Re: [AMBER] how to solve syntax error issue

From: Elvis Martis <>
Date: Tue, 7 Feb 2017 12:15:27 +0000

Also add
export AMBERHOME=/home/xxx/Desktop/amber14
export PATH=$PATH:$AMBERHOME/bin <<< add this line

    Best Regards

Elvis Martis
Ph.D. Student (Computational Chemistry)
 at Bombay College of Pharmacy

A  Kalina, Santacruz [E], Mumbai 400098, INDIA
Skype. adrian_elvis12

-----Original Message-----
From: Ayesha Kanwal []
Sent: Tuesday, February 07, 2017 3:40 PM
Subject: [AMBER] how to solve syntax error issue

Hi all,

I have amber14 on my system and using antechamber to prepare ligand prmtop & inpcrd file. i have set the following path:

export AMBERHOME=/home/xxx/Desktop/amber14

i am using protein pdb sample given on antechamber website and following same command as an example

i have pasted sustiva.pdb file in amber14 folder.

but when i have used command

reduce sustiva.pdb > sustiva_h.pdb

every time it is generated syntax error

even i have also checked this command after pasting sustiva.pdb file in bin folder where tleap has already exist.

I don't know what is the reason behind it.

any suggestions?



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