Re: ltfat 1.4.2 released

[Lukas Reichlin]

On 18.09.2013, at 18:17, Alexander Hansen <address@hidden> wrote:

> On 9/18/13 2:05 AM, Lukas Reichlin wrote:
>> On 18.09.2013, at 10:57, address@hidden wrote:
>> 
>>>> On 18.09.2013, at 10:27, address@hidden wrote:
>>>> 
>>>>>> 
>>>>>> Hi,
>>>>>> 
>>>>>> The configure script couldn't find my fftw library, please find the
>>>>>> error
>>>>>> message and the octave_config_info below.
>>>>>> I'm using Mac OS X 10.8.5 with Octave 3.6.4 installed by the Fink
>>>>>> package
>>>>>> manager.
>>>>>> 
>>>>> I have not tested the package on MacOS, so I am not surprised. Could you
>>>>> try to install it from here, and tell me if it works?
>>>>> 
>>>>> http://ltfat.sourceforge.net/devel/ltfat-1.4.2.tar.gz
>>>>> 
>>>>> The package is identical, except that I deleted the check for the
>>>>> header.
>>>>> The point is, if Octave is installed then so is fftw, so there is no
>>>>> need
>>>>> to check for the library anyway.
>>>>> 
>>>>> Cheers,
>>>>> Peter.
>>>>> 
>>>> 
>>>> 
>>>> Hi Peter
>>>> 
>>>> Please find the error message below.
>>>> 
>>>> Regards,
>>>> Lukas
>>>> 
>>>> 
>>>> octave:1> pkg install ltfat*
>>> 
>>> 
>>> <snip>
>>> 
>>> 
>>>> In file included from ./ltfat_oct_template_helper.h:6:
>>>> ../src/ltfat.h:8:10: fatal error: 'cblas.h' file not found
>>>> #include "cblas.h"
>>>>         ^
>>> 
>>> Please try to install the package from the same link again:
>>> 
>>> http://ltfat.sourceforge.net/devel/ltfat-1.4.2.tar.gz
>>> 
>>> I updated the Makefile so it should be able to find cblas.h
>>> 
>>> Cheers,
>>> Peter.
>> 
>> Hmm, I CC'ed Alexander Hansen, the Fink maintainer. Maybe he has some tips?
>> 
>> octave:1> pkg install ltfat*
>> ar: creating archive libltfat.a
>> /usr/bin/ranlib: file: libltfat.a(dspread.o) has no symbols
>> /usr/bin/ranlib: file: libltfat.a(dgabdual.o) has no symbols
>> /usr/bin/ranlib: file: libltfat.a(dgabtight.o) has no symbols
>> ranlib: file: libltfat.a(dspread.o) has no symbols
>> ranlib: file: libltfat.a(dgabdual.o) has no symbols
>> ranlib: file: libltfat.a(dgabtight.o) has no symbols
>> ar: creating archive libltfatf.a
>> /usr/bin/ranlib: file: libltfatf.a(sspread.o) has no symbols
>> /usr/bin/ranlib: file: libltfatf.a(sgabdual.o) has no symbols
>> /usr/bin/ranlib: file: libltfatf.a(sgabtight.o) has no symbols
>> ranlib: file: libltfatf.a(sspread.o) has no symbols
>> ranlib: file: libltfatf.a(sgabdual.o) has no symbols
>> ranlib: file: libltfatf.a(sgabtight.o) has no symbols
>> In file included from comp_atrousfilterbank_td.cc:9:
>> In file included from ./ltfat_oct_template_helper.h:4:
>> In file included from /sw/include/octave-3.6.4/octave/../octave/oct.h:36:
>> In file included from /sw/include/octave-3.6.4/octave/defun-dld.h:30:
>> In file included from /sw/include/octave-3.6.4/octave/defun-int.h:28:
>> In file included from /sw/include/octave-3.6.4/octave/ov-builtin.h:28:
>> In file included from /sw/include/octave-3.6.4/octave/ov-fcn.h:35:
>> In file included from /sw/include/octave-3.6.4/octave/symtab.h:34:
>> /sw/include/octave-3.6.4/octave/regexp.h:90:3: warning: 'opts' defined as a 
>> struct here but previously declared as a
>>       class [-Wmismatched-tags]
>>   struct opts
>>   ^
>> /sw/include/octave-3.6.4/octave/regexp.h:40:3: note: did you mean struct 
>> here?
>>   class opts;
>>   ^~~~~
>>   struct
>> 1 warning generated.
>> Undefined symbols for architecture x86_64:
>>   "_cgemm_", referenced from:
>>       _ltfat_gemm_s in libltfatf.a(sltfat_blaslapack.o)
>>   "_cgesvd_", referenced from:
>>       _ltfat_gesvd_s in libltfatf.a(sltfat_blaslapack.o)
>>   "_cposv_", referenced from:
>>       _ltfat_posv_s in libltfatf.a(sltfat_blaslapack.o)
>>   "_fftw_execute", referenced from:
>>       _iwfac_d in libltfat.a(diwfac.o)
>>       _iwfacreal_d in libltfat.a(diwfac.o)
>>       _iwfac_r_d in libltfat.a(diwfac.o)
>>       _wfac_d in libltfat.a(dwfac.o)
>>       _wfacreal_d in libltfat.a(dwfac.o)
>>       _wfac_r_d in libltfat.a(dwfac.o)
>>   "_fftw_free", referenced from:
>>       _ltfat_free in libltfat.a(c-safe-memalloc.o)
>>       _ltfat_realloc in libltfat.a(c-safe-memalloc.o)
>>       _ltfat_realloc_and_copy in libltfat.a(c-safe-memalloc.o)
>>   "_fftw_malloc", referenced from:
>>       _ltfat_malloc in libltfat.a(c-safe-memalloc.o)
>>       _ltfat_realloc in libltfat.a(c-safe-memalloc.o)
>>       _ltfat_calloc in libltfat.a(c-safe-memalloc.o)
>>       _ltfat_realloc_and_copy in libltfat.a(c-safe-memalloc.o)
>>   "_fftw_plan_dft_1d", referenced from:
>>       _iwfac_d in libltfat.a(diwfac.o)
>>       _iwfac_r_d in libltfat.a(diwfac.o)
>>       _wfac_d in libltfat.a(dwfac.o)
>>       _wfac_r_d in libltfat.a(dwfac.o)
>>   "_fftw_plan_dft_c2r_1d", referenced from:
>>       _iwfacreal_d in libltfat.a(diwfac.o)
>>   "_fftw_plan_dft_r2c_1d", referenced from:
>>       _wfacreal_d in libltfat.a(dwfac.o)
>>   "_fftwf_execute", referenced from:
>>       _iwfac_s in libltfatf.a(siwfac.o)
>>       _iwfacreal_s in libltfatf.a(siwfac.o)
>>       _iwfac_r_s in libltfatf.a(siwfac.o)
>>       _wfac_s in libltfatf.a(swfac.o)
>>       _wfacreal_s in libltfatf.a(swfac.o)
>>       _wfac_r_s in libltfatf.a(swfac.o)
>>   "_fftwf_plan_dft_1d", referenced from:
>>       _iwfac_s in libltfatf.a(siwfac.o)
>>       _iwfac_r_s in libltfatf.a(siwfac.o)
>>       _wfac_s in libltfatf.a(swfac.o)
>>       _wfac_r_s in libltfatf.a(swfac.o)
>>   "_fftwf_plan_dft_c2r_1d", referenced from:
>>       _iwfacreal_s in libltfatf.a(siwfac.o)
>>   "_fftwf_plan_dft_r2c_1d", referenced from:
>>       _wfacreal_s in libltfatf.a(swfac.o)
>>   "_zgemm_", referenced from:
>>       _ltfat_gemm_d in libltfat.a(dltfat_blaslapack.o)
>>   "_zgesvd_", referenced from:
>>       _ltfat_gesvd_d in libltfat.a(dltfat_blaslapack.o)
>>   "_zposv_", referenced from:
>>       _ltfat_posv_d in libltfat.a(dltfat_blaslapack.o)
>> ld: symbol(s) not found for architecture x86_64
>> clang: error: linker command failed with exit code 1 (use -v to see 
>> invocation)
>> make[1]: *** [comp_atrousfilterbank_td.oct] Error 1
>> make: *** [all] Error 2
>> 'make' returned the following error: make -f Makefile_unix
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt.c -o ddgt.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt_fac.c -o ddgt_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt_fb.c -o ddgt_fb.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt_multi.c -o ddgt_multi.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt_ola.c -o ddgt_ola.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt_shear.c -o ddgt_shear.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt_walnut.c -o ddgt_walnut.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgtreal_fac.c -o ddgtreal_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dwilt.c -o ddwilt.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c filterbank.c -o dfilterbank.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c heapint.c -o dheapint.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c idgt_fac.c -o didgt_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c idgt_fb.c -o didgt_fb.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c iwfac.c -o diwfac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c pfilt.c -o dpfilt.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c reassign.c -o dreassign.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c spread.c -o dspread.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c tfutil.c -o dtfutil.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c wfac.c -o dwfac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c windows.c -o dwindows.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c winmanip.c -o dwinmanip.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c ltfat_complexindependent.c -o dltfat_complexindependent.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c dgt_shearola.c -o ddgt_shearola.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c ltfat_blaslapack.c -o dltfat_blaslapack.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c gabdual.c -o dgabdual.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c gabtight.c -o dgabtight.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c gabdual_fac.c -o dgabdual_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_DOUBLE  
>> -c gabtight_fac.c -o dgabtight_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DCOMPILING_LTFAT 
>> -DLTFAT_DLL_NEVERUSED -DLTFAT_BACKEND_EXPORTS -DLTFAT_DOUBLE  -c 
>> c-safe-memalloc.c
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DCOMPILING_LTFAT 
>> -DLTFAT_DLL_NEVERUSED -DLTFAT_BACKEND_EXPORTS -DLTFAT_DOUBLE  -c 
>> integer_manip.c
>> ar rvu libltfat.a ddgt.o ddgt_fac.o ddgt_fb.o ddgt_multi.o ddgt_ola.o 
>> ddgt_shear.o ddgt_walnut.o ddgtreal_fac.o ddwilt.o dfilterbank.o dheapint.o 
>> didgt_fac.o didgt_fb.o diwfac.o dpfilt.o dreassign.o dspread.o dtfutil.o 
>> dwfac.o dwindows.o dwinmanip.o dltfat_complexindependent.o ddgt_shearola.o 
>> dltfat_blaslapack.o dgabdual.o dgabtight.o dgabdual_fac.o dgabtight_fac.o 
>> c-safe-memalloc.o integer_manip.o
>> a - ddgt.o
>> a - ddgt_fac.o
>> a - ddgt_fb.o
>> a - ddgt_multi.o
>> a - ddgt_ola.o
>> a - ddgt_shear.o
>> a - ddgt_walnut.o
>> a - ddgtreal_fac.o
>> a - ddwilt.o
>> a - dfilterbank.o
>> a - dheapint.o
>> a - didgt_fac.o
>> a - didgt_fb.o
>> a - diwfac.o
>> a - dpfilt.o
>> a - dreassign.o
>> a - dspread.o
>> a - dtfutil.o
>> a - dwfac.o
>> a - dwindows.o
>> a - dwinmanip.o
>> a - dltfat_complexindependent.o
>> a - ddgt_shearola.o
>> a - dltfat_blaslapack.o
>> a - dgabdual.o
>> a - dgabtight.o
>> a - dgabdual_fac.o
>> a - dgabtight_fac.o
>> a - c-safe-memalloc.o
>> a - integer_manip.o
>> ranlib libltfat.a
>> cp -f libltfat.a ../lib
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt.c -o sdgt.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt_fac.c -o sdgt_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt_fb.c -o sdgt_fb.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt_multi.c -o sdgt_multi.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt_ola.c -o sdgt_ola.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt_shear.c -o sdgt_shear.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt_walnut.c -o sdgt_walnut.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgtreal_fac.c -o sdgtreal_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dwilt.c -o sdwilt.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c filterbank.c -o sfilterbank.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c heapint.c -o sheapint.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c idgt_fac.c -o sidgt_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c idgt_fb.c -o sidgt_fb.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c iwfac.c -o siwfac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c pfilt.c -o spfilt.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c reassign.c -o sreassign.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c spread.c -o sspread.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c tfutil.c -o stfutil.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c wfac.c -o swfac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c windows.c -o swindows.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c winmanip.c -o swinmanip.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c ltfat_complexindependent.c -o sltfat_complexindependent.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c dgt_shearola.c -o sdgt_shearola.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c ltfat_blaslapack.c -o sltfat_blaslapack.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c gabdual.c -o sgabdual.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c gabtight.c -o sgabtight.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c gabdual_fac.c -o sgabdual_fac.o
>> gcc -w -O3 -fpic -std=c99 -Ithirdparty -fvisibility=hidden -DLTFAT_SINGLE  
>> -c gabtight_fac.c -o sgabtight_fac.o
>> ar rvu libltfatf.a sdgt.o sdgt_fac.o sdgt_fb.o sdgt_multi.o sdgt_ola.o 
>> sdgt_shear.o sdgt_walnut.o sdgtreal_fac.o sdwilt.o sfilterbank.o sheapint.o 
>> sidgt_fac.o sidgt_fb.o siwfac.o spfilt.o sreassign.o sspread.o stfutil.o 
>> swfac.o swindows.o swinmanip.o sltfat_complexindependent.o sdgt_shearola.o 
>> sltfat_blaslapack.o sgabdual.o sgabtight.o sgabdual_fac.o sgabtight_fac.o
>> a - sdgt.o
>> a - sdgt_fac.o
>> a - sdgt_fb.o
>> a - sdgt_multi.o
>> a - sdgt_ola.o
>> a - sdgt_shear.o
>> a - sdgt_walnut.o
>> a - sdgtreal_fac.o
>> a - sdwilt.o
>> a - sfilterbank.o
>> a - sheapint.o
>> a - sidgt_fac.o
>> a - sidgt_fb.o
>> a - siwfac.o
>> a - spfilt.o
>> a - sreassign.o
>> a - sspread.o
>> a - stfutil.o
>> a - swfac.o
>> a - swindows.o
>> a - swinmanip.o
>> a - sltfat_complexindependent.o
>> a - sdgt_shearola.o
>> a - sltfat_blaslapack.o
>> a - sgabdual.o
>> a - sgabtight.o
>> a - sgabdual_fac.o
>> a - sgabtight_fac.o
>> ranlib libltfatf.a
>> cp -f libltfatf.a ../lib
>> make -C ../oct -f Makefile_unix
>> mkoctfile -Wall -I../thirdparty -I. -I../src -I../src/thirdparty -L../lib 
>> -lltfat -lltfatf comp_atrousfilterbank_td.cc
>> error: called from 'pkg>configure_make' in file 
>> /sw/share/octave/3.6.4/m/pkg/pkg.m near line 1385, column 9
>> error: called from:
>> error:   /sw/share/octave/3.6.4/m/pkg/pkg.m at line 827, column 5
>> error:   /sw/share/octave/3.6.4/m/pkg/pkg.m at line 383, column 9
>> octave:1>
>> 
>> 
> 
> If you're using the -ref variant (built against the unoptimized reference 
> LAPACK) for Octave, the issue is that the LAPACK source doesn't have a 
> cblas.h, and so one isn't installed by that.
> 
> It also appears that the configuration isn't picking up the cblas.h from 
> Accelerate.framework, i.e. the built-in BLAS/LAPACK on OS X.
> 
> I'm presuming (without having tried it yet) that this would work properly 
> against our -atlas variant without any patching, since that's got a cblas.h 
> in the include path, as expected.
> 
> I'm open to suggestions about a BLAS to use to go along with the bare LAPACK. 
>  We've got a tracker submission for openblas:
> 
> http://sourceforge.net/p/fink/package-submissions/4293/
> 
> but I've been too busy to play around with it.
> -- 
> Alexander Hansen, Ph.D.
> Fink User Liaison
> My package updates: http://finkakh.wordpress.com/

Thank you Alexander. Peter, would these commands from the control package solve 
the problem?

MKOCTFILE ?= mkoctfile

ifndef LAPACK_LIBS
LAPACK_LIBS := $(shell $(MKOCTFILE) -p LAPACK_LIBS)
endif
ifndef BLAS_LIBS
BLAS_LIBS := $(shell $(MKOCTFILE) -p BLAS_LIBS)
endif
ifndef FLIBS
FLIBS := $(shell $(MKOCTFILE) -p FLIBS)
endif
LFLAGS := $(shell $(MKOCTFILE) -p LFLAGS) $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)


http://sourceforge.net/p/octave/control/ci/default/tree/src/Makefile