Re: [AMBER] AmberTools19 install error

From: Raman Preet Singh <>
Date: Mon, 9 Mar 2020 12:40:06 +0000

Thanks Gustaf for the link. Will follow the instructions in the link.


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From: Gustaf Olsson <>
Sent: Monday, March 9, 2020 3:07:42 AM
To: AMBER Mailing List <>
Subject: Re: [AMBER] AmberTools19 install error

Hello Raman

After having run through the installation process a number of times working with another person from these forums you should be able to follow the process as outlined here:

There are (as you will notice) some problems with the MPI version though it should be enough to get you started with the serial version.

// Gustaf

Från: Raman Preet Singh <>
Skickat: den 8 mars 2020 18:59:22
Till:; AMBER Mailing List
Ämne: Re: [AMBER] AmberTools19 install error

Dear David,

Thank you for your reply.

I am now using Windows Substructure for Windows in Win10. An empty file was created using “touch abc”. I restarted the system a couple of times and ran “./configure gnu”. AT19 patches were applied and miniconda/python were applied. This time I received the following error:

Thank you in advance for your help.


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From: David A Case<>
Sent: 08 March 2020 22:10
To: AMBER Mailing List<>
Subject: Re: [AMBER] AmberTools19 install error

On Sun, Mar 08, 2020, Raman Preet Singh wrote:
> I tried installing AT19 on Ubuntu 19.10 following the commands in the
> manual. However, when I run the make command in the shell, I see the
> following error

For the first error, it looks like you either failed to run the
configure script first, or the configure script failed for some reason.

> When I try to install AT10 on Win10 using Windows Subsystem for Linux

Here you have a permissions problem (maybe the same thing happened on
your Linux machine.) It looks you may not have permissions to write in
the $AMBERHOME folder.

Try this:

   cd folder-where-amber-is-installed
   touch abc

Does this command work, or do you get a "permission denied" error? If
it is the latter, you will need to un-tar the Amber tar file into a
folder where you have write permissions.

Since you are new to Linux, you might consider going to the "Learning
the Unix Command Line" tutorial, which is the first one on the tutorial
tab at

...good luck....dac

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