Re: Compilation failure for openblas-0.3.7-1 under OSX 10.11.6

David Neuhaus <[email protected]>
Newsgroups gmane.os.apple.fink.beginners
Message-ID <[email protected]> 
Hi Derek,

   Still fails I'm afraid, but it looks like a different failure this time (and it does now seem to be using clang).  Last part of output appended below.

Best wishes,
David Neuhaus


DCHAR_CNAME="" -DNO_AFFINITY -I. -DHAVE_LAPACK_CONFIG_H -I../include -c -o lapacke_ztf_trans.o lapacke_ztf_trans.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION="0.3.8" -DASMNAME=_ -DASMFNAME=__ -DNAME=_ -DCNAME= -DCHAR_NAME="_" -DCHAR_CNAME="" -DNO_AFFINITY -I. -DHAVE_LAPACK_CONFIG_H -I../include -c -o lapacke_ztp_nancheck.o lapacke_ztp_nancheck.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION="0.3.8" -DASMNAME=_ -DASMFNAME=__ -DNAME=_ -DCNAME= -DCHAR_NAME="_" -DCHAR_CNAME="" -DNO_AFFINITY -I. -DHAVE_LAPACK_CONFIG_H -I../include -c -o lapacke_ztp_trans.o lapacke_ztp_trans.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION="0.3.8" -DASMNAME=_ -DASMFNAME=__ -DNAME=_ -DCNAME= -DCHAR_NAME="_" -DCHAR_CNAME="" -DNO_AFFINITY -I. -DHAVE_LAPACK_CONFIG_H -I../include -c -o lapacke_ztr_nancheck.o lapacke_ztr_nancheck.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION="0.3.8" -DASMNAME=_ -DASMFNAME=__ -DNAME=_ -DCNAME= -DCHAR_NAME="_" -DCHAR_CNAME="" -DNO_AFFINITY -I. -DHAVE_LAPACK_CONFIG_H -I../include -c -o lapacke_ztr_trans.o lapacke_ztr_trans.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION="0.3.8" -DASMNAME=_ -DASMFNAME=__ -DNAME=_ -DCNAME= -DCHAR_NAME="_" -DCHAR_CNAME="" -DNO_AFFINITY -I. -DHAVE_LAPACK_CONFIG_H -I../include -c -o lapacke_make_complex_float.o lapacke_make_complex_float.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION="0.3.8" -DASMNAME=_ -DASMFNAME=__ -DNAME=_ -DCNAME= -DCHAR_NAME="_" -DCHAR_CNAME="" -DNO_AFFINITY -I. -DHAVE_LAPACK_CONFIG_H -I../include -c -o lapacke_make_complex_double.o lapacke_make_complex_double.c
ar -ru ../../../libopenblas.0.a lapacke_cgb_nancheck.o lapacke_cgb_trans.o lapacke_cge_nancheck.o lapacke_cge_trans.o lapacke_cgg_nancheck.o lapacke_cgg_trans.o lapacke_cgt_nancheck.o lapacke_chb_nancheck.o lapacke_chb_trans.o lapacke_che_nancheck.o lapacke_che_trans.o lapacke_chp_nancheck.o lapacke_chp_trans.o lapacke_chs_nancheck.o lapacke_chs_trans.o lapacke_c_nancheck.o lapacke_cpb_nancheck.o lapacke_cpb_trans.o lapacke_cpf_nancheck.o lapacke_cpf_trans.o lapacke_cpo_nancheck.o lapacke_cpo_trans.o lapacke_cpp_nancheck.o lapacke_cpp_trans.o lapacke_cpt_nancheck.o lapacke_csp_nancheck.o lapacke_csp_trans.o lapacke_cst_nancheck.o lapacke_csy_nancheck.o lapacke_csy_trans.o lapacke_ctb_nancheck.o lapacke_ctb_trans.o lapacke_ctf_nancheck.o lapacke_ctf_trans.o lapacke_ctp_nancheck.o lapacke_ctp_trans.o lapacke_ctr_nancheck.o lapacke_ctr_trans.o lapacke_dgb_nancheck.o lapacke_dgb_trans.o lapacke_dge_nancheck.o lapacke_dge_trans.o lapacke_dgg_nancheck.o lapacke_dgg_trans.o lapacke_dgt_nancheck.o lapacke_dhs_nancheck.o lapacke_dhs_trans.o lapacke_d_nancheck.o lapacke_dpb_nancheck.o lapacke_dpb_trans.o lapacke_dpf_nancheck.o lapacke_dpf_trans.o lapacke_dpo_nancheck.o lapacke_dpo_trans.o lapacke_dpp_nancheck.o lapacke_dpp_trans.o lapacke_dpt_nancheck.o lapacke_dsb_nancheck.o lapacke_dsb_trans.o lapacke_dsp_nancheck.o lapacke_dsp_trans.o lapacke_dst_nancheck.o lapacke_dsy_nancheck.o lapacke_dsy_trans.o lapacke_dtb_nancheck.o lapacke_dtb_trans.o lapacke_dtf_nancheck.o lapacke_dtf_trans.o lapacke_dtp_nancheck.o lapacke_dtp_trans.o lapacke_dtr_nancheck.o lapacke_dtr_trans.o lapacke_lsame.o lapacke_sgb_nancheck.o lapacke_sgb_trans.o lapacke_sge_nancheck.o lapacke_sge_trans.o lapacke_sgg_nancheck.o lapacke_sgg_trans.o lapacke_sgt_nancheck.o lapacke_shs_nancheck.o lapacke_shs_trans.o lapacke_s_nancheck.o lapacke_spb_nancheck.o lapacke_spb_trans.o lapacke_spf_nancheck.o lapacke_spf_trans.o lapacke_spo_nancheck.o lapacke_spo_trans.o lapacke_spp_nancheck.o lapacke_spp_trans.o lapacke_spt_nancheck.o lapacke_ssb_nancheck.o lapacke_ssb_trans.o lapacke_ssp_nancheck.o lapacke_ssp_trans.o lapacke_sst_nancheck.o lapacke_ssy_nancheck.o lapacke_ssy_trans.o lapacke_stb_nancheck.o lapacke_stb_trans.o lapacke_stf_nancheck.o lapacke_stf_trans.o lapacke_stp_nancheck.o lapacke_stp_trans.o lapacke_str_nancheck.o lapacke_str_trans.o lapacke_xerbla.o lapacke_zgb_nancheck.o lapacke_zgb_trans.o lapacke_zge_nancheck.o lapacke_zge_trans.o lapacke_zgg_nancheck.o lapacke_zgg_trans.o lapacke_zgt_nancheck.o lapacke_zhb_nancheck.o lapacke_zhb_trans.o lapacke_zhe_nancheck.o lapacke_zhe_trans.o lapacke_zhp_nancheck.o lapacke_zhp_trans.o lapacke_zhs_nancheck.o lapacke_zhs_trans.o lapacke_z_nancheck.o lapacke_zpb_nancheck.o lapacke_zpb_trans.o lapacke_zpf_nancheck.o lapacke_zpf_trans.o lapacke_zpo_nancheck.o lapacke_zpo_trans.o lapacke_zpp_nancheck.o lapacke_zpp_trans.o lapacke_zpt_nancheck.o lapacke_zsp_nancheck.o lapacke_zsp_trans.o lapacke_zst_nancheck.o lapacke_zsy_nancheck.o lapacke_zsy_trans.o lapacke_ztb_nancheck.o lapacke_ztb_trans.o lapacke_ztf_nancheck.o lapacke_ztf_trans.o lapacke_ztp_nancheck.o lapacke_ztp_trans.o lapacke_ztr_nancheck.o lapacke_ztr_trans.o lapacke_make_complex_float.o lapacke_make_complex_double.o
ranlib ../../../libopenblas.0.a
make[1]: warning: -jN forced in submake: disabling jobserver mode.
perl ./gensymbol osx x86_64 _ 1 0  0 0 0 0 "" "" 1 > osx.def
gfortran-fsf-9 -O2 -mtune=intel -march=core2 -m128bit-long-double -Wall -frecursive -fno-optimize-sibling-calls -m64 -fPIC -L/sw/lib -all_load -headerpad_max_install_names -install_name "/sw/src/fink.build/openblas-0.3.8-1/OpenBLAS-0.3.8/exports/../libopenblas.0.dylib" -dynamiclib -o ../libopenblas.0.dylib ../libopenblas.0.a -Wl,-exported_symbols_list,osx.def  -L/sw/lib/gcc9/lib/gcc/x86_64-apple-darwin15.6.0/9.2.0 -L/sw/lib/gcc9/lib/gcc/x86_64-apple-darwin15.6.0/9.2.0/../../.. -L/sw/lib/gcc9/lib/gcc/x86_64-apple-darwin15.6.0/9.2.0 -L/sw/lib/gcc9/lib/gcc/x86_64-apple-darwin15.6.0/9.2.0/../../..  -lgfortran -lSystem -lquadmath -lm -lSystem -lgfortran -lSystem -lquadmath -lm -lSystem  
	cd benchmark
	make FC=gfortran-fsf-9 USE_THREAD=1 smallscaling veclib goto
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_ -DASMFNAME=__ -DNAME=_ -DCNAME= -DCHAR_NAME=\"_\" -DCHAR_CNAME=\"\" -DNO_AFFINITY -I.. -o smallscaling smallscaling.c ../libopenblas.0.a -lpthread -lgfortran -I/sw/include/libomp -L/sw/lib/gcc9/lib -lgomp -lm -lpthread
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_slinpack -DASMFNAME=_slinpack_ -DNAME=slinpack_ -DCNAME=slinpack -DCHAR_NAME=\"slinpack_\" -DCHAR_CNAME=\"slinpack\" -DNO_AFFINITY -I.. -c -UCOMPLEX -UDOUBLE -o slinpack.o linpack.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_dlinpack -DASMFNAME=_dlinpack_ -DNAME=dlinpack_ -DCNAME=dlinpack -DCHAR_NAME=\"dlinpack_\" -DCHAR_CNAME=\"dlinpack\" -DNO_AFFINITY -I.. -c -UCOMPLEX -DDOUBLE -o dlinpack.o linpack.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_clinpack -DASMFNAME=_clinpack_ -DNAME=clinpack_ -DCNAME=clinpack -DCHAR_NAME=\"clinpack_\" -DCHAR_CNAME=\"clinpack\" -DNO_AFFINITY -I.. -c -DCOMPLEX -UDOUBLE -o clinpack.o linpack.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_zlinpack -DASMFNAME=_zlinpack_ -DNAME=zlinpack_ -DCNAME=zlinpack -DCHAR_NAME=\"zlinpack_\" -DCHAR_CNAME=\"zlinpack\" -DNO_AFFINITY -I.. -c -DCOMPLEX -DDOUBLE -o zlinpack.o linpack.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_scholesky -DASMFNAME=_scholesky_ -DNAME=scholesky_ -DCNAME=scholesky -DCHAR_NAME=\"scholesky_\" -DCHAR_CNAME=\"scholesky\" -DNO_AFFINITY -I.. -c -UCOMPLEX -UDOUBLE -o scholesky.o cholesky.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_dcholesky -DASMFNAME=_dcholesky_ -DNAME=dcholesky_ -DCNAME=dcholesky -DCHAR_NAME=\"dcholesky_\" -DCHAR_CNAME=\"dcholesky\" -DNO_AFFINITY -I.. -c -UCOMPLEX -DDOUBLE -o dcholesky.o cholesky.c
clang -O2 -mtune=intel -march=core2 -DMAX_STACK_ALLOC=2048 -DEXPRECISION -Wall -m64 -DF_INTERFACE_GFORT -fPIC -DNO_AVX512 -DSMP_SERVER -DNO_WARMUP -DMAX_CPU_NUMBER=8 -DMAX_PARALLEL_NUMBER=1 -DVERSION=\"0.3.8\" -DASMNAME=_ccholesky -DASMFNAME=_ccholesky_ -DNAME=ccholesky_ -DCNAME=ccholesky -DCHAR_NAME=\"ccholesky_\" -DCHAR_CNAME=\"ccholesky\" -DNO_AFFINITY -I.. -c -DCOMPLEX -UDOUBLE -o ccholesky.o cholesky.c
smallscaling.c:7:10: fatal error: 'omp.h' file not found
#include <omp.h>
         ^
1 error generated.
make: *** [smallscaling] Error 1
make: *** Waiting for unfinished jobs....
### execution of /tmp/fink.Fs7Gw failed, exit code 2
### execution of /tmp/fink.jPHHz failed, exit code 2
Removing runtime build-lock...
Removing build-lock package...
/sw/bin/dpkg-lockwait -r fink-buildlock-openblas-0.3.8-1
(Reading database ... 201635 files and directories currently installed.)
Removing fink-buildlock-openblas-0.3.8-1 ...
Failed: phase compiling: openblas-0.3.8-1 failed

Before reporting any errors, please run "fink selfupdate" and try again.
Also try using "fink configure" to set your maximum build jobs to 1 and
attempt to build the package again.
If you continue to have issues, please check to see if the FAQ on Fink's 
website solves the problem.  If not, ask on one (not both, please) of
these mailing lists:

	The Fink Users List <[email protected]>
	The Fink Beginners List <[email protected]>,

with a carbon copy to the maintainer:

	Derek Homeier <[email protected]>

Note that this is preferable to emailing just the maintainer directly,
since most fink package maintainers do not have access to all possible
hardware and software configurations.

Please try to include the complete error message in your report.  This
generally consists of a compiler line starting with e.g. "gcc" or "g++"
followed by the actual error output from the compiler.

Also include the following system information:
Package manager version: 0.45.0
Distribution version: selfupdate-git Fri Feb 21 12:10:32 2020, 10.11, x86_64
Trees: local/main stable/main unstable/main
Xcode.app: 8.2.1
Xcode command-line tools: 8.2.0.0.1.1480973914
Max. Fink build jobs:  8





On 21/02/2020, 11:39, "Homeier, Derek" <[email protected]> wrote:

    On 21 Feb 2020, at 12:45 am, David Neuhaus <[email protected]> wrote:
    > 
    > No luck, I'm afraid - I get a checksum error after the package download (see terminal output below).  And to answer your other question, you are correct there is no /sw/share/doc/openblas/bin/smallscaling in my installation.  Like you, I'm also suspicious that my previous attempted compilation may not have been using clang, but I assume that simply editing the SetCC line in openblas.info should have been enough. 
    
    Uh, looks like your mailer did some text-file mischief to the patch on downloading.
    Apparently one still cannot simply post files as attachments…
    I am attaching the patch again xzipped, hopefully this will keep it intact.
    The correct md5sum is 0e8ba19c8b0d88375d004e9bd21d8c4d .
    I am also going to make a PR for the update, so you could download it from Github,
    but it would help to know if the clang workaround is successful first.
    
    You are right that SetCC should set the default C compiler in all scripts, so it
    CC is not redefined someplace else, I don’t understand either how that would
    happen. But without the extra patches the clang compilation would fail anyway,
    because it is bumping into the use of OpenMP in several places.
    
    Cheers,
    				Derek
    
    




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