Hi Jasper Thanks for your message. There are newer versions of fasta/blast available so below is an updated set of instructions. Using fasta35 means the run script 'Artemis.app/Contents/artemis/etc/run_fasta' needs to be edited to change references of fasta34 to fasta35.
Also remember to make sure 'Send Searches via SSH' is not selected in the 'Options' menu when you start Artemis. Regards Tim Searching and Using Local Sequence Databases (Optional) ======================================================= 1. Download and install BLAST: ftp://ftp.ncbi.nih.gov/blast/executables/release/ get the latest release, e.g.: ftp://ftp.ncbi.nih.gov/blast/executables/release/2.2.23/blast-2.2.23-univers al-macosx.tar.gz Untar and add the contents of the bin directory into Artemis.app/Contents/blast. 2. Download and install Fasta ftp://ftp.ebi.ac.uk/pub/software/unix/fasta Get the latest, e.g.: ftp://ftp.ebi.ac.uk/pub/software/unix/fasta/fasta3/fasta-35.4.11.tar.gz Put this in Artemis.app/Contents/fasta and unwrap and compile: tar xzvf fasta-35.4.11.tar.gz cd src make -f ../make/Makefile.os_x 3. Download and format uniprot database You can do this by using the setup_dbs.sh script in Artemis.app/Contents/blast-data cd Artemis.app/Contents/blast-data ./setup_dbs.sh (Note the environment variable http_proxy may need to be set for the download to work). Additional databases can be added here. To select to run searches locally ensure that under the 'Options' menu 'Send Searches via SSH' is not toggled. _______________________________________________ Artemis-users mailing list Artemis-users@sanger.ac.uk http://lists.sanger.ac.uk/mailman/listinfo/artemis-users
