[gmx-users] make error "Makefile:347: recipe for target `all-recursive' failed" for Gromacs-4.5.5
Mark Abraham
Mark.Abraham at anu.edu.au
Fri Jan 6 03:11:44 CET 2012
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 recent
> FFTW-3.3 build but I lack the programming knowledge to know how to
> make this work.
I rather suspect there is no significant difference in how to build FFTW
3.3 or 3.2 on any platform.
>
> In summary: I was unable to install Gromacs-4.5.5 using FFTW-3.3 so I
> downgraded back to FFTW-3.2.2 and everything installed smoothly on Cygwin.
>
> Thanks for all the help, I will try and contribute this information to
> be put up on the Gromacs site/wiki.
Thanks for the thought, but I'd be amazed if your observations were
consistent with an actual FFTW-on-Cygwin issue rather than some
inconsistency in how your build processes were working. Occam's razor
applied to new users...
Mark
>
> On Tue, Jan 3, 2012 at 5:53 PM, Mark Abraham <Mark.Abraham at anu.edu.au
> <mailto:Mark.Abraham at 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_d
>> ft'
>> .libs/fft5d.o:fft5d.c:(.text+0x18d1): undefined reference to
>> `_fftwf_plan_guru_d
>> ft_r2c'
>> .libs/fft5d.o:fft5d.c:(.text+0x194b): undefined reference to
>> `_fftwf_plan_guru_d
>> ft_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 `_fft
>> wf_malloc'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x67): undefined
>> reference to `_fft
>> wf_malloc'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x84): undefined
>> reference to `_fft
>> wf_malloc'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0xf4): undefined
>> reference to `_fft
>> wf_plan_many_dft'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x14e): undefined
>> reference to `_ff
>> twf_plan_many_dft'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x1a5): undefined
>> reference to `_ff
>> twf_plan_many_dft'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x1fc): undefined
>> reference to `_ff
>> twf_plan_many_dft'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x253): undefined
>> reference to `_ff
>> twf_plan_many_dft'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2aa): more
>> undefined references t
>> o `_fftwf_plan_many_dft' follow
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3b1): undefined
>> reference to `_ff
>> twf_free'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3bd): undefined
>> reference to `_ff
>> twf_free'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3e7): undefined
>> reference to `_ff
>> twf_free'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x3ef): undefined
>> reference to `_ff
>> twf_free'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x461): undefined
>> reference to `_ff
>> twf_destroy_plan'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x476): undefined
>> reference to `_ff
>> twf_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 `_f
>> ftwf_destroy_plan'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2bf7): more
>> undefined references
>> to `_fftwf_destroy_plan' follow
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2c37): undefined
>> reference to `_f
>> ftwf_free'
>> .libs/gmx_fft_fftw3.o:gmx_fft_fftw3.c:(.text+0x2d17): undefined
>> reference to `_f
>> ftwf_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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