[Dock-fans] Problems Installing dms

[Scott Brozell]

Hi,

On Thu, 29 May 2008, Samuel Watson wrote:

> I am trying to install dms on a Mac Os 10.4 system.  I have modified LIBDIR,
> BINDIR in GNUmakefile and I also created new directories for man and
> man/man1.  All of the new directories appear in my dms file (~/Desktop/dms).
> When I then do "make install" I get the following output:
> 
> cc -O    -c -o pdbrun.o pdbrun.c
> cc -O    -c -o ms.o ms.c
> ar cru libpdb.a pdb_read.o pdb_sprntf.o pdb_sscanf.o pdb_write.o pdbrun.o
> ms.o
> ranlib libpdb.a
> cc -DDESTLIB=\"/dms/\" -DSERVER_PATH=\"/dms/dmsd\" -I -O   -c -o compute.o
> compute.c
> compute.c: In function 'read_radii':
> compute.c:343: warning: incompatible implicit declaration of built-in
> function 'exit'
...

These warnings are innocuous.  They could be eliminated by adding
#include <stdlib.h>

> cc -DDESTLIB=\"/dms/\" -DSERVER_PATH=\"/dms/dmsd\" -I -O   -c -o fwritev.o
> fwritev.c
> cc -DDESTLIB=\"/dms/\" -DSERVER_PATH=\"/dms/dmsd\" -I -O   -c -o input.o
> input.c
> input.c:37:17: error: pdb.h: No such file or directory
> input.c: In function 'read_pdb':
> input.c:70: error: 'pdb_record' undeclared (first use in this function)
...

These errors are fatal.
dms/libpdb/pdb.h
exists when I unpack the distribution:
sh < ../dms.shar

Perhaps you have an old dms distribution ?
It seems that old ones did not include pdb.h
http://shoichetlab.compbio.ucsf.edu/pipermail/dock-fans/2005-June/000176.html

Scott