OpenSpecimen HowTo Install

Tags: OpenSpecimen HowTo

See ​https://openspecimen.atlassian.net/wiki/display/CAT/Deployment+steps

Notes from watching Nitesh upgrade our dev version

1. Our customisations are in the file /local/os_v20/app/plugin-dir/os-le-1.0.0.jar. This file can be copied between installations.
2. He copied the build zip file (linked in the page above) into the directory /local/os_v20/installable and unzipped it.
3. He then ran the install.sh script from within the unzipped directory.
4. He ran the script using nohup so that the output for the installation is stored in the file nohup.out.
5. The full command was:

nohup ./install.sh -dhost localhost -dport 3306 -dname os_v21 -duser {db user name} -dpass {db password name} -dtype mysql -ahome /local/os_v20/app -ahost localhost -aport 8280 -adtype upgrade -adatadir /local/os_v20/app/os-data -aplugindir /local/os_v20/app/plugin-dir &

6. He then ran chmod 777 * in the app OpenSpecimen directory and the app/lib directory.
7. He then :

unset JAVA_TOOL_OPTIONS
export JAVA_HOME=/opt/java
export JRE_HOME=/opt/java/jre

8. He then ran /local/os_v20/app/bin/catalina.sh start

These later steps are documented in the script /local/os_v20/run_osv20.sh

Error: Macro BackLinks(None) failed

'Environment' object has no attribute 'get_db_cnx'