AMBER Archive (2006)

Subject: RE: AMBER: compilation of amber8 on Xeon x86_64 x86_64 x86_64 GNU/Linux. .

From: hayden (s0237717_at_sms.ed.ac.uk)
Date: Mon Jul 03 2006 - 19:28:37 CDT

Hi ThuZar

 

For leap you have to force a 32-bit compile in order for it to be error free
(but first make sure you have the right compiler!!!), you will get pointer
errors if you try compiling in 64bit mode.I'm at home now but will send you
the appropriate makefile tomorrow - if you can't wait for that, it's lurking
somewhere in a previous mail listing, maybe try the mighty google!!

 

Best

 

hayden

 

  _____

From: owner-amber_at_scripps.edu [mailto:owner-amber_at_scripps.edu] On Behalf Of
Lwin, ThuZar
Sent: 03 July 2006 20:03
To: amber_at_scripps.edu
Subject: RE: AMBER: compilation of amber8 on Xeon x86_64 x86_64 x86_64
GNU/Linux. .

 

HI,

   Please download l_fce_pc_8.1.029.tar.gz or later version from intel
website. Please note that you need "fce" not "fc".

 

I hope this will solve the problem.

 

ThuZar

  _____

From: owner-amber_at_scripps.edu [mailto:owner-amber_at_scripps.edu] On Behalf Of
frustrated modeller
Sent: Monday, July 03, 2006 12:51 PM
To: amber_at_scripps.edu
Subject: AMBER: compilation of amber8 on Xeon x86_64 x86_64 x86_64
GNU/Linux. .

 

Dear Amber users,

I have been trying to compile amber8 on a 64bit machine with Xeon
processors. I have tried with both gcc and icc as the C compiler. I have
got the most built with configure -p4 -static ifort. however it does not
build Xleap. When i go to the test directory and do make test most of the
tests fail with a segmentation fault. I comment out the bad test from the
Makefile and do make test again and I can tell you that the only ones that
do not give errors are Run.nonper, Run.nonper.belly, Run.nonper.belly.mask,
Run.cap (possible failure), Run.nonper.nocut, Run.pol_wat, Run.ubiquitin,
Run.dna_pol, and Run.pdpgb (possible failure). The others all fail with a
SIGSEGV error with the exceptions of Run.dmp, Run.adenine and Run.nonper.min
(and the nmode tests) which just say Segmentation fault (core dumped), and
Run.tgtmd (in all directories), and Run.trajene which say if: Expression
Syntax. I think there were many warnings in the output when i did make
serial, so I guess its just not compiling properly. How can i get it to
work please, i have been trying to compile this for over a week now.

Thank you in advance for your consideration,

Frustrated

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