OBiBa’s core database application for biobanks or epidemiological studies.
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meek0 Merge pull request #3344 from kazoompa/rhaeri-dev
Added reportType as a new field to command DTO, download many files from R session.
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opal-core-api OpalAnalysisResult closer to how OpalAnalysis Nov 15, 2018
opal-core-ws Restricted analysis operation to users who can view dict and values. (#… Nov 16, 2018
opal-core Create analysis resource and fix analysis result db request Nov 15, 2018
opal-datashield devtools calls added Oct 10, 2018
opal-fs [maven-release-plugin] prepare for next development iteration Sep 26, 2018
opal-gwt-client schemaform array of strings (#3331) Nov 9, 2018
opal-httpd [maven-release-plugin] prepare for next development iteration Sep 26, 2018
opal-r Added ability to export data using a plugin datasource Nov 2, 2018
opal-reporting #3310 opal-spi-r added: base R operation classes moved to this module… Oct 3, 2018
opal-rest-client [maven-release-plugin] prepare for next development iteration Sep 26, 2018
opal-search [maven-release-plugin] prepare for next development iteration Sep 26, 2018
opal-server #3262 Orientdb upgraded to 2.2.x Oct 22, 2018
opal-shell Added reportType as a new field to command DTO, download many files f… Nov 16, 2018
opal-spi-r Added reportType as a new field to command DTO, download many files f… Nov 16, 2018
opal-spi Added reportType as a new field to command DTO, download many files f… Nov 16, 2018
opal-sshd [maven-release-plugin] prepare for next development iteration Sep 26, 2018
opal-upgrade [maven-release-plugin] prepare for next development iteration Sep 26, 2018
opal-web-model Implemented the Analyze command (#3332) Nov 9, 2018
opal-ws [maven-release-plugin] prepare for next development iteration Sep 26, 2018
.gitignore Makefile added Jun 9, 2018
.travis.settings.xml Use Github access token in place of username/password May 24, 2018
.travis.yml OBIBA-67 deb, rpm and py packages built + attached to github release … May 23, 2018
LICENSE.txt license explicitly added Nov 30, 2015
Makefile analysis-plugins added to Makefile Nov 12, 2018
README.md Makefile added Jun 9, 2018
pom.xml Fix surefire plugin error (#3326) Nov 1, 2018

README.md

Opal Build Status

Opal is OBiBa’s core database application for biobanks or epidemiological studies.

Developers

Set up a development environment:

  • Make sure Java8 is available.
  • Make sure you have a MongoDB, MySQL or MariaDB database running.
  • Compile with make all
  • Get the obiba-home repository to have some seeding material.
  • Prepare execution environment: make prepare (do it only once, this will create a opal_home directory)
  • Run in debug mode: make debug
  • Login http://localhost:8080 with administrator/password credentials.
  • Declare the databases (only at the first connection)
  • Go to obiba-home project and make seed-opal

There are many other targets, just check the Makefile and change variables to match your environment.

Mailing list

Have a question? Ask on our mailing list!

obiba-users@googlegroups.com

http://groups.google.com/group/obiba-users

License

OBiBa software are open source and made available under the GPL3 licence. OBiBa software are free of charge.

OBiBa acknowledgments

If you are using OBiBa software, please cite our work in your code, websites, publications or reports.

"The work presented herein was made possible using the OBiBa suite (www.obiba.org), a software suite developed by Maelstrom Research (www.maelstrom-research.org)"