| Previous changeset 1:7aa6ee21028c (2013-10-15) |
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Commit message:
Uploaded |
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added:
README.txt |
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| diff -r 7aa6ee21028c -r 386bf3c10c46 README.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README.txt Tue Oct 15 16:22:17 2013 -0400 |
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| @@ -0,0 +1,42 @@ +A simple Hello World Swift tool to run with Galaxy. + +To set up with your Galaxy environment follow the steps below: +0. Prerequisite: Sun/Oracle java. Should work with IBM java but not tested rigorously. + +1. Download and install Swift where Galaxy server is running. From a command prompt the following wget will pull the latest release: + +wget http://www.ci.uchicago.edu/swift/packages/swift-0.94.1.tar.gz + +Do untar at a suitable location: + +tar zxf swift-0.94.1.tar.gz + +Put the bin dir on system PATH: + +export PATH=$PATH:/location/to/swift-0.94.1/bin + +Edit above line to match the location of Swift and add it to your environment file (.bashrc, .bash_profile or the corresponding ones for other shells). + +Make sure Swift is available from a command prompt: + +which swift +swift -version + +2. untar and copy the swift-galaxy.tgz to the tools directory of your Galaxy location: + +tar zxf swift-galaxy.tgz + +cp -r swift-galaxy /location/of/galaxy-server/tools/ + +3. Edit the tool_conf.xml file present at the top-level of galaxy-server directory tree to add the following lines between the <toolbox> and </toolbox> xml tags: + +<section name="swift-hello" id="swift-hello"> + <tool file="swift-galaxy/helloswift.xml" /> +</section> + +4. Restart the Galaxy server. The swift-galaxy tool should be available in the tool box of Galaxy GUI. + +5. Invoke it by entering any number in the dialog box or leaving it to default. A message "Hello World!" will be written to output files as many times and the files should be available for browsing from Galaxy GUI. + +Please note that the Cluster option is not implemented in this example. + |