August, 2016

2016-08-01

  • Add updated distribution license from Sisay (#259)
  • Play with upgrading Mirage 2 dependencies in bower.json because most are several versions of out date
  • Bootstrap is at 3.3.0 but upstream is at 3.3.7, and upgrading to anything beyond 3.3.1 breaks glyphicons and probably more
  • bower stuff is a dead end, waste of time, too many issues
  • Anything after Bootstrap 3.3.1 makes glyphicons disappear (HTTP 404 trying to access from incorrect path of fonts)
  • Start working on DSpace 5.1 → 5.5 port:
$ git checkout -b 55new 5_x-prod
$ git reset --hard ilri/5_x-prod
$ git rebase -i dspace-5.5
  • Lots of conflicts that don’t make sense (ie, shouldn’t conflict!)
  • This file in particular conflicts almost 10 times: dspace/modules/xmlui-mirage2/src/main/webapp/themes/CGIAR/styles/_style.scss
  • Checking out a clean branch at 5.5 and cherry-picking our commits works where that file would normally have a conflict
  • Seems to be related to merge commits
  • git rebase --preserve-merges doesn’t seem to help
  • Eventually I just turned on git rerere and solved the conflicts and completed the 403 commit rebase
  • The 5.5 code now builds but doesn’t run (white page in Tomcat)

2016-08-02

  • Ask Atmire for help with DSpace 5.5 issue
  • Vanilla DSpace 5.5 deploys and runs fine
  • Playing with DSpace in Ubuntu 16.04 and Tomcat 7
  • Everything is still fucked up, even vanilla DSpace 5.5

2016-08-04

  • Ask on DSpace mailing list about duplicate authors, Discovery and author text values
  • Atmire responded with some new DSpace 5.5 ready versions to try for their modules

2016-08-05

  • Fix item display incorrectly displaying Species when Breeds were present (#260)
  • Experiment with fixing more authors, like Delia Grace:
dspacetest=# update metadatavalue set authority='0b4fcbc1-d930-4319-9b4d-ea1553cca70b', confidence=600 where metadata_field_id=3 and text_value='Grace, D.';

2016-08-06

  • Finally figured out how to remove “View/Open” and “Bitstreams” from the item view

2016-08-07

  • Start working on Ubuntu 16.04 Ansible playbook for Tomcat 8, PostgreSQL 9.5, Oracle 8, etc

2016-08-08

  • Still troubleshooting Atmire modules on DSpace 5.5
  • Vanilla DSpace 5.5 works on Tomcat 7…
  • Ooh, and vanilla DSpace 5.5 works on Tomcat 8 with Java 8!
  • Some notes about setting up Tomcat 8, since it’s new on this machine…
  • Install latest Oracle Java 8 JDK
  • Create setenv.sh in Tomcat 8 libexec/bin directory:
CATALINA_OPTS="-Djava.awt.headless=true -Xms3072m -Xmx3072m -XX:+UseConcMarkSweepGC -XX:+CMSIncrementalMode -Dfile.encoding=UTF-8"
CATALINA_OPTS="$CATALINA_OPTS -Djava.library.path=/opt/brew/Cellar/tomcat-native/1.2.8/lib"

JRE_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_102.jdk/Contents/Home
  • Edit Tomcat 8 server.xml to add regular HTTP listener for solr
  • Symlink webapps:
$ rm -rf /opt/brew/Cellar/tomcat/8.5.4/libexec/webapps/ROOT
$ ln -sv ~/dspace/webapps/xmlui /opt/brew/Cellar/tomcat/8.5.4/libexec/webapps/ROOT
$ ln -sv ~/dspace/webapps/oai /opt/brew/Cellar/tomcat/8.5.4/libexec/webapps/oai
$ ln -sv ~/dspace/webapps/jspui /opt/brew/Cellar/tomcat/8.5.4/libexec/webapps/jspui
$ ln -sv ~/dspace/webapps/rest /opt/brew/Cellar/tomcat/8.5.4/libexec/webapps/rest
$ ln -sv ~/dspace/webapps/solr /opt/brew/Cellar/tomcat/8.5.4/libexec/webapps/solr

2016-08-09

2016-08-10

  • Turns out DSpace 5.x isn’t ready for Tomcat 8: https://jira.duraspace.org/browse/DS-3092
  • So we’ll need to use Tomcat 7 + Java 8 on Ubuntu 16.04
  • More work on the Ansible stuff for this, allowing Tomcat 7 to use Java 8
  • Merge pull request for fixing the type Discovery index to use dc.type (#262)
  • Merge pull request for removing “Bitstream” text from item display, as it confuses users and isn’t necessary (#263)

2016-08-11

  • Finally got DSpace (5.5) running on Ubuntu 16.04, Tomcat 7, Java 8, PostgreSQL 9.5 via the updated Ansible stuff

DSpace 5.5 on Ubuntu 16.04, Tomcat 7, Java 8, PostgreSQL 9.5