Re: [AMBER] Amber16 installation: Segmentation fault (core dumped) error when execute antechamber

From: David A Case <>
Date: Mon, 22 Jan 2018 21:44:45 -0500

On Tue, Jan 23, 2018, Yuan Hu wrote:
> I'm trying to install Amber16 with AmberTools17 with the following command.
> ./configure --python-install local --with-python /usr/bin/python2.7 gnu
> My workstation is using Red Hat Enterprise Linux Server release 7.2 (Maipo).
> No error messages during the installation step.
> However, when I try to run antechamber, I got the following error:
> $ antechamber
> /usr/local/software/amber16/bin/antechamber: line 4: 19146 Segmentation fault (core dumped) $AMBERHOME/bin/to_be_dispatched/antechamber "$."

I'm pretty sure we have not seen this before. Some questions:

1. What is the result of typing "gcc --version"?

2. Do programs not from the antechamber directory work OK? What happens
if you type "make test" in the $AMBERHOME directory? [You can hit control-C
if all the tests appear to be need to wait for thousands of error
messages....; on the other hand, it might be that non-antehcamber tests
generally pass, and that would be good information to know.]

3. Did you source the $AMBERHOME/ file in the terminal session
that is failing?

4. Do you have older versions of amber on your machine that might somehow
be interfering?

These are pretty generic questions: maybe others on the list have specific
experience with this version of Linux.


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Received on Mon Jan 22 2018 - 19:00:03 PST
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