On Sep 2, 2004, at 2:03 PM, Alex W. Smith wrote:
Michael:
I followed the directions for installing from source and used Bill
Scott's tweak (both links below). Everything seems to be running
fine. I am a bit short of memory using my Al G4PB, but everything
configured and complied with no problems. I have only used APBS with
the Pymol plugin but it seems to run fine. Slow but fine.
Hi Alex, and anyone else who might have a suggestion here;
I am also trying to use APBS for electrostatics in PyMOL. Running a G4
AlBook, 10.3.5, Apple's X11, latest fink, XCodeTools 1.0 (I havent
upgraded to 1.5 yet). But I got the personal attention of my Unix guru
for a while today and made some progress installing from source. He
helped me get maloc installed in /usr/local by using
./configure --prefix=/usr/local
Then I started on APBS, by following Bill Scott's tips, summarized here:
1. start up zsh (to make use of its recursive globbing capability)
2. ./configure
3a. perl -pi -e 's|\-L/usr/local/|\-lcc_dynamic \-L/usr/local/|g'
**/Makefile
3b. make
3c. make install
I got the following errors that stopped the make:
g77 -g -O2 -g -O2 -o apbs main.o routines.o
-L/Users/mbovee/lib/powerpc-apple-darwin7.5.0
../src/aaa_lib/.libs/libapbs.a -L/Users/mbovee/Desktop/apbs-0.3.1/lib
/usr/local/lib/powerpc-apple-darwin7.5.0/libmaloc.a
/usr/local/lib/powerpc-apple-darwin7.5.0/libblas.a
/usr/local/lib/powerpc-apple-darwin7.5.0/libvf2c.a -lm
/usr/bin/ld: warning -L: directory name
(/Users/mbovee/lib/powerpc-apple-darwin7.5.0) does not exist
/usr/bin/ld: warning -L: directory name
(/Users/mbovee/Desktop/apbs-0.3.1/lib) does not exist
/usr/bin/ld: Undefined symbols:
restFP
saveFP
collect2: ld returned 1 exit status
make[1]: *** [apbs] Error 1
make: *** [all-recursive] Error 1
doing a little more checking on these undefined symbols, I find:
$ nm *.a |grep restFP
U restFP
U restFP
$ nm *.a |grep saveFP
U saveFP
U saveFP
Can anyone tell me where these symbols are defined, or what I screwed
up? Maybe I should just start over and let the scripts install
everything in my homedir automatically...
--Michael
