Mercurial > repos > bjoern-gruening > iprscan
diff readme.txt @ 0:341830c8cd37
initial commit
author | bjoern-gruening |
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date | Tue, 24 Jan 2012 07:35:10 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/readme.txt Tue Jan 24 07:35:10 2012 -0500 @@ -0,0 +1,74 @@ +Galaxy wrapper for InterProScan prediction tools +========================================= + +InterProScan is a tool that combines different protein signature recognition methods native to the InterPro member databases into one resource with look up of corresponding InterPro and GO annotation. + +This wrapper is copyright 2012 by +* Bjoern Gruening, Pharmaceutical Bioinformatics, University of Freiburg +* Konrad Paszkiewicz, Exeter Sequencing Service, University of Exeter + + +This prepository contains wrapper for the InterProScan command line tool. +http://www.ebi.ac.uk/interpro/ + + +Zdobnov E.M. and Apweiler R. "InterProScan - an integration platform for the signature-recognition methods in InterPro" Bioinformatics, 2001, 17(9): p. 847-8. + + + +Installation +============ + +Please download install InterProScan according to: + +ftp://ftp.ebi.ac.uk/pub/software/unix/iprscan/Installing_InterProScan.txt + +Please see also: +ftp://ftp.ebi.ac.uk/pub/software/unix/iprscan/index.html + +And rebuild the indizes if necessary: + +index_data.pl -f interpro.xml -inx -v -bin -bforce +index_data.pl -f match_complete.xml -inx -v -bin -bforce +index_data.pl -f Pfam-A.seed -inx -v -bin -bforce +index_data.pl -f Pfam-C -inx -v -bin -bforce +index_data.pl -f prints.pval -inx -v -bin -bforce +index_data.pl -f sf.seq -inx -v -bin -bforce +index_data.pl -f sf_hmm -inx -v -bin -bforce +index_data.pl -f smart.HMMs -inx -v -bin -bforce +index_data.pl -f superfamily.hmm -inx -v -bin -bforce +index_data.pl -f TIGRFAMs_HMM.LIB -inx -v -bin -bforce + +<tool file="iprscan/interproscan.xml" /> + + + +History +======= + +interproscan: +v0.1 - initial commit + + + +Wrapper Licence (MIT/BSD style) +=============================== + +Permission to use, copy, modify, and distribute this software and its +documentation with or without modifications and for any purpose and +without fee is hereby granted, provided that any copyright notices +appear in all copies and that both those copyright notices and this +permission notice appear in supporting documentation, and that the +names of the contributors or copyright holders not be used in +advertising or publicity pertaining to distribution of the software +without specific prior permission. + +THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL +WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED +WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE +CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT +OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS +OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE +OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE +OR PERFORMANCE OF THIS SOFTWARE. +