You're AMBERHOME seems to be set very wrong.
It should probably be something like
/home/ssa/amber11
but, as it stands, you have it set to
/home/ssa/amber11//home/ssa/amber11//home/ssa/amber11
You may want to
cd /home/ssa/amber11/src
make -f Makefile_at realclean
export AMBERHOME=/home/ssa/amber11
./configure_at gnu
make -f Makefile_at
Then follow the remainder of the AmberTools installation instructions in section 1.2 of the manual.
On Jan 23, 2010, at 6:23 AM, sikander azam wrote:
> ptraj: analyze fluctuation matrices
> diffing 1rrb_vac_distmat.dat.save with 1rrb_vac_distmat.dat
> awk: fatal: can't open source file
> `/home/ssa/amber11//home/ssa/amber11//home/ssa/amber11/bin/bin/test/ndiff.awk'
> for reading (No such file or directory)
> possible FAILURE: check 1rrb_vac_distmat.dat.dif
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Received on Sat Jan 23 2010 - 07:00:02 PST
