Dear amber users
I use amber for my system (protein).
I did following steps similar to tutorial.
1) $AMBERHOME/exe/tleap -s -f $AMBERHOME/dat/leap/cmd/leaprc.ff03
2) protein = loadpdb "protein.pdb"
3) addions protein Na+ 0
4) solvatebox protein TIP3PBOX 8.0 iso
5) saveamberparm protein protein.prmtop protein.inpcrd
there is no error in step 1-5.
6) $AMBERHOME/exe/ambpdb -p protein.prmtop < protein.inpcrd > final_protein.pdb
but in step 6
ERROR: syntax error.
what is reason of this error?
how to fix it?
Best regards.
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Received on Sun Jan 29 2012 - 03:30:02 PST
