Re: [AMBER] Amber18 compilation error on a Linux CPU cluster

From: Sundar <>
Date: Sat, 22 Dec 2018 22:21:07 -0600

My original email was sent to the mailing list and somehow it was only you
in subsequent emails.
I did the serial installation first and then did "./configure -mpi gnu".
That's when I got this error message.

Would you recommend a fresh serial installation from the tar files and try
the parallel version?



On Sat, Dec 22, 2018 at 4:17 PM David Case <> wrote:

> On Sat, Dec 22, 2018, Sundar wrote:
> >I am trying to configure it with mpi. But have following errors.
> Please send amber-related questions to the mail reflector,
> and not to me personally. That way, many people can see your question and
> try
> to help, and the answers can help others with similar questions. See
> for information on how to
> subscribe.
> >
> >sundar.copper02:/usr/local/usp/Amber/amber18> ./configure -mpi gnu
> >Checking for updates...
> >Checking for available patches online. This may take a few seconds...
> You should always compile the serial version first, then do the parallel
> versions later.
> >PatchingError: .patches/AmberTools18_Unapplied_Patches/update.3 failed to
> >apply. No changes made from this patch
> >Automatic patching failed! Check the errors before re-configuring
> Are you sure that no changes have been made to any of the source code
> files? I'd recommend starting from a fresh installation from the
> original tar files. Always accept downloading the patches.
> Hundreds of users have updated their Amber files using update_amber, so
> there is a very high likelihood that something modified the files before
> the update_amber script was called.
> ...good luck...dac

Sundar Thangapandian
AMBER mailing list
Received on Sat Dec 22 2018 - 20:30:02 PST
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