I have launched a GVL instance using the instructions here ( How to: Launching a GVL instance ), it is a user instance running at Swansea and according to the dashboard everything is running fine. I was expecting more software to be pre-installed but I can’t run, eg, prokka or snippy, and I also don’t have brew. Is there something else I need to do to the instance to get those working? I can run bwa and samtools.
My $PATH looks like this: /home/ubuntu/bin:/home/ubuntu/.local/bin:/home/linuxbrew/.linuxbrew/bin:/home/linuxbrew/.linuxbrew/sbin:/mnt/galaxy/tools/bin:/usr/lib/postgresql/9.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/usr/lib/jvm/java-8-oracle/bin:/usr/lib/jvm/java-8-oracle/db/bin:/usr/lib/jvm/java-8-oracle/jre/bin