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Galaxy: Difference between revisions
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All files of your Galaxy instance belong to a "pseudo-account", a shared account that is generated by an administrator at installation time. A pseudo-account does not belong to an individual person, but belongs to a specific group. Everyone in the group can log in to the pseudo-account using [https://docs.computecanada.ca/wiki/Using_SSH_keys_in_Linux SSH keys]. The name of the pseudo-account in this case is the same name as the top Galaxy directory explained above, eg., <code>daglxy</code>. In order to modify any file of your Galaxy instance, e.g. configuration files, you first need to log in to the pseudo-account. Before you can log in you must generate an SSH key pair, store your public key somewhere in your <code>home</code> directory, and let the administrator know about that. The administrator will store your public key in an appropriate place, after which you can log in to your pseudo-account. | All files of your Galaxy instance belong to a "pseudo-account", a shared account that is generated by an administrator at installation time. A pseudo-account does not belong to an individual person, but belongs to a specific group. Everyone in the group can log in to the pseudo-account using [https://docs.computecanada.ca/wiki/Using_SSH_keys_in_Linux SSH keys]. The name of the pseudo-account in this case is the same name as the top Galaxy directory explained above, eg., <code>daglxy</code>. In order to modify any file of your Galaxy instance, e.g. configuration files, you first need to log in to the pseudo-account. Before you can log in you must generate an SSH key pair, store your public key somewhere in your <code>home</code> directory, and let the administrator know about that. The administrator will store your public key in an appropriate place, after which you can log in to your pseudo-account. | ||
=== Galaxy server === | === Galaxy server management === | ||
Starting Galaxy server is the first thing that needs to be done by users. Galaxy server should NOT be run on cedar headnode or any compute node. We have a dedicated server called "gateway" and it contains a web server with relevant Cedar filesystems, <code>/project</code> and <code>/home</code> directories mounted on it. Users cannot make a SSH connection to this machine due to security reasons, however we have designed a web site on this machine that can start/stop your galaxy server. The website also allows you to user Galaxy web interface to communicate with the server. To do that please go to the website [https://gateway.cedar.computecanada.ca/ https://gateway.cedar.computecanada.ca/] and click on Galaxy link. You will automatically redirect to your galaxy server manager website where you can Start/Stop your server or use Galaxy web interface. | |||
=== Galaxy configuration === | === Galaxy configuration === | ||