And sure enough I'm not. Thanks for the reply.

On Jul 27, 2011, at 1:02 PM, Kanwei Li wrote:

Hi Todd,

Are you using the blastn wrapper from the galaxy-central repository?

Thanks,

K

On Tue, Jul 26, 2011 at 12:40 PM, Todd Yilk tyilk@lanl.gov wrote: Hello all,

I'm using the blastn tool and Galaxy is generating this command (pasting from the log file):

command is: perl /opt/galaxy/dev/galaxy_dist_dev_umma/tools/blast/psub -l galaxy_normal.c --fasta /opt/galaxy/dev/galaxy_dist_dev_umma/database/files/001/dataset_1377.dat --cat /opt/galaxy/dev/galaxy_dist_dev_umma/database/files/001/dataset_1378.dat blastn -query "/opt/galaxy/dev/galaxy_dist_dev_umma/database/files/001/dataset_1377.dat" -db "/house/blast_db/ncbi/nt/2011-01-11/nt" -task blastn -evalue 0.001 -out /opt/galaxy/dev/galaxy_dist_dev_umma/database/files/001/dataset_1378.dat -outfmt "6"

It's failing in Galaxy and I get a "script psub: No such file" kind of error running it at the command line ... I'm assuming psub here isn't the Unix command. According to find, my Galaxy installation doesn't have a galaxy_normal.c file either.

Is there something I didn't install?

Thanks,

• Todd Yilk

Software Developer Los Alamos National Laboratory

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