Dannon, Thanks. I can't believe I didn;t see that, I've read the Cloud setup page a dozen times while getting familiar with Cloudman. I guess you skip what you don;t need at the time :=(
Greg On Sat, Jan 7, 2012 at 11:20 PM, Dannon Baker <dannonba...@me.com> wrote: > Hi Greg, > > In order to install custom tools you'll need to SSH into a running > instance, install your tool and make any modifications to Galaxy you need > in order to use it, and then use the "Persist changes to file system" > option in the Cloudman administration panel. By default, Cloudman discards > and simply recreates from snapshot the galaxyTools and galaxyData volumes > when an instance is relaunched, but this persistence command will make a > snapshot specific to your instance that will be used going forward. > > Here's a wiki link for more info: > http://wiki.g2.bx.psu.edu/Admin/Cloud/Customize%20Galaxy%20Cloud > > Let me know if you have any other questions, and good luck! > > -Dannon > > > > On Jan 6, 2012, at 7:28 PM, Greg Edwards wrote: > > > Hi Folks, > > > > I could use some help on adding a tool to the cloud version of Galaxy. > The Cloud startup process creates, among other things, > /mnt/galaxyTools/galaxy-central which has tools_conf.xml, and subdir tools > etc. This seems not accessible before starting the cloud. I assume I need > to add my tool into the structure as per a local Galaxy instance, and then > get Galaxy to restart, or re-read it's config ? Would appreciate some > advice there. > > > > Just as background .. I have got a custom proteomics Perl script running > ok under a local version of Galaxy on Mac. Added in to tools_conf.xml, > tools etc. Made several mods to the Perl to stop any writing to stderr > except for fatal show-stopper errors, everyone seems to hit that one, and > other small things to make it play better with Galaxy. Also quite familiar > with AWS EC2, have been using that for a while. > > > > I have Galaxy Cloudman running well, start/stop extra servers etc. Using > the free t1.micro AMI for now, slowish but ok for testing. Or a Spot > Instance of m1.large when I'm impatient. > > > > I couldn't find the answer in a search of Galaxy archives, apologies if > it's there, or obvious in some other way. > > > > Thanks! > > > > -- > > Greg Edwards, > > Port Jackson Bioinformatics Consulting. > > gedwar...@gmail.com > > > > ___________________________________________________________ > > The Galaxy User list should be used for the discussion of > > Galaxy analysis and other features on the public server > > at usegalaxy.org. Please keep all replies on the list by > > using "reply all" in your mail client. For discussion of > > local Galaxy instances and the Galaxy source code, please > > use the Galaxy Development list: > > > > http://lists.bx.psu.edu/listinfo/galaxy-dev > > > > To manage your subscriptions to this and other Galaxy lists, > > please use the interface at: > > > > http://lists.bx.psu.edu/ > > -- Greg Edwards, Port Jackson Bioinformatics Consulting. gedwar...@gmail.com
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
