message
 2020-03-31 11:25:26 -05:00
gneissone
4efe43c7e7 Make data property richtext editor option selectable from UI 2020-03-21 19:15:05 -06:00
Ralph O'Flinn
777fa43864 [maven-scm-plugin] prepare development vitro-1.11.2-SNAPSHOT 2020-03-07 10:31:59 -06:00
Ralph O'Flinn
850cc6adbf [maven-scm-plugin] prepare release vivo-1.11.1 2020-03-07 10:29:22 -06:00
hudajkhan
7420957c65
authorization update for self editors (#106) 
* authorization update for self editors

* updating with Brian Lowe's suggestions

* removing extra import per Benjamin Gross's suggestion

* updating indentations

* hoping indentation fixed

* updating code after merging in from master
 2020-02-20 18:07:08 -07:00
Graham Triggs
6d64d27fe4 [VIVO-1737] Update Error Prone (#131) 
Resolves: https://jira.lyrasis.org/browse/VIVO-1737
 2020-01-23 13:12:03 -05:00
Ralph O'Flinn
b1b620d927 [maven-scm-plugin] prepare development vitro-1.11.1-SNAPSHOT 2019-10-21 00:49:31 -05:00
Ralph O'Flinn
0f25660b42 [maven-scm-plugin] prepare release vitro-1.11.0 2019-10-21 00:45:50 -05:00
Ralph O'Flinn
b45d20c9e4 VIVO-1614 - Update to allow the TPF API to be toggled via the runtime.properties. (#127) 
* Update to allow the TPF API to be toggled via the runtime.properties.

Resolves: https://jira.duraspace.org/browse/VIVO-1614
 2019-08-02 13:20:15 -04:00
Brian Lowe
cc2b98dac0
Merge pull request #126 from vivo-project/dev-search 
Dev search
 2019-07-24 17:11:47 +03:00
Kevin Backhouse
dd04f3def8 Add sanitization to fix SPARQL injection vulnerability. (#111) 
Resolves https://jira.duraspace.org/browse/VIVO-1697
 2019-07-15 12:15:03 -06:00
Ralph O'Flinn
d8649a60ad Merge branch 'sprint-search' into dev-search 
# Conflicts:
#	home/src/main/resources/solr/README.txt
#	home/src/main/resources/solr/conf/admin-extra.html
#	home/src/main/resources/solr/conf/clustering/carrot2/kmeans-attributes.xml
#	home/src/main/resources/solr/conf/clustering/carrot2/lingo-attributes.xml
#	home/src/main/resources/solr/conf/clustering/carrot2/stc-attributes.xml
#	home/src/main/resources/solr/conf/currency.xml
#	home/src/main/resources/solr/conf/elevate.xml
#	home/src/main/resources/solr/conf/lang/contractions_it.txt
#	home/src/main/resources/solr/conf/lang/stoptags_ja.txt
#	home/src/main/resources/solr/conf/lang/stopwords_ar.txt
#	home/src/main/resources/solr/conf/lang/stopwords_ca.txt
#	home/src/main/resources/solr/conf/lang/stopwords_el.txt
#	home/src/main/resources/solr/conf/lang/stopwords_fi.txt
#	home/src/main/resources/solr/conf/lang/stopwords_hi.txt
#	home/src/main/resources/solr/conf/lang/stopwords_hu.txt
#	home/src/main/resources/solr/conf/lang/stopwords_lv.txt
#	home/src/main/resources/solr/conf/lang/stopwords_ro.txt
#	home/src/main/resources/solr/conf/mapping-FoldToASCII.txt
#	home/src/main/resources/solr/conf/schema-old.xml
#	home/src/main/resources/solr/conf/schema.xml
#	home/src/main/resources/solr/conf/solrconfig-old.xml
#	home/src/main/resources/solr/conf/solrconfig.xml
#	home/src/main/resources/solr/conf/stopwords-name.txt
#	home/src/main/resources/solr/conf/velocity/VM_global_library.vm
#	home/src/main/resources/solr/conf/velocity/jquery.autocomplete.css
#	home/src/main/resources/solr/conf/velocity/jquery.autocomplete.js
#	home/src/main/resources/solr/conf/velocity/main.css
#	home/src/main/resources/solr/conf/velocity/query_group.vm
#	home/src/main/resources/solr/conf/velocity/query_spatial.vm
#	home/src/main/resources/solr/conf/velocity/richtext_doc.vm
#	home/src/main/resources/solr/conf/xslt/example.xsl
#	home/src/main/resources/solr/conf/xslt/example_atom.xsl
#	home/src/main/resources/solr/conf/xslt/example_rss.xsl
#	home/src/main/resources/solr/conf/xslt/luke.xsl
#	home/src/main/resources/solr/conf/xslt/updateXml.xsl
#	home/src/main/resources/solr/solr.xml
#	home/src/main/resources/solr/solr_newversion.xml
 2019-06-21 12:04:45 -05:00
Graham Triggs
f011af1339 Replace PR #99 (#125) 
* [VIVO-1656] Extension mechansim for passing properties to templates for Individuals

* [VIVO-1656] Extension mechansim for passing properties to templates for Individuals
 2019-06-07 13:01:39 -04:00
Andrew Woods
19a5d60c50 Extend wait time for connection to Solr 
Resolves: https://jira.duraspace.org/browse/VIVO-1612
 2019-05-15 09:40:02 -04:00
Graham Triggs
47ae42c019 Upgrade Jena to 3.11.0 (#119) 
Resolves: https://jira.duraspace.org/browse/VIVO-1693
 2019-05-07 15:54:31 -04:00
gneissone
bd6140a8cc Remove trailing whitespace throughout project 2019-05-03 12:50:05 -04:00
Andrew Woods
ab2b41260e Add ElasticSmokeTest 
Resolves: https://jira.duraspace.org/browse/VIVO-1600
 2019-04-03 12:18:55 -04:00
Andrew Woods
a5b2f0b373 [VIVO-1592] Upgrade Solr library to 7.4.0 (#82) 
* Upgrade Solr library to 7.4.0

Related to: https://jira.duraspace.org/browse/VIVO-1589

* Fix SolrSmokeTest : home page connection

Related to: https://jira.duraspace.org/browse/VIVO-1589
 2019-04-03 12:18:55 -04:00
Don Elsborg
40f78e58a8 initial files for ElasticSearch: ticket vivo-1587 (#85) 
* initial files from ticket vivo-1587
* Add https://mvnrepository.com/artifact/org.apache.httpcomponents/fluent-hc/4.5.6 dependency
* Resolves: https://jira.duraspace.org/browse/VIVO-1587
 2019-04-03 12:18:55 -04:00
alessandroGalasso
74b8f16aa2 [VIVO-1641] REPLACE jena afn with cross-platform regex (#105) 
Resolves https://jira.duraspace.org/browse/VIVO-1641
 2019-03-20 13:22:14 -04:00
Graham Triggs
12d703b4c8 [VIVO-1667] Language filtering for CONSTRUCT queries (#107) 
* Language filtering for CONSTRUCT queries
* Use an intermediate model for filtering if the destination is not empty

Resolves: https://jira.duraspace.org/browse/VIVO-1667
 2019-03-19 10:15:56 -04:00
Ben
1461f33f9f [VIVO-1674] Improve quality of thumbnails created (#112) 
* Explicitly set image quality and interpolation method
* Use twelvemonkeys plugin for thumbnail creation

Resolves: https://jira.duraspace.org/browse/VIVO-1674
 2019-02-13 12:04:57 -05:00
Graham Triggs
c3e8cc739b [VIVO-1668] Efficiency improvements in AboxRecomputer (#108) 
* Ensure we only use statements for the current individual in Recomputer
* Make AboxRecomputer more efficient when acquiring the list of individuals

Resolves: https://jira.duraspace.org/browse/VIVO-1668
 2019-02-12 09:40:02 -05:00
Stefan-Wolff
129e1219a8 [VIVO-1528] Select an editor for input fields based on annotation (#76) 
* provide WYSIWYG editor for range XMLLiteral only

* Update defaultDataPropertyForm.ftl

* add annotation based selection of the desired editor for editing values
of datatype properties in the frontend

* create new annotation vitro:editing to allow configuration of desired
editor for editing of related dataproperties

Resolves: https://jira.duraspace.org/browse/VIVO-1528
 2018-12-07 09:14:36 -05:00
alessandroGalasso
734b9ccf68 [VIVO-1649] fix for RDFServiceSparql.executeUpdate method (#97) 
Resolves: https://jira.duraspace.org/browse/VIVO-1649
 2018-12-05 19:52:40 -05:00
Svantje Lilienthal
554c5dec8b [VIVO-1639] Improve display of search results -- remove class names (#96) 
Resolves: https://jira.duraspace.org/browse/VIVO-1639
 2018-12-05 10:27:18 -05:00
Graham Triggs
42dacf1f16 [VIVO-1620] Improve AuthenticateTest performance (#93) 
* Improve test execution time

Resolves: https://jira.duraspace.org/browse/VIVO-1620
 2018-11-27 10:09:39 -05:00
Graham Triggs
a3cd382117 Multi-lingual support for menus (#91) 2018-11-13 08:51:27 -05:00
Graham Triggs
fe00198dd5 [VIVO-1613] Fix menu ordering bug (#90) 
Resolves https://jira.duraspace.org/browse/VIVO-1613
 2018-10-29 10:57:15 -06:00
Graham Triggs
dc74a5264f [VIVO-1608] Fix node removal from the XML so that it works with an XML tree of arbitrary depth (#89) 
Resolves: https://jira.duraspace.org/browse/VIVO-1608
 2018-10-16 09:42:25 -04:00
Ben
5ca7a9235f Add check for language files to smoke tests and remove references to … (#74) 
* Add check for language files to smoke tests and remove references to build.properties

* Catch IOException more goodly

* Make languages.selectableLocales optional, fix default value for RDFService.languageFilter
 2018-09-24 14:36:35 -04:00
Graham Triggs
b049aa6d32 Moved stream reset inside loop so that every listener gets the same state (#79) 2018-08-06 10:29:37 -04:00
vivo-uab
f2656ba3d8 [maven-scm-plugin] prepare development vitro-1.11.0-SNAPSHOT 2018-07-09 17:17:08 -04:00
vivo-uab
2c3c97be5e [maven-scm-plugin] prepare release vitro-1.10.0 2018-07-09 17:17:08 -04:00
Mike Conlon
111c0a8ee5
Merge pull request #73 from Asimq/develop 
Moved password encryption from MD5 to a salted and secure hash - 1448
 2018-05-23 13:49:04 -04:00
AsimA
df58f2d18c remvoed the unused import 2018-05-23 11:28:35 +02:00
AsimA
fea33a456a Fixed the user experience 2018-05-23 11:25:58 +02:00
AsimA
fcaf315549 added smokeTests for argon2 parameters 2018-05-22 15:55:00 +02:00
AsimA
1e231013b0 Updated the tests to store argon2 as well as md5password 2018-05-22 14:57:42 +02:00
AsimA
96388c0951 Removed the overloaded Argon2Encoding methods in Authenticator and moved the Argon2StubEncoding method to AuthenticatorStub 2018-05-22 13:41:26 +02:00
AsimA
aeb9754500 Fixed the styling 2018-05-18 16:40:08 +02:00
Asim
a8d5020ede updated the snapshot versions to 1.10.0 2018-05-17 11:16:03 +02:00
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