Dear all,
I tried to use carnal in amber 8 but i got the following problem in my output:
Carnal: Internal error: stream file name 2 out of range
The input file is:
FILES_IN
PARM p1 CPL_ACN.prmtop;
STREAM s1 cpl_maa_cooled_all.pseudo_mdcrd;
FILES_OUT
COORD c1 /tmp/temp_mip_pbsa_12692/pdbs.0/pdb PDB;
DECLARE
GROUP tpl ( RES 2 );
CUTRES cr1 tpl 0.05;
OUTPUT
COORD c1 s1;
END
The output file is:
- CARNAL -
AMBER 8.0
COORDINATE ANALYSIS
input stdin
>
> FILES_IN
> PARM p1 CPL_ACN.prmtop;
Reading parm file (CPL_ACN.prmtop)
parm: opening CPL_ACN.prmtop
> STREAM s1 cpl_maa_cooled_all.pseudo_mdcrd;
Using default parm (CPL_ACN.prmtop) for STREAM s1
(box will be read from stream)
stream: opening cpl_maa_cooled_all.pseudo_mdcrd
> FILES_OUT
> COORD c1 /tmp/temp_mip_pbsa_12692/pdbs.0/pdb PDB;
> DECLARE
> GROUP tpl ( RES 2 );
** Group tpl: 12 atoms
> CUTRES cr1 tpl 0.05;
list of residues at least partially in group:
2
> OUTPUT
> COORD c1 s1;
> END
--CUTRES cr1 130:
RES 2 2
--
starting new coord output file: /tmp/temp_mip_pbsa_12692/pdbs.0/pdb.1
--CUTRES cr1 130:
RES 2 2
--
starting new coord output file: /tmp/temp_mip_pbsa_12692/pdbs.0/pdb.2
--CUTRES cr1 130:
RES 2 2
--
.........
starting new coord output file: /tmp/temp_mip_pbsa_12692/pdbs.0/pdb.1086
(EOF reached on cpl_maa_cooled_all.pseudo_mdcrd)
STREAM s1: no more files/crds (iteration 1086)
SUMMARY
(EOF reached on cpl_maa_cooled_all.pseudo_mdcrd)
Internal error: stream file name 2 out of range
What's wrong with it? Any idea? What's stream file name 2?
Thanks in advance,
Shuting Wei
-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber.scripps.edu
To unsubscribe, send "unsubscribe amber" to majordomo.scripps.edu
Received on Sun Aug 27 2006 - 06:07:08 PDT
