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This queue is for tickets about the Math-GSL CPAN distribution.

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The Basics
Id: 123306
Status: open
Priority: 0/
Queue: Math-GSL

People
Owner: Nobody in particular
Requestors: SREZIC [...] cpan.org
Cc: gregoa [...] cpan.org
AdminCc:

Bug Information
Severity: (no value)
Broken in: 0.39
Fixed in: (no value)



Subject: Undefined symbols (freebsd 11)
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The test suite fails on my freebsd 11 smoker. freebsd 10 and earlier is fine. ... # Failed test 'use Math::GSL::Linalg;' # at t/00-load.t line 11. # Tried to use 'Math::GSL::Linalg'. # Error: Can't load '/home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/arch/auto/Math/GSL/Linalg/Linalg.so' for module Math::GSL::Linalg: /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/arch/auto/Math/GSL/Linalg/Linalg.so: Undefined symbol "gsl_linalg_hessenberg" at /usr/perl5.27.4p/lib/5.27.4/amd64-freebsd/DynaLoader.pm line 193. # # Compilation failed in require at t/00-load.t line 11. # BEGIN failed--compilation aborted at t/00-load.t line 11. ... # Failed test 'use Math::GSL::SF;' # at t/00-load.t line 11. # Tried to use 'Math::GSL::SF'. # Error: Can't load '/home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/arch/auto/Math/GSL/SF/SF.so' for module Math::GSL::SF: /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/arch/auto/Math/GSL/SF/SF.so: Undefined symbol "gsl_sf_coupling_6j_INCORRECT_e" at /usr/perl5.27.4p/lib/5.27.4/amd64-freebsd/DynaLoader.pm line 193. # # Compilation failed in require at t/00-load.t line 11. # BEGIN failed--compilation aborted at t/00-load.t line 11. ... Can't load '/home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/arch/auto/Math/GSL/Linalg/Linalg.so' for module Math::GSL::Linalg: /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/arch/auto/Math/GSL/Linalg/Linalg.so: Undefined symbol "gsl_linalg_hessenberg" at /usr/perl5.27.4p/lib/5.27.4/amd64-freebsd/DynaLoader.pm line 193. Compilation failed in require at /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/lib/Math/GSL/Matrix.pm line 1202. BEGIN failed--compilation aborted at /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39-0/blib/lib/Math/GSL/Matrix.pm line 1207. Compilation failed in require at t/BLAS.t line 8. BEGIN failed--compilation aborted at t/BLAS.t line 8. ...
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On Tue Oct 17 02:27:49 2017, SREZIC wrote: Show quoted text
> The test suite fails on my freebsd 11 smoker. freebsd 10 and earlier > is fine. > > ... > # Failed test 'use Math::GSL::Linalg;' > # at t/00-load.t line 11. > # Tried to use 'Math::GSL::Linalg'. > # Error: Can't load '/home/cpansand/.cpan/build/2017101712/Math- > GSL-0.39-0/blib/arch/auto/Math/GSL/Linalg/Linalg.so' for module > Math::GSL::Linalg: /home/cpansand/.cpan/build/2017101712/Math-GSL- > 0.39-0/blib/arch/auto/Math/GSL/Linalg/Linalg.so: Undefined symbol > "gsl_linalg_hessenberg" at /usr/perl5.27.4p/lib/5.27.4/amd64- > freebsd/DynaLoader.pm line 193. > # # Compilation failed in require at t/00-load.t line 11. > # BEGIN failed--compilation aborted at t/00-load.t line 11. > ... > # Failed test 'use Math::GSL::SF;' > # at t/00-load.t line 11. > # Tried to use 'Math::GSL::SF'. > # Error: Can't load '/home/cpansand/.cpan/build/2017101712/Math- > GSL-0.39-0/blib/arch/auto/Math/GSL/SF/SF.so' for module Math::GSL::SF: > /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39- > 0/blib/arch/auto/Math/GSL/SF/SF.so: Undefined symbol > "gsl_sf_coupling_6j_INCORRECT_e" at /usr/perl5.27.4p/lib/5.27.4/amd64- > freebsd/DynaLoader.pm line 193. > # # Compilation failed in require at t/00-load.t line 11. > # BEGIN failed--compilation aborted at t/00-load.t line 11. > ... > Can't load '/home/cpansand/.cpan/build/2017101712/Math-GSL-0.39- > 0/blib/arch/auto/Math/GSL/Linalg/Linalg.so' for module > Math::GSL::Linalg: /home/cpansand/.cpan/build/2017101712/Math-GSL- > 0.39-0/blib/arch/auto/Math/GSL/Linalg/Linalg.so: Undefined symbol > "gsl_linalg_hessenberg" at /usr/perl5.27.4p/lib/5.27.4/amd64- > freebsd/DynaLoader.pm line 193. > Compilation failed in require at > /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39- > 0/blib/lib/Math/GSL/Matrix.pm line 1202. > BEGIN failed--compilation aborted at > /home/cpansand/.cpan/build/2017101712/Math-GSL-0.39- > 0/blib/lib/Math/GSL/Matrix.pm line 1207. > Compilation failed in require at t/BLAS.t line 8. > BEGIN failed--compilation aborted at t/BLAS.t line 8. > ...
These problems are still present as we near the release of perl-5.28.0. Today I attempted to install this distribution against perl-5.27.10 on FreeBSD-11.0 using 'cpanm' as the installer. Please find attached a summary of the cpanm build.log output. Also find attached the relevant 'perl -V' data. Thank you very much. Jim Keenan
Subject: LETO.Math-GSL-0.39.log.txt

Message body is not shown because it is too large.

Subject: freebsd-11.0.perl-5.27.10_V.txt
Summary of my perl5 (revision 5 version 27 subversion 10) configuration: Platform: osname=freebsd osvers=11.0-release-p1 archname=amd64-freebsd-thread-multi uname='freebsd kid51-freebsd-11-install-3 11.0-release-p1 freebsd 11.0-release-p1 #0 r306420: thu sep 29 01:43:23 utc 2016 root@releng2.nyi.freebsd.org:usrobjusrsrcsysgeneric amd64 ' config_args='-des -Dusedevel -Duseithreads -Doptimize=-O2 -pipe -fstack-protector -fno-strict-aliasing -Uversiononly -Dman1dir=none -Dman3dir=none -Dprefix=/home/jkeenan/prep528/testing/perl-5.27.10' hint=recommended useposix=true d_sigaction=define useithreads=define usemultiplicity=define use64bitint=define use64bitall=define uselongdouble=undef usemymalloc=n default_inc_excludes_dot=define bincompat5005=undef Compiler: cc='cc' ccflags ='-DHAS_FPSETMASK -DHAS_FLOATINGPOINT_H -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include -D_FORTIFY_SOURCE=2' optimize='-O2 -pipe -fstack-protector -fno-strict-aliasing' cppflags='-DHAS_FPSETMASK -DHAS_FLOATINGPOINT_H -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include' ccversion='' gccversion='4.2.1 Compatible FreeBSD Clang 3.8.0 (tags/RELEASE_380/final 262564)' gccosandvers='' intsize=4 longsize=8 ptrsize=8 doublesize=8 byteorder=12345678 doublekind=3 d_longlong=define longlongsize=8 d_longdbl=define longdblsize=16 longdblkind=3 ivtype='long' ivsize=8 nvtype='double' nvsize=8 Off_t='off_t' lseeksize=8 alignbytes=8 prototype=define Linker and Libraries: ld='cc' ldflags ='-pthread -Wl,-E -fstack-protector-strong -L/usr/local/lib' libpth=/usr/lib /usr/local/lib /usr/bin/../lib/clang/3.8.0/lib /usr/lib libs=-lpthread -lgdbm -lm -lcrypt -lutil perllibs=-lpthread -lm -lcrypt -lutil libc= so=so useshrplib=false libperl=libperl.a gnulibc_version='' Dynamic Linking: dlsrc=dl_dlopen.xs dlext=so d_dlsymun=undef ccdlflags=' ' cccdlflags='-DPIC -fPIC' lddlflags='-shared -L/usr/local/lib -fstack-protector-strong' Characteristics of this binary (from libperl): Compile-time options: HAS_TIMES MULTIPLICITY PERLIO_LAYERS PERL_COPY_ON_WRITE PERL_DONT_CREATE_GVSV PERL_IMPLICIT_CONTEXT PERL_MALLOC_WRAP PERL_OP_PARENT PERL_PRESERVE_IVUV PERL_USE_DEVEL USE_64_BIT_ALL USE_64_BIT_INT USE_ITHREADS USE_LARGE_FILES USE_LOCALE USE_LOCALE_COLLATE USE_LOCALE_CTYPE USE_LOCALE_NUMERIC USE_LOCALE_TIME USE_PERLIO USE_PERL_ATOF USE_REENTRANT_API Built under freebsd Compiled at Mar 21 2018 12:59:59 %ENV: PERL2DIR="/home/jkeenan/gitwork/perl2" PERL_WORKDIR="/home/jkeenan/gitwork/perl" @INC: lib/5.27.10/amd64-freebsd-thread-multi lib/5.27.10 lib /home/jkeenan/prep528/testing/perl-5.27.10/lib/site_perl/5.27.10/amd64-freebsd-thread-multi /home/jkeenan/prep528/testing/perl-5.27.10/lib/site_perl/5.27.10 /home/jkeenan/prep528/testing/perl-5.27.10/lib/5.27.10/amd64-freebsd-thread-multi /home/jkeenan/prep528/testing/perl-5.27.10/lib/5.27.10
Subject: Undefined symbols [rt.cpan.org #123306]
Date: Mon, 7 May 2018 18:31:44 -0700
To: bug-Math-GSL [...] rt.cpan.org
From: David Hoekman <sqrtneginf [...] gmail.com>
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Math-GSL 0.39 does not appear to be compatible with recent releases of GSL (e.g 2.4 and higher). If 'Build' emits a warning about 'VERSION MISMATCH', then installation will probably fail. By downgrading my GSL to 2.2.1 I was able to get this module working on Mac OS X, and that kludge may work on other platforms as well.
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We're seeing the same errors on Debian with the update of GSL from 2.4 to 2.5: https://bugs.debian.org/901807


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