Re: [AMBER] Fwd:

From: Gustaf Olsson <>
Date: Mon, 8 Jul 2019 09:10:31 +0000

Pretty sure you are using some Ubuntu version, so from your initial posting trying to run apple-specific commands should fail as there is no Xcode version for Ubuntu.

What is returned by executing the following command:

As I can also see that you repeatedly failed to supply a sudo password, do you have read/write permissions /usr/local/ on you system? Otherwise you should probably try to install amber in a location that does not require you to be a sudoer.

You are using bash as per your latest post, the following commands will successfully install the serial version of the AmberTools19 suite on Ubuntu 18.04 LTS using bash on a clean system. Even if you’ve already installed amber tools, make a copy of your install directory and try again.

Some important points:
1) This does require you to know your “administrator” password as a “sudoer” meaning that you should be able to run sudo commands successfully. I have hon tried updating and installing packages on a system where I do not have administrative rights so if you do not know this password there are no guarantees that the following will work.
2) Everything inside brackets [] needs to be changed to something unique for your system. Hence, "/[path]/[to]/[amber]/[install]/[directory]/“ should most likely be "/usr/local/“ based on what I see in your screen dumps.

 $ sudo apt-get update && sudo apt-get upgrade -y
 $ sudo apt-get install -y bc csh flex gfortran g++ xorg-dev zlib1g-dev libbz2-dev patch
 $ cd /[path]/[to]/[amber]/[install]/[directory]/
 $ tar xvf AmberTools19.tar.bz2
 $ export AMBERHOME=/[path]/[to]/[amber]/[install]/[directory]/amber18
 $ ./configure gnu
 $ source /[path]/[to]/[amber]/[install]/[directory]/amber18/
 $ echo "source /[path]/[to]/[amber]/[install]/[directory]/amber18/" >> $HOME/.bashrc
 $ make install

Good luck

> On 6 Jul 2019, at 13:20, Charu Sharma (JRF) <> wrote:
> ---------- Forwarded message ---------
> Date: Sat, Jul 6, 2019, 16:49
> Subject:
> To: Charu Sharma (JRF) <>
> It giving same error sir.
> <Screenshot from 2019-07-06 16-48-43.png>_______________________________________________
> AMBER mailing list

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Received on Mon Jul 08 2019 - 02:30:02 PDT
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