Hi. On Wed, 06 Aug 2003 14:02:56 +0100, Derek Gatherer wrote:
> Hi > This is really a rather indirect question, since it concerns blastall > rather than Artemis, but I thought it might be possible that other Artemis > users might have had the same problem when setting up blastall to run from > the Artemis menu..... (OS is Tru64 5.1B running on an Alphastation 255). > Blastall gives the following error. > [blastall] WARNING: [000.000] Test1: Unable to open BLOSUM62 > [blastall] WARNING: [000.000] Test1: BlastScoreBlkMatFill returned > non-zero status > [blastall] WARNING: [000.000] Test1: SetUpBlastSearch failed. > [blastall] WARNING: [000.000] Test2: Unable to open BLOSUM62 > [blastall] WARNING: [000.000] Test2: BlastScoreBlkMatFill returned > non-zero status > [blastall] WARNING: [000.000] Test2: SetUpBlastSearch failed. > Blosum62 is in /blast/data and the .ncbirc file is set up to point > there. The funny thing is that the error does not appear when blastall is > run as root, only when an ordinary user account is used to run it. This > would seem to be a clear permissions problem, but all permissions in > blast/data intuitively would seem to be the correct thing. Where is the .ncbirc file? Does each user have a copy? > # ls -l blast/data > total 565 > -rw-r--r-- 1 root users 2122 Mar 11 1999 BLOSUM45 > -rw-r--r-- 1 root users 2122 Aug 25 1997 BLOSUM62 > -rw-r--r-- 1 root users 2124 Mar 11 1999 BLOSUM80 > Anybody seen anything similar? We normally set the BLASTMAT environment variable to point to directory that contains the BLOSUM files. We set the BLASTMAT in the run_blastp script so that it works for all users. Kim.
