Re: [AMBER] Problems with tleap

From: Pegado Luis <>
Date: Tue, 8 Mar 2011 11:04:34 +0100

In the end I managed to get it working.
I followed exactly the procedure in the very nice:

I am using Ubuntu with gnu, just for the records. Don't really know what in the
above message made it work. Guess it was the bug fixes.
Anyway, thank you very much for the help.
I had tried to find something like the above message but without success, and without you
pinpointing it in May last year would never have managed.
All the best,


-----Original Message-----
From: case []
Sent: Mon 3/7/2011 7:56 PM
To: AMBER Mailing List
Subject: Re: [AMBER] Problems with tleap
On Mon, Mar 07, 2011, Pegado Luis wrote:

> loadOff all_nucleic94.lib
> Loading library: /usr/local/amber11/dat/leap/lib/all_nucleic94.lib
> Segmentation fault
> I don't know if this is related with the errors I get when doing make
> test after installing AmberTools (log below, sorry
> for the length).

Yes: your tleap installation failed the test suite (as did *many* other parts
of AmberTools):

> loadpdb and saveamberparm: 94 ff..
> ./Run.tleap: Program error in leap
> make[1]: *** [test.leap] Error 1

> Finished test suite for AmberTools at Mon Mar 7 16:11:27 CET 2011.
> make[1]: Target `test.serial' not remade because of errors.
> make[1]: Leaving directory `/usr/local/amber11/AmberTools/test'
> 276 file comparisons passed
> 4 file comparisons failed
> 64 tests experienced errors

This is really a bad summary. What operating system and compiler are you
using? There was a report of exactly this error back in May, 2010 (check the
mailing list archives). I can't quite see what the final resolution (if any)
was....I have a vague recollection of blaming it on the compiler.


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Received on Tue Mar 08 2011 - 02:30:03 PST
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