Re: [AMBER-Developers] Third (final?) release candidate for Amber 12

From: Jason Swails <jason.swails.gmail.com>
Date: Sun, 1 Apr 2012 22:39:42 -0400

It just died there? This test has failed for me on several machines with an allocates failed message, but I just assumed that was because of too little ram (so I'm not surprised it fails on Cygwin).

Do the tests continue after that one, though? (they always do for me, and they are supposed to as well).

All the best,
Jason

--
Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Candidate
352-392-4032
On Apr 1, 2012, at 10:23 PM, "Wu, Xiongwu (NIH/NHLBI) [E]" <wuxw.nhlbi.nih.gov> wrote:
> Here is another similar error related to "parse" at AmberTools/src/semantics:
> 
> .........
> make[3]: Entering directory `/cygdrive/c/Users/Xiongwu/programs/home/Xiongwu/ambers/amber12/AmberTools/src/semantics'
> gcc -DDATDIR='"/cygdrive/c/Users/Xiongwu/programs/home/Xiongwu/ambers/amber12/dat"' -DCYGWIN -DBINTRAJ     \
>          -o parse.exe parse.c
> ./parse *.rules
> /bin/sh: ./parse: cannot execute binary file
> Makefile:46: recipe for target `checkexpr.c' failed
> make[3]: *** [checkexpr.c] Error 126
> ......
> 
> This error can also be fixed by running:
> ./parse.exe *.rules
> 
> Other than this the installation can be completed with CYGWIN.
> 
> A make test.serials stopped at :
> 
> ==============================================================
> CALCULATING TEST: 02_MMPBSA_Stability
>  ./Run.mmpbsa.test:  Program error
> Makefile:890: recipe for target `test.mm_pbsa' failed
> make: *** [test.mm_pbsa] Error 1
> 
> 
> 
> ________________________________________
> From: case [case.biomaps.rutgers.edu]
> Sent: Sunday, April 01, 2012 7:42 PM
> To: AMBER Developers Mailing List
> Subject: Re: [AMBER-Developers] Third (final?) release candidate for Amber 12
> 
> On Sun, Apr 01, 2012, Wu, Xiongwu (NIH/NHLBI) [E] wrote:
> 
>> [WXW%] I used windows 7 for this test installation
>> 
>>> Does the following work "./utilMakeHelp.exe helptext.text helptext.c" ?
>>> 
>> 
>> [WXW%] Yes, this works.  Looks like the installation uses "utilMakeHelp" coming with the release to do the compilation.
> 
>> 
>> Should we change the configure file?
> 
> I'm not sure how utilMakeHelp made it into the release...it is not supposed
> to be there, and I don't think it has ever been in any other tarball.  I've
> updated the Makefile to help prevent this from happening again.
> 
> ...dac
> 
> 
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Received on Sun Apr 01 2012 - 20:00:04 PDT