Re: amber-developers: second draft release for AmberTools1.1

From: Wei Zhang <>
Date: Fri, 27 Jun 2008 13:56:57 -0500

Hi Dave, I do not think m32 is needed for gleap.

Hi Volodymyr, would you please send me the compiling errors caused by

Thank you!



On Jun 27, 2008, at 1:49 PM, David A. Case wrote:

> On Thu, Jun 26, 2008, Volodymyr Babin wrote:
>> On AIX (IBM Power 5):
>> a) we do not have xlc; gcc 3.3.2 that they put there does not support
>> '-m32' flag so I had to remove this from configure_at
> Does anyone know if "-m32" is ever needed? (I.e. won't a correctly
> configured
> gcc (hah!) automatically compile for the local architecture?
> Volodymyr: what does "uname -m" return on the IBM machine? Can we
> at least
> special-case out the -m32 flag?
>> c) nab.c:8:23: sys/fcntl.h: No such file or directory; changed to
>> #include <fcntl.h> (man page says <fcntl.h>, not <sys/fcntl.h>)
>> (fixed in amber11 cvs)
> As far as I can tell, nab.c does not actually need <fcntl.h>, which
> I don't
> think is part of the ISO standard. But I'm reluctant to change
> this, since
> it hasn't caused problems (except for the non-standard location,
> fixed above.)
>> d) nmode.c: In function `lnorm':
>> nmode.c:1172: error: `__I' undeclared (first use in this function)
>> nmode.c:1172: error: (Each undeclared identifier is reported only
>> once
>> nmode.c:1172: error: for each function it appears in.)
>> ... replaced <complex.h> by "complex.h" - it worked for me
>> (did not commit since this is probably a local misconfiguration)
> Yannick: can we get rid of all dependence on complex.h!?!
>> g) could not compile sleap even with GNU make because of boost/
>> pthreads
>> errors (most probably unused by sleap; did not look there)
> Can you send Wei ( some of the errors? Or maybe
> someone can
> arrange for Wei to get access to an AIX machine. It's not a show-
> stopper now
> to not have IBM Power 5 support, but in the longer term, this would
> be nice.
> Thanks to Volodymyr for carrying out these tests.
> ...regards...dave
Received on Sun Jun 29 2008 - 06:07:50 PDT
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