Re: [Fink-users] FFTW double precision library files not found in /sw/lib

[monipol <mo...@gm...>]

(kicking back to the list)

I don't know why but you've got x86_64 (64-bit) libraries on your 32- 
bit Fink installation, Christoph. It could be the case that atlas'  
build process somehow overwrites Fink's gcc -arch i386. Can someone on  
10.6/i386 check whether atlas builds with the correct target  
architecture?

In the meantime (later today) I'll try to make sextractor build with  
vecLib instead of atlas.

On 20/10/2009, at 04:35, Christoph Deil wrote:
> Sorry, I did not know that. This is the first time I post to such a  
> help mailing list.
>
> Here is the output from the commands:
>
> christoph-deils-macbook:~ deil$ fink -V | head -n 2
> Package manager version: 0.29.10
> Distribution version: selfupdate-rsync Mon Oct 19 20:22:48 2009,  
> 10.6, i386
> christoph-deils-macbook:~ deil$ cat /sw/var/lib/fink/path- 
> prefix-10.6/compiler_wrapper
> #!/bin/sh
> exec /usr/bin/${0##*/} -arch i386 "$@"
> christoph-deils-macbook:~ deil$ lipo -info /sw/lib/liblapack.dylib
> Non-fat file: /sw/lib/liblapack.dylib is architecture: x86_64
> christoph-deils-macbook:~ deil$ lipo -info /sw/lib/libcblas.dylib
> Non-fat file: /sw/lib/libcblas.dylib is architecture: x86_64
> christoph-deils-macbook:~ deil$ lipo -info /sw/lib/libatlas.dylib
> Non-fat file: /sw/lib/libatlas.dylib is architecture: x86_64
>
>
> On Oct 19, 2009, at 11:18 PM, monipol wrote:
>
>> Please don't send attachments to the list, Christoph. They end up  
>> getting lost because the archives do not show attachments. :)
>>
>> At any rate, I'm puzzled. Your config.log shows:
>>
>> $ ./configure --prefix=/sw --prefix=/sw --with-fftw-incdir=/sw/ 
>> include --with-fftw=/sw/lib --with-atlas-incdir=/sw/include --with- 
>> atlas=/sw/lib --mandir=/sw/ share/man --disable-dependency-tracking
>> (...)
>> configure:26514: cc -o conftest  -O3 -g -funroll-loops -fomit-frame- 
>> pointer -Wall  -D_REENTRANT -I/sw/include   conftest.c -llapack -L/ 
>> sw/lib -lcblas -latlas -lm  >&5
>> ld: warning: in /sw/lib/liblapack.dylib, file is not of required  
>> architecture
>> ld: warning: in /sw/lib/libcblas.dylib, file is not of required  
>> architecture
>> ld: warning: in /sw/lib/libatlas.dylib, file is not of required  
>> architecture
>>
>> Also,
>>
>> configure:26739: cc -o conftest  -O3 -g -funroll-loops -fomit-frame- 
>> pointer -Wall  -D_REENTRANT -I/sw/include   conftest.c -lcblas -L/ 
>> sw/lib/lib -latlas -lm  >&5
>> configure:26745: $? = 0
>> configure:26763: result: yes
>> configure:26899: error: CBLAS/LAPack library files not found in /sw/ 
>> lib! Exiting.
>>
>> Notice that -L/sw/lib/lib. That's obviously not the correct  
>> directory. I guess it wasn't able to use the original libraries  
>> under /sw/lib because of that apparent architecture mismatch and  
>> then it tried to add another /lib subdirectory.
>>
>> Please send me the output of the following five commands:
>>
>> fink -V | head -n 2
>> cat /sw/var/lib/fink/path-prefix-10.6/compiler_wrapper
>> lipo -info /sw/lib/liblapack.dylib
>> lipo -info /sw/lib/libcblas.dylib
>> lipo -info /sw/lib/libatlas.dylib
>>
>>
>> On 20/10/2009, at 03:56, Christoph Deil wrote:
>>
>>> The config log is attached.
>>>
>>>
>>> <config.log>
>>>
>>> On Oct 19, 2009, at 9:18 PM, monipol wrote:
>>>
>>>> Could you please send me your config.log? It should be located  
>>>> under
>>>>
>>>> /sw/src/fink.build/sextractor-2.8.6-1/sextractor-2.8.6
>>>>
>>>> It built for me without any glitches on Intel OS 10.5.8, 32-bit  
>>>> Fink.
>>>>
>>>> On 20/10/2009, at 01:28, Christoph Deil wrote:
>>>>
>>>>> Thanks for adding it as a package.
>>>>>
>>>>> Trying to install it as a fink package gives the following error  
>>>>> on my machine.
>>>>> Any advice?
>>>>>
>>>>> checking for cc_r... cc
>>>>> checking /sw/include/fftw3.h usability... yes
>>>>> checking /sw/include/fftw3.h presence... yes
>>>>> checking for /sw/include/fftw3.h... yes
>>>>> checking for fftw_execute in -lfftw3... yes
>>>>> checking for fftw_init_threads in -lfftw3_threads... yes
>>>>> checking /sw/include/cblas.h usability... yes
>>>>> checking /sw/include/cblas.h presence... yes
>>>>> checking for /sw/include/cblas.h... yes
>>>>> checking /sw/include/clapack.h usability... yes
>>>>> checking /sw/include/clapack.h presence... yes
>>>>> checking for /sw/include/clapack.h... yes
>>>>> checking for clapack_dpotrf in -llapack... no
>>>>> checking for cblas_dgemm in -lcblas... no
>>>>> checking for clapack_dpotrf in -llapack... no
>>>>> checking for cblas_dgemm in -lcblas... yes
>>>>> configure: error: CBLAS/LAPack library files not found in /sw/ 
>>>>> lib! Exiting.
>>>>> ### execution of ./configure failed, exit code 1
>>>>> Removing runtime build-lock...
>>>>> Removing build-lock package...
>>>>> /sw/bin/dpkg-lockwait -r fink-buildlock-sextractor-2.8.6-1
>>>>> (Reading database ... 69009 files and directories currently  
>>>>> installed.)
>>>>> Removing fink-buildlock-sextractor-2.8.6-1 ...
>>>>> Failed: phase compiling: sextractor-2.8.6-1 failed
>>>>>
>>>>> I think the cblas and lapack libraries are contained in atlas,  
>>>>> which I have installed successfully:
>>>>> i   atlas                       3.9.11-1              Portably  
>>>>> optimal linear algebra software
>>>>> i   atlas-shlibs                3.9.11-1              Portably  
>>>>> optimal linear algebra software