[gmx-users] fftw3f errors despite having the right libraries in the right places installation on MAC

[maria goranovic]

thank you, Mark. I will try to restart from scratch


On Fri, Dec 28, 2012 at 1:10 AM, Mark Abraham <mark.j.abraham at gmail.com>wrote:

> Standard procedure is to do
>
> ./configure
> make
> sudo make install
>
> or
>
> ./configure --prefix=/somewhere/you/can/write/to
> make
> make install
>
> I suggest you use sudo to get rid of your progress to date and start again.
> Using sudo anywhere else is a recipe for trouble.
>
> Mark
>
> On Thu, Dec 27, 2012 at 3:41 PM, maria goranovic
> <mariagoranovic at gmail.com>wrote:
>
> > I will try to fix this. Thank you.
> >
> > Now, the problem I have is that the executables all belong to root, and
> as
> > a user, I am unable to execute them. How to fix this little one?
> >
> > Maria
> >
> > On Thu, Dec 27, 2012 at 3:36 PM, Mark Abraham <mark.j.abraham at gmail.com
> > >wrote:
> >
> > > sudo should not be necessary for looking in those directories. Whoever
> > set
> > > them up has not set up the permissions on them properly. Fix the
> problem,
> > > not the symptoms - you do not want to have to configure software as
> root,
> > > or you are trusting every author of that software not to trash your
> > system
> > > accidentally.
> > >
> > > On Thu, Dec 27, 2012 at 3:31 PM, maria goranovic
> > > <mariagoranovic at gmail.com>wrote:
> > >
> > > > turned out to be a sudo problem. without sudo, the compiler could not
> > > look
> > > > into the root directories. sorry for spamming :(
> > > >
> > > > On Thu, Dec 27, 2012 at 2:25 PM, maria goranovic
> > > > <mariagoranovic at gmail.com>wrote:
> > > >
> > > > > Yes, I can see them in printenv
> > > > >
> > > > > does this have anything to do with single or double precision?
> > > > >
> > > > >
> > > > > On Thu, Dec 27, 2012 at 1:38 PM, Mark Abraham <
> > > mark.j.abraham at gmail.com
> > > > >wrote:
> > > > >
> > > > >> Are those variables actully showing up in your environment?
> > > > >>
> > > > >> On Thu, Dec 27, 2012 at 11:31 AM, maria goranovic
> > > > >> <mariagoranovic at gmail.com>wrote:
> > > > >>
> > > > >> > Dear All
> > > > >> >
> > > > >> > I am trying to install 4.5.5 on my mac. I have installed fftw3
> > with
> > > > >> > --enable-float, and have used the CPPFLAGS and LDFLAGS options
> in
> > my
> > > > >> > .bashrc file. GROMACS still complains that "configure: error:
> > Cannot
> > > > >> find
> > > > >> > fftw3f library".
> > > > >> >
> > > > >> > Why is it not able to find the libraries?
> > > > >> >
> > > > >> > Here are the specific details:
> > > > >> >
> > > > >> > content of .bashrc:
> > > > >> >
> > > > >> > export CPPFLAGS="-I/usr/local/include"
> > > > >> > export LDFLAGS="-L/usr/local/lib"
> > > > >> >
> > > > >> > % ls /usr/local/lib/*fft*
> > > > >> > /usr/local/lib/libfftw3f.a /usr/local/lib/libfftw3f.la
> > > > >> >
> > > > >> > % ls /usr/local/include/*fft*
> > > > >> > /usr/local/include/fftw3.f /usr/local/include/fftw3.f03
> > > > >> > /usr/local/include/fftw3.h /usr/local/include/fftw3l.f03
> > > > >> > /usr/local/include/fftw3q.f03
> > > > >> >
> > > > >> > Any ideas what might be going wrong?
> > > > >> >
> > > > >> > Thank you
> > > > >> >
> > > > >> >
> > > > >> > --
> > > > >> > Maria G.
> > > > >> > Technical University of Denmark
> > > > >> > Copenhagen
> > > > >> > --
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> > > > >
> > > > >
> > > > > --
> > > > > Maria G.
> > > > > Technical University of Denmark
> > > > > Copenhagen
> > > > >
> > > >
> > > >
> > > >
> > > > --
> > > > Maria G.
> > > > Technical University of Denmark
> > > > Copenhagen
> > > > --
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> >
> > --
> > Maria G.
> > Technical University of Denmark
> > Copenhagen
> > --
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-- 
Maria G.
Technical University of Denmark
Copenhagen