Re: [gmx-users] make error "Makefile:347: recipe for target `all-recursive' failed" for Gromacs-4.5.5

Mark Abraham Thu, 05 Jan 2012 18:12:31 -0800

On 5/01/2012 3:37 AM, Rashek Kazi wrote:

Dear Mark (and all),
Yes the issue for me turned out to be the version of FFTW I was using.The installation instructions must be different for the most recentFFTW-3.3 build but I lack the programming knowledge to know how tomake this work.

I rather suspect there is no significant difference in how to build FFTW3.3 or 3.2 on any platform.

In summary: I was unable to install Gromacs-4.5.5 using FFTW-3.3 so Idowngraded back to FFTW-3.2.2 and everything installed smoothly on Cygwin.
Thanks for all the help, I will try and contribute this information tobe put up on the Gromacs site/wiki.

Thanks for the thought, but I'd be amazed if your observations wereconsistent with an actual FFTW-on-Cygwin issue rather than someinconsistency in how your build processes were working. Occam's razorapplied to new users...


Mark

On Tue, Jan 3, 2012 at 5:53 PM, Mark Abraham <mark.abra...@anu.edu.au<mailto:mark.abra...@anu.edu.au>> wrote:


    On 4/01/2012 5:04 AM, Rashek Kazi wrote:

    Hi Mark (and all)

    Thanks for the response. I ran ./configure --disable-threads this
    time. ./configure went fine but again upon doing Make I have
    received a new error:

    Creating library file: .libs/libmd.dll.a
    .libs/fft5d.o:fft5d.c:(.text+0x140f): undefined reference to

`_fftwf_plan_guru_dft'

    .libs/fft5d.o:fft5d.c:(.text+0x18d1): undefined reference to

`_fftwf_plan_guru_dft_r2c'

    .libs/fft5d.o:fft5d.c:(.text+0x194b): undefined reference to

`_fftwf_plan_guru_dft_c2r'

    .libs/fft5d.o:fft5d.c:(.text+0x1aef): undefined reference to
    `_fftwf_execute'
    .libs/fft5d.o:fft5d.c:(.text+0x2133): undefined reference to
    `_fftwf_execute'
    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x4a): undefined

reference to `_fftwf_malloc'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x67): undefined

reference to `_fftwf_malloc'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x84): undefined

reference to `_fftwf_malloc'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0xf4): undefined

reference to `_fftwf_plan_many_dft'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x14e): undefined

reference to `_fftwf_plan_many_dft'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x1a5): undefined

reference to `_fftwf_plan_many_dft'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x1fc): undefined

reference to `_fftwf_plan_many_dft'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x253): undefined

reference to `_fftwf_plan_many_dft'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2aa): more

undefined references to `_fftwf_plan_many_dft' follow

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3b1): undefined

reference to `_fftwf_free'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3bd): undefined

reference to `_fftwf_free'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3e7): undefined

reference to `_fftwf_free'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3ef): undefined

reference to `_fftwf_free'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x461): undefined

reference to `_fftwf_destroy_plan'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x476): undefined

reference to `_fftwf_destroy_plan'


    this continues for a long time and then I get the error at the
    bottom:

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2be1): undefined

reference to `_fftwf_destroy_plan'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2bf7): more

undefined referencesto `_fftwf_destroy_plan' follow

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2c37): undefined

reference to `_fftwf_free'

    .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2d17): undefined

reference to `_fftwf_free'

    collect2: ld returned 1 exit status
    Makefile:387: recipe for target `libmd.la <http://libmd.la>' failed
    make[3]: *** [libmd.la <http://libmd.la>] Error 1
    make[3]: Leaving directory `/home/MPrieto/gromacs-4.5.5/src/mdlib'
    Makefile:302: recipe for target `all-recursive' failed
    make[2]: *** [all-recursive] Error 1
    make[2]: Leaving directory `/home/MPrieto/gromacs-4.5.5/src'
    Makefile:238: recipe for target `all' failed
    make[1]: *** [all] Error 2
    make[1]: Leaving directory `/home/MPrieto/gromacs-4.5.5/src'
    Makefile:347: recipe for target `all-recursive' failed
    make: *** [all-recursive] Error 1

    looks like a different set of errors here. Do you think it might
    have to do with using FFTW-3.3?


    Yes. Configure thought it found FFTW3, but now you can't link to
    it. See the general installation instructions for the right kind
    of approach.

    Mark


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--
Rashek Kazi
GS 2
MSTP Candidate

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Re: [gmx-users] make error "Makefile:347: recipe for target `all-recursive' failed" for Gromacs-4.5.5

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