VMD-L Mailing List

From: Luis Rosales (ludwig_at_biomedicas.unam.mx)
Date: Wed Nov 24 2004 - 16:13:44 CST

Hi all!

Dear John and Brian:

Thanks for your time,
Yes, I checked the directory permissions as well as the binary permissions,
and they are set right for everybody to read/execute (drwxr-xr-x).
And I have defined localhost on my hosts file... (127.0.0.1
localhost.localdomain localhost)

So far I had run msms with:

msms -if file.xyzr
msms -no_area -if 1crn.xyzr
msms -no_area -socketPort 1357 -if 1crn.xyzr

And every time if indicates a normal termination (this is the output of the
-no_area -sockerPort 1357 -if):

Arioco_at_ruiz2 15% msms -no_area -socketPort 1357 -if 1crn.xyzr
MSMS 2.5.5 started on ruiz2.biomedicas.unam.mx
Copyright M.F. Sanner (1994)
Compilation flags -O3 -mips3 -xansi -DVERBOSE -DTIMING -DFUNCPROTO -fullwarn
INPUT 1crn.xyzr 327 spheres 0 collision only, radii 1.400 to 2.000
PARAM Probe_radius 1.500 density 1.000
REDUCED SURFACE ...
    RS component 0 identified 211 208 210
    0 free edge(s) found in component 0
    RS component #faces #edges #free_edges #vertices genus
         0 430 645 0 210 3.5
    Time Reduced Surface real: 0.04 user: 0.04 sys: 0.00
ANALYTICAL SOLVENT EXCLUDED SURFACE...
    Component 0
        Time Surface real: 0.01 user: 0.01 sys: 0.00
        Time Singularities real: 0.00 user: 0.00 sys: 0.00
    SES comp. #fac. #edg. #s_edg. #vert. #s_vert. R_h C_h genus
         0 1304 2616 12 1314 24 0 0 0
TRIANGULATION...
    Component 0
    component#, vertices, edges, faces, genus, density
        0 2465 7389 4926 0 0.000
        Time Triangulation real: 0.04 user: 0.04 sys: 0.00
MSMS terminated normally
Total Time real: 0.10 user: 0.09 sys: 0.00

-------------------------------------------

So,it appears that the socketport and the no_area options run fine in a
manual run....
How can I know if the port is open, so that the communication between vmd
and msms is happening??

Thanks