Mercurial > repos > iracooke > protk_omssa
changeset 1:f77532db59b6
Uploaded
| author | iracooke |
|---|---|
| date | Tue, 05 Mar 2013 00:04:49 -0500 |
| parents | e924c0d646d0 |
| children | 8f3813e7b0a6 |
| files | README repository_dependencies.xml tool_dependencies.xml |
| diffstat | 3 files changed, 51 insertions(+), 2 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README Tue Mar 05 00:04:49 2013 -0500 @@ -0,0 +1,49 @@ +This package installs the OMSSA MS/MS search engine + +Full details about OMSSA including a paper describing its algorithm +can be found at http://pubchem.ncbi.nlm.nih.gov/omssa/ + +Requirements: +This package depends on the galaxy_protk package +Please see instructions for that package before installing + + +--- DISCLAIMER ---- + +National Library of Medicine disclaimer: +http://www.ncbi.nlm.nih.gov/About/disclaimer.html + +NCBI source code disclaimer: + ************************************************************************** + * * + * National Center for Biotechnology Information * + * Bldg. 38A, NIH, 8600 Rockville Pike, Bethesda, MD 20894 * + * * + * COPYRIGHT NOTICE * + * * + * This software/database is "United States Government Work" under the * + * terms of the United States Copyright Act. It was written as part of * + * the author's official duties as a Government employee and thus cannot * + * be copyrighted. This software/database is freely available to the * + * public for use without a copyright notice. Restrictions cannot be * + * placed on its present or future use. * + * * + * Although all reasonable efforts have been taken to ensure the accuracy * + * and reliability of the software and data, the National Library of * + * Medicine (NLM) and the U.S. Government does not and cannot warrant the * + * performance or results that may be obtained by using this software or * + * data. The NLM and the U.S. Government disclaims all warranties as to * + * performance, merchantability or fitness for any particular purpose. * + * * + * In any work or product derived from this material, proper attribution * + * of the author as the source of the software or data would be * + * appreciated. * + * * + ************************************************************************** + +OMSSA Citation: +Geer LY, Markey SP, Kowalak JA, Wagner L, Xu M, Maynard DM, Yang X, Shi W, Bryant SH. "Open mass spectrometry search algorithm." J Proteome Res. 2004 Sep-Oct;3(5):958-64. + +http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15473683 + +
--- a/repository_dependencies.xml Mon Mar 04 04:15:33 2013 -0500 +++ b/repository_dependencies.xml Tue Mar 05 00:04:49 2013 -0500 @@ -5,5 +5,5 @@ --> <repositories description="Requires the protk rubygem to install omssa"> - <repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="51f7c347c955"/> + <repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="dac478a72c1d"/> </repositories> \ No newline at end of file
--- a/tool_dependencies.xml Mon Mar 04 04:15:33 2013 -0500 +++ b/tool_dependencies.xml Tue Mar 05 00:04:49 2013 -0500 @@ -4,7 +4,7 @@ <install version="1.0"> <actions> <action type="download_by_url">https://dl.dropbox.com/u/226794/galaxy_protk.tar.gz</action> - <action type="shell_command">sh install_omssa.sh $INSTALL_DIR 1.1.9</action> + <action type="shell_command">sh install_omssa.sh $INSTALL_DIR 1.2.0</action> <action type="move_file"> <source>install_omssa.sh</source> <destination>$INSTALL_DIR</destination>