On Tue, Nov 06, 2012, Yulin Huang wrote:
> I have two ligands with identical atom names and orders for the
> corresponding same atoms. I place the different atom at the end of mol2
> files. After I ran Antechamber as the follows,then prep files with
> different orders for corresponding same atoms were generated.
>
> antechamber -i *.lig.mol2 -fi mol2 -o *.lig.ante.pdb -fo pdb
> antechamber -i *.lig.mol2 -fi mol2 -o *.lig.ante.prep -fo prepi
^^^^^^^^^^
Try using "-fo mol2" here, to avoid the prep format.
....dac
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Received on Wed Nov 07 2012 - 07:00:03 PST
