That's Cool, Tim. Thanks. As mentioned in my earlier email I made blast to work under Linux & Art11. Before I move to webstart and Jar files, I wanted to configure blast with Mac Art11.
I did edit my run_blastp file under the etc directory and it works very well with command line. But, When I try to run it from main Artemis window, it is asking for login details (of what? The system?). But, it does not run blastall really. I don't see any output. Where am I going wrong? Any hints Tim?. I am attaching my run_blastp script here....only change I made is for EXEC. For the database, I am giving the full path in the RUN->set menu option. That's how I did for my linux-Art11. Thanks once again for the reply, I really appreciate it. Gowtham SBRI (/run_blastp /Users/gramasamy/work/localartWD/blastp/blastp_file_of_filenames.4 /Applications/artemis/Artemis.app/Contents/blast-data/uniprot) Command line: works great, although complains as following..but does the JOB Error seen: Fatal server error: Server is already active for display 0 If this server is no longer running, remove /tmp/.X0-lock and start again. AbortDDX Quitting Xquartz... On 3/24/09 11:09 AM, "Tim Carver" <t...@sanger.ac.uk> wrote: > Hi Gowthaman > > It can be done. You would need to unwrap your jar file and edit the run > scripts that are in that. Then jar the contents back up. Alternatively, > in the Artemis cvs there is a Makefile that can be used to make the jar > files with: > > gmake jar > > Regards > Tim > > On Tue, 24 Mar 2009, Gowthaman Ramasamy wrote: > >> Hi All, >> I am able to configure my local Artemis installation to work with blast and >> local database. But, wondering, Can the same thing be done with "web start >> artemis" also. >> >> I understand, the path for the database can be set with RUN menu set >> options. How can I make it see the blastp and run_blastp scripts...... >> >> >> Thanks very much in advance, >> Gowthaman >> SBRI >> >> >> >> On 3/18/09 3:35 AM, "Tim Carver" <t...@sanger.ac.uk> wrote: >> >>> Hi Rob >>> >>> You can find documentation for setting up blast/fasta and the databases in >>> the >>> Readme.txt in the MacOSX distribution. >>> >>> You can then edit the run_blast* scripts in Artemis.app/Contents/artemis/etc >>> and options file if required as per the documentation in the manual: >>> >>> http://www.sanger.ac.uk/Software/Artemis/v11/manual/runmenu.html >>> >>> Regards >>> Tim >>> >>> On 3/17/09 9:25 PM, "Rob Good" <rtg...@unimelb.edu.au> wrote: >>> >>>> Can someone please point me to a link that will tell me how to configure >>>> run_blast, etc options for Macosx artemis. >>>> >>>> >>>> >>>> Rob Good >>>> Ph. +61 3 8344 2347 >>>> Genetics Dept >>>> University of Melbourne >>>> PARKVILLE, Australia >>>> >>>> >>>> >>>> >>>> _______________________________________________ >>>> Artemis-users mailing list >>>> Artemis-users@sanger.ac.uk >>>> http://lists.sanger.ac.uk/mailman/listinfo/artemis-users >>> >>> >>> >>> _______________________________________________ >>> Artemis-users mailing list >>> Artemis-users@sanger.ac.uk >>> http://lists.sanger.ac.uk/mailman/listinfo/artemis-users >> >> >> >
run_blastp
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