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 <ty...@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 > > > > > > ___________________________________________________________ > The Galaxy User list should be used for the discussion of > Galaxy analysis and other features on the public server > at usegalaxy.org. Please keep all replies on the list by > using "reply all" in your mail client. For discussion of > local Galaxy instances and the Galaxy source code, please > use the Galaxy Development list: > > http://lists.bx.psu.edu/listinfo/galaxy-dev > > To manage your subscriptions to this and other Galaxy lists, > please use the interface at: > > http://lists.bx.psu.edu/ >
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
