#17630: Further clean up of ATLAS (or equivalent BLAS) linking
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Reporter: jpflori | Owner:
Type: defect | Status: new
Priority: major | Milestone: sage-6.5
Component: packages: standard | Resolution:
Keywords: | Merged in:
Authors: | Reviewers:
Report Upstream: N/A | Work issues:
Branch: | Commit:
Dependencies: | Stopgaps:
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Comment (by fbissey):
Yes definitely of interest. I think cvxopt 1.1.7 is better at handling
things with environment variables so we shouldn't patch anymore, I should
update the cvxopt ebuild for gentoo. From cvxopt setup.py
{{{
BLAS_NOUNDERSCORES =
int(os.environ.get("CVXOPT_BLAS_NOUNDERSCORES",BLAS_NOUNDERSCORES)) ==
True
BLAS_LIB = os.environ.get("CVXOPT_BLAS_LIB",BLAS_LIB)
LAPACK_LIB = os.environ.get("CVXOPT_LAPACK_LIB",LAPACK_LIB)
BLAS_LIB_DIR = os.environ.get("CVXOPT_BLAS_LIB_DIR",BLAS_LIB_DIR)
BLAS_EXTRA_LINK_ARGS =
os.environ.get("CVXOPT_BLAS_EXTRA_LINK_ARGS",BLAS_EXTRA_LINK_ARGS)
if type(BLAS_LIB) is str: BLAS_LIB = BLAS_LIB.strip().split(',')
if type(LAPACK_LIB) is str: LAPACK_LIB = LAPACK_LIB.strip().split(',')
if type(BLAS_EXTRA_LINK_ARGS) is str: BLAS_EXTRA_LINK_ARGS =
BLAS_EXTRA_LINK_ARGS.strip().split(',')
BUILD_GSL = int(os.environ.get("CVXOPT_BUILD_GSL",BUILD_GSL))
GSL_LIB_DIR = os.environ.get("CVXOPT_GSL_LIB_DIR",GSL_LIB_DIR)
GSL_INC_DIR = os.environ.get("CVXOPT_GSL_INC_DIR",GSL_INC_DIR)
BUILD_FFTW = int(os.environ.get("CVXOPT_BUILD_FFTW",BUILD_FFTW))
FFTW_LIB_DIR = os.environ.get("CVXOPT_FFTW_LIB_DIR",FFTW_LIB_DIR)
FFTW_INC_DIR = os.environ.get("CVXOPT_FFTW_INC_DIR",FFTW_INC_DIR)
BUILD_GLPK = int(os.environ.get("CVXOPT_BUILD_GLPK",BUILD_GLPK))
GLPK_LIB_DIR = os.environ.get("CVXOPT_GLPK_LIB_DIR",GLPK_LIB_DIR)
GLPK_INC_DIR = os.environ.get("CVXOPT_GLPK_INC_DIR",GLPK_INC_DIR)
BUILD_DSDP = int(os.environ.get("CVXOPT_BUILD_DSDP",BUILD_DSDP))
DSDP_LIB_DIR = os.environ.get("CVXOPT_DSDP_LIB_DIR",DSDP_LIB_DIR)
DSDP_INC_DIR = os.environ.get("CVXOPT_DSDP_INC_DIR",DSDP_INC_DIR)
}}}
gsl makes its own cblas (but no fortran blas) and by default libgsl is not
linked with any cblas, you are supposed to link with a cblas when you use
the library.
Setting blas/lapack in numpy/scipy makes me crazy half the time.
Environment variable or setup.cfg can be used to change the default
(currently looking for MKL, ATLAS, netlib and netlib source in that order
if I am not mistaken).
Making a setup.cfg from pkg-config is hard
{{{
pc_incdir() {
$(tc-getPKG_CONFIG) --cflags-only-I $@ | \
sed -e 's/^-I//' -e 's/[ ]*-I/:/g' -e 's/[ ]*$//' -e
's|^:||'
}
pc_libdir() {
$(tc-getPKG_CONFIG) --libs-only-L $@ | \
sed -e 's/^-L//' -e 's/[ ]*-L/:/g' -e 's/[ ]*$//' -e
's|^:||'
}
pc_libs() {
$(tc-getPKG_CONFIG) --libs-only-l $@ | \
sed -e 's/[ ]-l*\(pthread\|m\)\([ ]\|$\)//g' \
-e 's/^-l//' -e 's/[ ]*-l/,/g' -e 's/[ ]*$//' \
| tr ',' '\n' | sort -u | tr '\n' ',' | sed -e 's|,$||'
}
local libdir="${EPREFIX}"/usr/$(get_libdir) # local tree
# make sure _dotblas.so gets built
sed -i -e '/NO_ATLAS_INFO/,+1d' numpy/core/setup.py || die
cat >> site.cfg <<-EOF
[blas]
include_dirs = $(pc_incdir cblas)
library_dirs = $(pc_libdir cblas blas):${libdir}
blas_libs = $(pc_libs cblas blas)
[lapack]
library_dirs = $(pc_libdir lapack):${libdir}
lapack_libs = $(pc_libs lapack)
EOF
}}}
but with the python binding it should be easier.
--
Ticket URL: <http://trac.sagemath.org/ticket/17630#comment:5>
Sage <http://www.sagemath.org>
Sage: Creating a Viable Open Source Alternative to Magma, Maple, Mathematica,
and MATLAB
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