[GE users] SunGrid Engine & BLAST

Rayson Ho raysonho at eseenet.com
Thu Jan 20 17:32:56 GMT 2005


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So seems like your $SGE_ROOT is not shared.

What you need to do is to have a shared NFS directory that has the same
mount point, so that the abs. path is the same on all the machines, and put
your $SGE_ROOT there.

Also, make sure the uid for sgeadmin is the same if you go with NFS.

The other way to get SGE work is to copy the contents of the directory
$SGE_ROOT/default to the exec hosts. This doesn't require NFS at all.

Rayson

>Here is the output of ls -l /usr/local/sge
>drwxr-xr-x   4 sgeadmin  wheel       136  7 Apr  2004 3rd_party
>-rw-r--r--   1 sgeadmin  wheel       396  7 Apr  2004 README.inst_sgeee
>drwxr-xr-x   3 sgeadmin  wheel       102 17 Jan 11:03 bin
>drwxr-xr-x   4 sgeadmin  wheel       136  7 Apr  2004 catman
>drwxr-xr-x  23 sgeadmin  wheel       782  7 Apr  2004 ckpt
>drwxr-xr-x  12 sgeadmin  wheel       408 17 Jan 11:03 doc
>drwxr-xr-x   4 sgeadmin  wheel       136 17 Jan 11:03 examples
>-rwxr-xr-x   1 sgeadmin  wheel     77667  7 Apr  2004 inst_sge
>lrwxrwxrwx   1 sgeadmin  wheel         8 17 Jan 11:03 inst_sgeee ->
inst_sge
>-rwxr-xr-x   1 sgeadmin  wheel      1354  7 Apr  2004 install_execd
>-rwxr-xr-x   1 sgeadmin  wheel      1354  7 Apr  2004 install_qmaster
>drwxr-xr-x   3 sgeadmin  wheel       102 17 Jan 11:03 lib
>drwxr-xr-x   5 sgeadmin  wheel       170  7 Apr  2004 man
>drwxr-xr-x  13 sgeadmin  wheel       442  7 Apr  2004 mpi
>drwxr-xr-x   9 sgeadmin  wheel       306 17 Jan 11:03 pvm
>drwxr-xr-x   5 sgeadmin  wheel       170 26 Mar  2004 qmon
>-rw-r--r--   1 sgeadmin  wheel  20981760 17 Jan 11:02
sge-5.3p6-bin-darwin.tar
>-rw-r--r--   1 sgeadmin  wheel   2498560 17 Jan 11:02
sge-5.3p6-common.tar
>-rw-r--r--   1 sgeadmin  wheel   5580800 17 Jan 11:02 sge-5.3p6-doc.tar
>drwxr-xr-x  24 sgeadmin  wheel       816  7 Apr  2004 util
>drwxr-xr-x   3 sgeadmin  wheel       102 17 Jan 11:03 utilbin
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