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POST_INSTALLATION_ABEL_MOUNT.md

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Edit:

2.1. Edit job_conf.xml (Your job_resource_params_conf.xml is already configured, make sure your setup matches!) 2.2. Edit /etc/sudoers for the galaxy-gold commands (see README.md)

Initialize galaxy:

3.1. Start munge service (sudo systemctl start munge.service) 3.2. Start Galaxy for the first time in order to setup galaxy and create .venv:

 sudo -u galaxy -H sh -c /home/galaxy/galaxy/run.sh

3.3. Fix galaxy .venv by running .venv_config script 3.5. If galaxy is using an old database: 3.5.1 Start galaxy again, and 3.5.2 run manage.db with galaxy user:

 sudo -iu galaxy
 cd galaxy
 ./manage_db.sh upgrade

3.5. Start galaxy again, and see that it listens to the correct port.

Install Apache httpd server and set up authentication

  1. For installing apache httpd and setup authentication through dataporten, run the galaxy-dataporten-deployment script

Run galaxy:

5.1. Start galaxy again (sudo /etc/init.d/galaxyd start) 5.2. Check the log (tail -f /home/galaxy/galaxy/paster.log)