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-- Jason M. Swails Quantum Theory Project, University of Florida Ph.D. Candidate 352-392-4032 On May 25, 2012, at 1:48 AM, Julio Dominguez <acheron24.hotmail.com> wrote: > Dear Philip Winter > > Maybe the MacBookPro has a previous Xcode version installed? Quite a few things changed with the new Xcode 4.3.2. Check with xcode-select -version which one is really running. For 4.3.2 I get 2309 and down to 895 for 3.6 > > My compilation went fine using intel compilers, xcode 3.6 through 4.3.2. > > Best regards. > > >> Message: 1 >> Date: Wed, 23 May 2012 14:05:27 -0600 >> From: Philip Winter <pwinter.ualberta.ca> >> Subject: Re: [AMBER] problem installing AMBER12 on MacOSX >> To: amber.ambermd.org >> Message-ID: >> <CA+z7t8QD8Hi=mrZXtm+xkpJdazx3YCV811WFgz=cukwbLUay7A.mail.gmail.com> >> Content-Type: text/plain; charset=UTF-8 >> >> Was any solution to this error found? We get the same error that Robert >> Oswald reported when compiling bintraj.F90 during the Amber 12 build >> process. >> >> Here was the system: New Mac Pro with Mac OS X 10.7.4 installed. Xcode >> 4.3.2 was installed. We tried compiling with the gcc/gfortran compilers >> from both the MacPorts packages gcc44 and also gcc46. All patches up to >> bugfix 7 for AmberTools and for Amber were applied. >> >> Compilation of Amber was successful with the -nobintraj configure option; >> but unfortunately we need the bintraj support. >> >> Strangely, I was able to compile successfully (no errors) on a MacBook Pro >> (2010 model) with the same versions of Mac OS, Xcode, and the MacPorts >> compiler packages listed above. >> >> Regards, >> Philip >> >> -- >> Philip Winter >> Research Assistant, Experimental Oncology, University of Alberta >> Email: pwinter.ualberta.ca, Philip.Winter.albertahealthservices.ca >> Phone: (office) 780-643-4436, (cell) 780-233-7568 >> >> From: Jason Swails >> <jason.swails.gmail.com<jason.swails.gmail.com?Subject=Re%3A%20%5BAMBER%5D%20problem%20installing%20AMBER12%20on%20MacOSX>> >>> >>> Date: Mon, 14 May 2012 08:38:25 -0700 >>> >>> Just to check, then, what does >>> >>> gcc --version >>> gfortran --version >>> >>> return? >>> >>> On Mon, May 14, 2012 at 8:23 AM, Robert Oswald <robert.oswald.gmail.com>wrote: >>> >>> >>> *> Jason, * >>> *> As far as I know I am using the exact compilers in the example on the >>> wiki: * >>> *> * >>> *> port select --list gcc * >>> *> Available versions for gcc: * >>> *> gcc42 * >>> *> llvm-gcc42 * >>> *> mp-gcc44 (active) * >>> *> none * >>> *> * >>> *> I have applied the bugfix to AmberTools as you suggested. * >>> *> Robert * >>> *> * >>> *> On Mon, May 14, 2012 at 11:11 AM, Jason Swails <jason.swails.gmail.com >>> * >>> *> >wrote: * >>> *> * >>> *> > What version of the GNU compilers are you using? * >>> *> > * >>> *> > My suggestion is to use the exact compilers used in the example on >>> the * >>> *> wiki * >>> *> > you were following. * >>> *> > * >>> *> > Also, the real8 problem should have been fixed by a bugfix to >>> AmberTools. * >>> *> > Please check that you have all bugfixes applied. (Since you applied >>> one * >>> *> by * >>> *> > hand, use the command: * >>> *> > * >>> *> > ./patch_amber.py --update --ignore-fails * >>> *> > ) * >>> *> > * >>> *> > HTH, * >>> *> > Jason * >>> *> > * >>> *> > On Mon, May 14, 2012 at 8:06 AM, Robert Oswald < >>> robert.oswald.gmail.com * >>> *> > >wrote: * >>> *> > * >>> *> > > I am trying to install AmberTools12 and Amber12 on Mac OS X >>> (10.7.3) * >>> *> > > following exactly the procedure described in: * >>> *> > > * >>> *> > > http://jswails.wikidot.com/installing-amber12-and-ambertools-12 * >>> *> > > * >>> *> > > I had no problem installing AmberTools12 alone (except for having >>> to * >>> *> fix * >>> *> > > the real8 problem in psfprm.F90). Installing with Amber 12, I have >>> run * >>> *> > into * >>> *> > > the following issue: * >>> *> > > * >>> *> > > gfortran -DBINTRAJ -c -O3 -mtune=native -ffree-form * >>> *> > > -I../../AmberTools/src/pbsa -I../../AmberTools/src/sqm * >>> *> > > -I../../AmberTools/src/rism -I../../include * >>> *> > > -I/Users/reo1/Documents/amber12/include * >>> *> > > -I/Users/reo1/Documents/amber12/include -o bintraj.o bintraj.F90 * >>> *> > > bintraj.F90:119.27: * >>> *> > > * >>> *> > > call checkNCerror(nf90_put_att(vel_ncid, VelocVarID, * >>> *> > > "scale_factor", & * >>> *> > > 1 * >>> *> > > Error: Generic function 'nf90_put_att' at (1) is not consistent >>> with a * >>> *> > > specific intrinsic interface * >>> *> > > make[2]: *** [bintraj.o] Error 1 * >>> *> > > make[1]: *** [serial] Error 2 * >>> *> > > make: *** [install] Error 2 * >>> *> > > * >>> *> > > I'd be grateful for any help in resolving this problem. * >>> *> > > Thanks, * >>> *> > > Robert Oswald * >>> *> > > * >>> *> > > * >>> *> > > -- * >>> *> > > ******************************************** * >>> *> > > Robert Oswald * >>> *> > > Department of Molecular Medicine * >>> *> > > Cornell University * >>> *> > > Ithaca, NY 14850 * >>> *> > > _______________________________________________ * >>> *> > > AMBER mailing list * >>> *> > > AMBER.ambermd.org * >>> *> > > http://lists.ambermd.org/mailman/listinfo/amber * >>> *> > > * >>> *> > * >>> *> > * >>> *> > * >>> *> > -- * >>> *> > Jason M. Swails * >>> *> > Quantum Theory Project, * >>> *> > University of Florida * >>> *> > Ph.D. Candidate * >>> *> > 352-392-4032 * >>> *> > _______________________________________________ * >>> *> > AMBER mailing list * >>> *> > AMBER.ambermd.org * >>> *> > http://lists.ambermd.org/mailman/listinfo/amber * >>> *> > * >>> *> * >>> *> * >>> *> * >>> *> -- * >>> *> ******************************************** * >>> *> Robert Oswald * >>> *> Department of Molecular Medicine * >>> *> Cornell University * >>> *> Ithaca, NY 14850 * >>> *> _______________________________________________ * >>> *> AMBER mailing list * >>> *> AMBER.ambermd.org * >>> *> http://lists.ambermd.org/mailman/listinfo/amber * >>> *> * >>> >>> >>> >>> -- >>> Jason M. Swails >>> Quantum Theory Project, >>> University of Florida >>> Ph.D. Candidate >>> 352-392-4032 >>> _______________________________________________ >>> AMBER mailing listAMBER.ambermd.orghttp://lists.ambermd.org/mailman/listinfo/amber >>> >>> Received on Mon May 14 2012 - 09:00:04 PDT >>> > > > _______________________________________________ > AMBER mailing list > AMBER.ambermd.org > http://lists.ambermd.org/mailman/listinfo/amber _______________________________________________ AMBER mailing list AMBER.ambermd.org http://lists.ambermd.org/mailman/listinfo/amberReceived on Mon May 28 2012 - 16:00:03 PDT