On Sun, Jan 9, 2011 at 11:50 AM, Joseph Noel
Having trouble getting Coot loaded by Phenix to access monomers such as DTT, glycerol, etc I assume through the CCP4 monomer library. If I insert the following in the phenix file, start_coot.sh: DYLD_LIBRARY_PATH=/Applications/ccp4-6.1.13/lib:$DYLD_LIBRARY_PATH export DYLD_LIBRARY_PATH will Coot now access the monomer library?
No, DYLD_LIBRARY_PATH (equivalent to LD_LIBRARY_PATH on Linux) is a system setting for locating shared library objects that need to be linked to executables. A quick bit of Googling identified various candidates for what you want: COOT_REFMAC_LIB_DIR, CCP4_LIB, or CLIBD_MON. Not sure which of these is actually appropriate, however, and I admit I'm confused about why this would be necessary in your case since the installation of Coot I have appears to include the complete monomer library*. Hopefully Paul E. can clarify (I think he's still subscribed)... -Nat (* /Applications/coot.app/Contents/coot/share/coot/lib/data/monomers/, using the .pkg file for revision 3072 found here: http://sage.ucsc.edu/~wgscott/xtal/wiki/index.php/Stand-Alone_Coot)