Has anyone else been having problems getting the lego commands to
work properly. With O 5.10.3, I've been unable to get the protein database
to load; lego_setup seems to work ok in that the various queries all
point to the correct place (as defined by environment variable ODAT);
on our machines this points to /app1/sgi_xrayprog/o/data; the various
files are in this directory including rsc.o and dgnl.o as well as the
set of files referred to as the protein database--however on the first
lego_auto_mc command which I'm using to convert a segment of polyala
generated by batoning into a reasonable set of coords, I'm getting
messages of the form "reading db", "DB_PROTEINS not found". Subsequent
lego_auto_mc commands fail with "unexpected error in dglkep" "nothing
kept" messages--which I assume are stemming from the fact that O thinks
the proteins database doesn't exist; everything else seems fine as I'm
able to access files within the directories pointed to by ODAT such as
startup.o, etc. This failure associated with lego_auto_mc of course is
also affecting baton_build in that I'm getting the same messages after
exiting baton_build. I've tried implementing the solution discussed
in the latest faq where I create a soft link between a file called odat
and /app1/sgi_xrayprog/o/data, which gives the same behaviour. I've also
verified that the datablocks associated with reading in the protein
database are not present via a dir command on the database.
does anyone have any suggestions on what I might be doing wrong, as
I can't see anything obvious; any help would be greatly appreciated.
J. Neel Scarsdale
This archive was generated by hypermail 2b29 : Tue Mar 20 2007 - 03:13:18 CST