GNU bug report logs -
#69729
[PATCH 00/41] Improve performance in lapack dependent packages.
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Reported by: Romain GARBAGE <romain.garbage <at> inria.fr>
Date: Mon, 11 Mar 2024 11:06:01 UTC
Severity: normal
Tags: patch
Done: Ludovic Courtès <ludovic.courtes <at> inria.fr>
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Romain GARBAGE <romain.garbage <at> inria.fr>:
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Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):
This patch series aims at improving the performance of several packages by changing the LAPACK library they depend on.
The package `lapack` is the reference implementation from netlib.org of a numerical linear algebra library, written in FORTRAN.
The package `openblas` is a optimized implementation of the LAPACK and BLAS APIs.
Among the modified packages affected by the change, the following don't build:
* shogun: atlas dependency doesn't build (pre-existing error)
* lush2: preexisting error
* proteinortho: preexisting error (tests 2 and 3 fail)
* superlu-dist: dependency failure (combinatorial-blas)
Also, the following packages have not been modified as it breaks the package:
* xyce-serial
* xyce-parallel
* gnss-sdr
* julia
Romain GARBAGE (41):
gnu: arpack-ng: Switch to openblas.
gnu: armadillo: Switch to openblas.
gnu: octave-cli: Switch to openblas.
gnu: scalapack: Switch to openblas.
gnu: hypre: Switch to openblas.
gnu: igraph: Switch to openblas.
gnu: vosk-api: Remove dependency on lapack.
gnu: jags: Switch to openblas.
gnu: sbcl-lla: Switch to openblas.
gnu: itpp: Switch to openblas.
gnu: gmsh: Switch to openblas.
gnu: ghc-hmatrix: Switch to openblas.
gnu: fenics-dolfin: Remove dependency on lapack.
gnu: ipopt: Switch to openblas.
gnu: ceres: Remove dependency on lapack.
gnu: sundials-julia: Switch to openblas.
gnu: plink: Switch to openblas.
gnu: p4est: Remove dependency on lapack.
gnu: plink-ng: Remove lapack dep.
gnu: dealii: Remove dependency on lapack.
gnu: elemental: Remove dependency on lapack.
gnu: superlu-dist: Remove dependency on lapack.
gnu: bonmin: Switch to openblas.
gnu: mpb: Switch to openblas.
gnu: meep: Switch to openblas.
gnu: casacore: Remove dependency on lapack.
gnu: aoflagger: Remove dependency on lapack.
gnu: apl: Switch to openblas.
gnu: eigensoft: Remove dependency on lapack.
gnu: proteinortho: Remove dependency on lapack.
gnu: scilab: Remove dependency on lapack.
gnu: python-cvxopt: Remove dependency on lapack.
gnu: dlib: Remove dependency on lapack.
gnu: grass: Remove dependency on lapack.
gnu: harminv: Switch to openblas.
gnu: giac: Switch to openblas.
gnu: libflame: Switch to openblas.
gnu: lush2: Remove dependency on lapack.
gnu: shogun: Switch to openblas.
gnu: kaldi-for-vosk: Remove dependency on lapack.
gnu: ocaml-lacaml: Remove dependency on lapack.
gnu/packages/algebra.scm | 2 +-
gnu/packages/apl.scm | 2 +-
gnu/packages/astronomy.scm | 2 --
gnu/packages/bioinformatics.scm | 17 ++++++------
gnu/packages/engineering.scm | 6 ++--
gnu/packages/geo.scm | 6 +++-
gnu/packages/graph.scm | 2 +-
gnu/packages/haskell-xyz.scm | 9 ++----
gnu/packages/lisp-xyz.scm | 6 ++--
gnu/packages/lisp.scm | 1 -
gnu/packages/machine-learning.scm | 15 ++++------
gnu/packages/maths.scm | 46 ++++++++++++++-----------------
gnu/packages/ocaml.scm | 9 ++++--
gnu/packages/simulation.scm | 3 +-
gnu/packages/statistics.scm | 6 +++-
15 files changed, 65 insertions(+), 67 deletions(-)
--
2.41.0
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Message #8 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (arpack-ng): Switch inputs from lapack to openblas.
Change-Id: I0d825373f0f267cc97748a9c2c7de1d73698354e
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 47070ded15..e9deef60f4 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -1070,7 +1070,7 @@ (define-public arpack-ng
(native-inputs
(list pkg-config))
(inputs
- (list eigen lapack gfortran))
+ (list eigen openblas gfortran))
(synopsis "Fortran subroutines for solving eigenvalue problems")
(description
"ARPACK-NG is a collection of Fortran77 subroutines designed to solve
--
2.41.0
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Message #11 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (armadillo): Switch inputs from lapack to openblas.
Change-Id: I718371f2e95fafc31e5dccddccbc223c111f594d
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index e9deef60f4..0c3216d0f0 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -4987,7 +4987,7 @@ (define-public armadillo
(build-system cmake-build-system)
(arguments `(#:tests? #f)) ; no test target
(inputs
- (list openblas lapack arpack-ng))
+ (list openblas arpack-ng))
(home-page "https://arma.sourceforge.net/")
(synopsis "C++ linear algebra library")
(description
--
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Message #14 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (octave-cli): Switch input dependency from
lapack to openblas.
Change-Id: I3a624a44c1c9bc6be7360cfecbb61c955fa0d209
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 0c3216d0f0..c42626ffca 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2955,10 +2955,10 @@ (define-public octave-cli
libjpeg-turbo
hdf5
- lapack
libsndfile
libxft
mesa
+ openblas
pcre
portaudio
qhull
--
2.41.0
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Message #17 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (scalapack): Switch input dependency from
lapack to openblas.
Change-Id: Ie025e6ced66c75755314b53989547ffe26fbcd11
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index c42626ffca..7deb652e77 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -1197,7 +1197,7 @@ (define-public scalapack
(inputs
`(("mpi" ,openmpi)
("fortran" ,gfortran)
- ("lapack" ,lapack))) ;for testing only
+ ("lapack" ,openblas))) ;for testing only
(arguments
`(#:configure-flags `("-DBUILD_SHARED_LIBS:BOOL=YES")
#:phases (modify-phases %standard-phases
--
2.41.0
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Message #20 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (hypre): Switch input dependency from
lapack to openblas.
Change-Id: I8bc2c3abf0d3ead52c9616e1a23bf4ac6113ac3b
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 7deb652e77..e80b7df0e2 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -7106,7 +7106,7 @@ (define-public hypre
texlive-xcolor
texlive-xypic))))
(inputs
- (list openblas lapack))
+ (list openblas))
(arguments
`(#:modules ((srfi srfi-1)
,@%gnu-build-system-modules)
--
2.41.0
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Message #23 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/graph.scm (igraph): Switch input dependency from
lapack to openblas.
Change-Id: Idcaada16496d2854cce7375b4d9fa647430206eb
---
gnu/packages/graph.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/graph.scm b/gnu/packages/graph.scm
index a3607689a3..437f744451 100644
--- a/gnu/packages/graph.scm
+++ b/gnu/packages/graph.scm
@@ -195,7 +195,7 @@ (define-public igraph
(list arpack-ng
bliss
glpk
- lapack
+ ;lapack
openblas
plfit
suitesparse-cxsparse))
--
2.41.0
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Message #26 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/machine-learning.scm (vosk-api): Remove input
dependency on lapack.
Change-Id: Id46b37f06bffde5f8a198c1ac913a3dff8ce63e6
---
gnu/packages/machine-learning.scm | 8 +++-----
1 file changed, 3 insertions(+), 5 deletions(-)
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
index 5c18a2e9d5..e51877411d 100644
--- a/gnu/packages/machine-learning.scm
+++ b/gnu/packages/machine-learning.scm
@@ -5105,8 +5105,7 @@ (define-public vosk-api
(lambda _ (chdir "src")))
(replace 'configure
(lambda _
- (let* ((lapack #$(this-package-input "lapack"))
- (openfst #$(this-package-input "openfst"))
+ (let* ((openfst #$(this-package-input "openfst"))
(openblas #$(this-package-input "openblas"))
(kaldi #$(this-package-input "kaldi")))
(substitute* "./Makefile"
@@ -5116,8 +5115,7 @@ (define-public vosk-api
"")
(("-lopenblas -llapack -lblas -lf2c")
(string-append
- "-L" openblas "/lib " "-lopenblas "
- "-L" lapack "/lib " "-llapack -lblas "))
+ "-L" openblas "/lib " "-lopenblas "))
(("-lfst -lfstngram")
(string-append
"-L" openfst "/lib " "-lfst -lfstngram "))
@@ -5139,7 +5137,7 @@ (define-public vosk-api
(for-each
(lambda (x) (install-file x src))
(find-files "." "\\.h$"))))))))
- (inputs (list kaldi openfst lapack openblas))
+ (inputs (list kaldi openfst openblas))
(home-page "https://alphacephei.com/vosk")
(synopsis "Speech recognition toolkit based on @code{kaldi}")
(description "\
--
2.41.0
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Message #29 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/statistics.scm (jags) [inputs]: Switch input
dependency from lapack to openblas.
[arguments]: Add configure flags.
Change-Id: Iea0efef5c70a5284f6859c1424fd4523edcf2bac
---
gnu/packages/statistics.scm | 6 +++++-
1 file changed, 5 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index 0d9f593614..3a70f5f997 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -180,9 +180,13 @@ (define-public jags
(base32
"0aa2w4g5057vn1qjp954s2kwxfmy1h7p5yn56fyi7sz9nmaq69gr"))))
(build-system gnu-build-system)
+ (arguments
+ (list #:configure-flags
+ #~(list "--with-lapack=-lopenblas"
+ "--with-blas=-lopenblas")))
(home-page "https://mcmc-jags.sourceforge.net/")
(native-inputs
- (list gfortran lapack))
+ (list gfortran openblas))
(synopsis "Gibbs sampler")
(description "JAGS is Just Another Gibbs Sampler. It is a program for
analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)
--
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Message #32 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/lisp-xyz.scm (sbcl-lla): Switch input dependency from
lapack to openblas and fixup.
Change-Id: I1d17ed3299a9e62f15b6e52e5ae2c9b9134646d1
---
gnu/packages/lisp-xyz.scm | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/gnu/packages/lisp-xyz.scm b/gnu/packages/lisp-xyz.scm
index 6ee8ef22d2..e5a943e32c 100644
--- a/gnu/packages/lisp-xyz.scm
+++ b/gnu/packages/lisp-xyz.scm
@@ -25021,17 +25021,17 @@ (define-public sbcl-lla
(substitute* "src/configuration.lisp"
(("\"libblas.so.3gf\"")
(string-append "\"" (assoc-ref inputs "lapack")
- "/lib/libblas.so\""))
+ "/lib/libopenblas.so\""))
(("\"liblapack.so.3gf\"")
(string-append "\"" (assoc-ref inputs "lapack")
- "/lib/liblapack.so\""))))))))
+ "/lib/libopenblas.so\""))))))))
(inputs
`(("anaphora" ,sbcl-anaphora)
("alexandria" ,sbcl-alexandria)
("cffi" ,sbcl-cffi)
("cl-num-utils" ,sbcl-cl-num-utils)
("cl-slice" ,sbcl-cl-slice)
- ("lapack" ,lapack)
+ ("lapack" ,openblas)
("let-plus" ,sbcl-let-plus)))
(native-inputs
(list sbcl-clunit))
--
2.41.0
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Message #35 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (itpp): Switch input dependency from
lapack to openblas.
Change-Id: I42606d5ed379093a076790d2b300dfa96f18d2ea
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index e80b7df0e2..29b6bbf76f 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2151,7 +2151,7 @@ (define-public itpp
;; SOURCE_DATE_EPOCH
(lambda _
(setenv "FORCE_SOURCE_DATE" "1"))))))
- (inputs (list lapack fftw))
+ (inputs (list openblas fftw))
;; FIXME: Even though the fonts are available dvips complains:
;; "Font cmmi10 not found; characters will be left blank."
(native-inputs
--
2.41.0
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Message #38 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (gmsh): Switch input dependency from
lapack to openblas.
Change-Id: Ib04c07a51f3af65d259b9970073ec1f68603aed4
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 29b6bbf76f..d38dac267f 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -3262,11 +3262,11 @@ (define-public gmsh
glu
gmp
hdf5
- lapack
libx11
libxext
mesa
metis
+ openblas
opencascade-occt))
(inputs
(list fontconfig
--
2.41.0
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Message #41 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/haskell-xyz.scm (ghc-hmatrix): Switch input dependency from
lapack to openblas. Add configure flags.
Change-Id: Ic8924b1fb9fa61af16abd1ac2a22c82a352a8e1b
---
gnu/packages/haskell-xyz.scm | 9 +++------
1 file changed, 3 insertions(+), 6 deletions(-)
diff --git a/gnu/packages/haskell-xyz.scm b/gnu/packages/haskell-xyz.scm
index 5d9e5757a0..b5943f2f47 100644
--- a/gnu/packages/haskell-xyz.scm
+++ b/gnu/packages/haskell-xyz.scm
@@ -5325,18 +5325,15 @@ (define-public ghc-hmatrix
(build-system haskell-build-system)
(properties '((upstream-name . "hmatrix")))
(arguments
- `(#:extra-directories ("lapack")))
+ `(#:configure-flags '("--flags=openblas")
+ #:extra-directories ("openblas")))
(inputs
(list ghc-random
ghc-split
ghc-storable-complex
ghc-semigroups
ghc-vector
- ;;("openblas" ,openblas)
- lapack))
- ;; Guix's OpenBLAS is built with the flag "NO_LAPACK=1" which
- ;; disables inclusion of the LAPACK functions.
- ;; (arguments `(#:configure-flags '("--flags=openblas")))
+ openblas))
(home-page "https://github.com/albertoruiz/hmatrix")
(synopsis "Haskell numeric linear algebra library")
(description "The HMatrix package provices a Haskell library for
--
2.41.0
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Message #44 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/simulation.scm (fenics-dolfin): Remove input dependency
from to lapack.
Change-Id: Ie60437e365c45e92f03ac3f147ec41eba40e2963
---
gnu/packages/simulation.scm | 3 +--
1 file changed, 1 insertion(+), 2 deletions(-)
diff --git a/gnu/packages/simulation.scm b/gnu/packages/simulation.scm
index b2fb123815..8cbf9be22a 100644
--- a/gnu/packages/simulation.scm
+++ b/gnu/packages/simulation.scm
@@ -773,7 +773,6 @@ (define-public fenics-dolfin
boost
eigen
hdf5-parallel-openmpi
- lapack
libxml2
openmpi
python-3
@@ -805,7 +804,7 @@ (define-public fenics-dolfin
(setenv "CATCH_DIR"
#$(this-package-input "catch"))
(setenv "LAPACK_DIR"
- #$(this-package-input "lapack"))
+ #$(this-package-input "openblas"))
(setenv "PETSC_DIR"
#$(this-package-input "petsc"))
(setenv "SLEPC_DIR"
--
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Message #47 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (sundials-julia): Switch input dependency from
lapack to openblas.
Change-Id: I7c5990b09f3a006600bab73ef998b081cbaa8935
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 4990c80dd3..980fa89d82 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -8041,7 +8041,7 @@ (define-public sundials-julia
"0nx4sqhmi126m14myzm7syv2053harav9snl0a247wnkcgs5rxrv"))))
(inputs
(modify-inputs (package-inputs sundials)
- (prepend gfortran lapack)))
+ (prepend gfortran openblas)))
(arguments
'(#:configure-flags `("-DCMAKE_C_FLAGS=-O2 -g -fcommon"
"-DSUNDIALS_INDEX_SIZE=32"
--
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Message #50 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (ipopt): Switch input dependency from
lapack to openblas and add required configure flags.
Change-Id: I58b84f0741a973adf81da1716e2e2659af1c50c4
---
gnu/packages/maths.scm | 7 ++++---
1 file changed, 4 insertions(+), 3 deletions(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index d38dac267f..916dcde2c1 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2399,7 +2399,8 @@ (define-public ipopt
"08gznhwhqv1x4baksz350ih8q16r5rd0k8vals6078m3h94khr4b"))))
(build-system gnu-build-system)
(arguments
- '(#:phases (modify-phases %standard-phases
+ '(#:configure-flags (list "--with-lapack=-lopenblas")
+ #:phases (modify-phases %standard-phases
(add-after 'install 'add--L-flags-in-ipopt.pc
(lambda* (#:key inputs outputs #:allow-other-keys)
;; The '.pc' file lists '-llapack -lblas' in "Libs";
@@ -2412,14 +2413,14 @@ (define-public ipopt
(("Libs: (.*)-llapack -lblas(.*)$" _ before after)
(string-append "Libs: " before " " after "\n"
"Libs.private: " before
- "-L" lapack "/lib -llapack -lblas "
+ "-L" openblas "/lib -lopenblas"
after "\n")))
#t))))))
(native-inputs
(list gfortran pkg-config))
(inputs
;; TODO: Maybe add dependency on COIN-MUMPS, ASL, and HSL.
- (list lapack)) ;for both libblas and liblapack
+ (list openblas)) ;for both libblas and liblapack
(home-page "https://www.coin-or.org")
(synopsis "Large-scale nonlinear optimizer")
(description
--
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Message #53 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (ceres): Remove dependency to lapack.
Change-Id: Iac55faf30a83bbbe3693cac73a9996af8ddcbde7
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 916dcde2c1..4990c80dd3 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2858,7 +2858,7 @@ (define-public ceres
(native-inputs (list pkg-config))
;; These inputs need to be propagated to satisfy dependent packages.
(propagated-inputs (list eigen gflags glog))
- (inputs (list openblas lapack suitesparse))
+ (inputs (list openblas suitesparse))
(synopsis "C++ library for solving large optimization problems")
(description
"Ceres Solver is a C++ library for modeling and solving large,
--
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Message #56 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (p4est): Remove dependency on lapack.
Change-Id: I9c76f8b9ba3fc7d5feabfb059505f66ac50972c3
---
gnu/packages/maths.scm | 5 ++---
1 file changed, 2 insertions(+), 3 deletions(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 980fa89d82..efe2387742 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -4730,15 +4730,14 @@ (define-public p4est
(inputs
`(("fortran" ,gfortran)
("blas" ,openblas)
- ("lapack" ,lapack)
("zlib" ,zlib)))
(arguments
`(#:configure-flags `(,(string-append "BLAS_LIBS=-L"
(assoc-ref %build-inputs "blas")
" -lopenblas")
,(string-append "LAPACK_LIBS=-L"
- (assoc-ref %build-inputs "lapack")
- " -llapack"))
+ (assoc-ref %build-inputs "blas")
+ " -lopenblas"))
#:phases (modify-phases %standard-phases
(add-before 'check 'mpi-setup
,%openmpi-setup))))
--
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Message #59 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/bioinformatics.scm (plink-ng): Remove dependency to lapack.
Change-Id: I4d14789c42dc216244872d70120efeeb97127a62
---
gnu/packages/bioinformatics.scm | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 8b2fe2d017..6c2dc95fa6 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -9650,7 +9650,7 @@ (define-public plink-ng
(list
#:tests? #false ;TEST_EXTRACT_CHR doesn't produce expected files
#:make-flags
- #~(list "BLASFLAGS=-llapack -lopenblas"
+ #~(list "BLASFLAGS=-lopenblas"
"NO_SSE42=1"
"NO_AVX2=1"
"STATIC_ZSTD="
@@ -9677,7 +9677,7 @@ (define-public plink-ng
(string-append
(assoc-ref outputs "out") "/bin")))))))
(inputs
- (list lapack openblas zlib `(,zstd "lib")))
+ (list openblas zlib `(,zstd "lib")))
(native-inputs
(list diffutils plink python simde)) ; for tests
(home-page "https://www.cog-genomics.org/plink/")
--
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Message #62 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (elemental): Remove dependency on lapack.
Change-Id: Iad28ceb70b87a26de75feec631b40aeedf977b53
---
gnu/packages/maths.scm | 1 -
1 file changed, 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 115eb8e5f0..c14dede5e0 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -7801,7 +7801,6 @@ (define-public elemental
(inputs
(list `(,gfortran "lib")
gmp
- lapack
metis
mpc
mpfr
--
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Message #65 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (dealii): Remove dependency on lapack.
Change-Id: I6f3439c886a574b8a8d2d91a4afa04ed09daba7f
---
gnu/packages/maths.scm | 1 -
1 file changed, 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index efe2387742..115eb8e5f0 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -6789,7 +6789,6 @@ (define-public dealii
(list arpack-ng
openblas
gfortran
- lapack
muparser
zlib))
(propagated-inputs
--
2.41.0
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Message #68 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/engineering.scm (meep): Switch input dependency from
lapack to openblas.
Change-Id: I0d7e3281b588472abd7a9b9c33249d52c925fe35
---
gnu/packages/engineering.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/engineering.scm b/gnu/packages/engineering.scm
index 0b6f1f14f3..d6552739c6 100644
--- a/gnu/packages/engineering.scm
+++ b/gnu/packages/engineering.scm
@@ -1724,7 +1724,7 @@ (define-public meep
("guile" ,guile-2.2)
("harminv" ,harminv)
("hdf5" ,hdf5)
- ("lapack" ,lapack)
+ ("openblas" ,openblas)
("libctl" ,guile-libctl)
("mpb" ,mpb)
("zlib" ,zlib)))
--
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Message #71 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (bonmin): Switch input dependency from
lapack to openblas.
Change-Id: I3f1ef50827873fdc1eddcd152a74ffbbbf02ee44
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 2b2252746e..a544aa12af 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -1433,7 +1433,7 @@ (define-public bonmin
"153kj4wx386609g21hw3cv5yxps62qqrc64zwb9ryd2xad1w1a4y"))))
(build-system gnu-build-system)
(native-inputs (list gfortran pkg-config))
- (inputs (list cbc ipopt lapack))
+ (inputs (list cbc ipopt openblas))
(home-page "https://coin-or.github.io/Bonmin/")
(synopsis "Basic Open-source Nonlinear Mixed INteger programming")
(description "Bonmin is a code for solving general MINLP (Mixed Integer
--
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Message #74 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/astronomy.scm (casacore): Remove dependency on lapack.
Change-Id: I83776d9d780715fc4fe40daad9e1724a94f6910d
---
gnu/packages/astronomy.scm | 1 -
1 file changed, 1 deletion(-)
diff --git a/gnu/packages/astronomy.scm b/gnu/packages/astronomy.scm
index d7747f051d..3fce881386 100644
--- a/gnu/packages/astronomy.scm
+++ b/gnu/packages/astronomy.scm
@@ -411,7 +411,6 @@ (define-public casacore
fftwf
gfortran
hdf5
- lapack
ncurses
openblas
python
--
2.41.0
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Message #77 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/astronomy.scm (aoflagger): Remove dependency on lapack.
Change-Id: I9a8d56364c1989cca23e826bc984831a2c93b776
---
gnu/packages/astronomy.scm | 1 -
1 file changed, 1 deletion(-)
diff --git a/gnu/packages/astronomy.scm b/gnu/packages/astronomy.scm
index 3fce881386..da10308ef3 100644
--- a/gnu/packages/astronomy.scm
+++ b/gnu/packages/astronomy.scm
@@ -323,7 +323,6 @@ (define-public aoflagger
gsl
gtkmm-3
hdf5
- lapack
libpng
libsigc++
libxml2
--
2.41.0
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Message #80 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/bioinformatics.scm (eigensoft): Remove dependency on lapack.
Change-Id: I9d4adfd64a32333a0d605d4ce1aa998035decf2a
---
gnu/packages/bioinformatics.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 6c2dc95fa6..ac2f7c1ade 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -5834,7 +5834,7 @@ (define-public eigensoft
(find-files "../bin" ".*"))
#t))))))
(inputs
- (list gsl lapack openblas perl
+ (list gsl openblas perl
`(,gfortran "lib")))
(home-page "https://github.com/DReichLab/EIG")
(synopsis "Tools for population genetics")
--
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Message #83 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (superlu-dist): Remove dependency on lapack.
Change-Id: I5893e16f7ef6fd688fd6b53eba6d3005b832f0ef
---
gnu/packages/maths.scm | 3 +--
1 file changed, 1 insertion(+), 2 deletions(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index c14dede5e0..2b2252746e 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -4443,7 +4443,6 @@ (define-public superlu-dist
(inputs
`(("gfortran" ,gfortran)
("blas" ,openblas)
- ("lapack" ,lapack)
("combblas" ,combinatorial-blas)))
(propagated-inputs
`(("mpi" ,openmpi) ;headers include MPI heades
@@ -4454,7 +4453,7 @@ (define-public superlu-dist
#:configure-flags (list "-DBUILD_SHARED_LIBS:BOOL=YES"
"-DTPL_ENABLE_COMBBLASLIB=YES"
"-DTPL_BLAS_LIBRARIES=-lopenblas"
- "-DTPL_LAPACK_LIBRARIES=-llapack"
+ "-DTPL_LAPACK_LIBRARIES=-lopenblas"
(string-append "-DTPL_PARMETIS_LIBRARIES="
(string-join
'("ptscotchparmetis" "ptscotch" "ptscotcherr"
--
2.41.0
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Message #86 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/bioinformatics.scm (proteinortho): Remove dependency on lapack.
---
gnu/packages/bioinformatics.scm | 5 +++--
1 file changed, 3 insertions(+), 2 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index ac2f7c1ade..98bc05d154 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8673,7 +8673,9 @@ (define-public proteinortho
(substitute* "Makefile"
(("INSTALLDIR=.*")
(string-append
- "INSTALLDIR=" (assoc-ref outputs "out") "/bin\n")))
+ "INSTALLDIR=" (assoc-ref outputs "out") "/bin\n"))
+ (("-llapack -lblas")
+ "-lopenblas"))
#t))
(add-before 'install 'make-install-directory
;; The install directory is not created during 'make install'.
@@ -8697,7 +8699,6 @@ (define-public proteinortho
("perl" ,perl)
("python" ,python-wrapper)
("blast+" ,blast+)
- ("lapack" ,lapack)
("openblas" ,openblas)))
(native-inputs
(list which))
--
2.41.0
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Message #89 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (python-cvxopt): Remove dependency on lapack.
Change-Id: I2a28ecf1ab5ea7683d6b8adf72054d3f86892771
---
gnu/packages/maths.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 5aa3c50fd2..c6d67a1bcb 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -401,6 +401,7 @@ (define-public python-cvxopt
(add-after 'unpack 'find-libraries
(lambda* (#:key inputs #:allow-other-keys)
(setenv "CVXOPT_BLAS_LIB" "openblas")
+ (setenv "CVXOPT_LAPACK_LIB" "openblas")
(setenv "CVXOPT_BUILD_FFTW" "1")
(setenv "CVXOPT_BUILD_GLPK" "1")
(setenv "CVXOPT_BUILD_GSL" "1")
@@ -409,7 +410,6 @@ (define-public python-cvxopt
(list fftw
glpk
gsl
- lapack
openblas
suitesparse))
(home-page "https://www.cvxopt.org")
--
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Message #92 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/machine-learning.scm (dlib): Remove dependency on lapack.
Change-Id: I1e230cef64f1a847bb44845ebf3f59e7f4704b7b
---
gnu/packages/machine-learning.scm | 1 -
1 file changed, 1 deletion(-)
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
index e51877411d..4315d0d5b9 100644
--- a/gnu/packages/machine-learning.scm
+++ b/gnu/packages/machine-learning.scm
@@ -1650,7 +1650,6 @@ (define-public dlib
libnsl))
(inputs
`(("giflib" ,giflib)
- ("lapack" ,lapack)
("libjpeg" ,libjpeg-turbo)
("libpng" ,libpng)
("libx11" ,libx11)
--
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Message #95 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/geo.scm (grass): Remove dependency on lapack.
Add 'fix-lapack build phase.
Change-Id: I758a9b2434f0ad9f8b85a5c5cde6d0a80e6defb2
---
gnu/packages/geo.scm | 6 +++++-
1 file changed, 5 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/geo.scm b/gnu/packages/geo.scm
index 687effcace..6d3162b10d 100644
--- a/gnu/packages/geo.scm
+++ b/gnu/packages/geo.scm
@@ -2610,7 +2610,6 @@ (define-public grass
("gdal" ,gdal)
("geos" ,geos)
("glu" ,glu)
- ("lapack" ,lapack)
("libpng" ,libpng)
("libtiff" ,libtiff)
("mesa" ,mesa)
@@ -2644,6 +2643,11 @@ (define-public grass
(guix build python-build-system))
#:phases
(modify-phases %standard-phases
+ (add-after 'unpack 'fix-lapack
+ (lambda _
+ (substitute* "./configure"
+ (("-lblas") "-lopenblas")
+ (("-llapack") "-lopenblas"))))
(replace 'configure
(lambda* (#:key inputs outputs #:allow-other-keys)
(let ((shell (search-input-file inputs "/bin/bash")))
--
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Message #98 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/algebra.scm (giac): Switch input dependency from
lapack to openblas.
Change-Id: I1ba95b5b606baf3192fdd3f651c9a74ab6e820c1
---
gnu/packages/algebra.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/algebra.scm b/gnu/packages/algebra.scm
index 90507ebd90..5ec47428fc 100644
--- a/gnu/packages/algebra.scm
+++ b/gnu/packages/algebra.scm
@@ -413,7 +413,6 @@ (define-public giac
glpk-4
gmp
gsl
- lapack
libjpeg-turbo
libpng
libsamplerate
@@ -425,6 +424,7 @@ (define-public giac
mpfi
mpfr
ntl
+ openblas
pari-gp
perl
tcsh))
--
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Message #101 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (libflame): Switch input dependency from
lapack to openblas.
Change-Id: I7abdb8d126856488b0722b73c336309bf5c2234d
---
gnu/packages/maths.scm | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index c6d67a1bcb..3d955e7e18 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2763,9 +2763,9 @@ (define-public libflame
(lambda* (#:key tests? #:allow-other-keys)
(substitute* "test/Makefile"
(("LIBBLAS .*")
- "LIBBLAS = -lblas\n")
+ "LIBBLAS = -lopenblas\n")
(("LIBLAPACK .*")
- "LIBLAPACK = -llapack\n"))
+ "LIBLAPACK = -lopenblas\n"))
(when tests?
(with-directory-excursion "test"
(mkdir "obj")
@@ -2784,7 +2784,7 @@ (define-public libflame
"/include/FLAME.h")
(string-append static "/include"))))))))
(inputs (list gfortran))
- (native-inputs (list lapack perl python-wrapper))
+ (native-inputs (list openblas perl python-wrapper))
(synopsis "High-performance library for @acronym{DLA, dense linear algebra} computations")
(description "@code{libflame} is a portable library for dense matrix
computations, providing much of the functionality present in LAPACK, developed
--
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Message #104 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/lisp.scm (lush2): Remove dependency on lapack.
Change-Id: Idb7734e93021d6be9f65a5a0f9c4da4581786aee
---
gnu/packages/lisp.scm | 1 -
1 file changed, 1 deletion(-)
diff --git a/gnu/packages/lisp.scm b/gnu/packages/lisp.scm
index c58e56b7a7..ecc22107aa 100644
--- a/gnu/packages/lisp.scm
+++ b/gnu/packages/lisp.scm
@@ -874,7 +874,6 @@ (define-public lush2
("sdl-mixer" ,sdl-mixer)
("sdl-net" ,sdl-net)
("sdl-ttf" ,sdl-ttf)
- ("lapack" ,lapack)
("libxft" ,libxft)
("fontconfig" ,fontconfig)
("gsl" ,gsl)
--
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Message #107 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (scilab): Remove dependency on lapack.
Change-Id: I5c825c9e6eee6f7fbde078c67d3208fcadf100b6
---
gnu/packages/maths.scm | 1 -
1 file changed, 1 deletion(-)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index a544aa12af..5aa3c50fd2 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -9776,7 +9776,6 @@ (define-public scilab
fftw
gettext-minimal
hdf5-1.10
- lapack
libarchive
libx11
libxml2
--
2.41.0
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Message #110 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/machine-learning.scm (shogun): Switch from lapack to
openblas dependency.
Change-Id: Ib8dde7d9ed9df4bda0eab945f3098a28d0e5927b
---
gnu/packages/machine-learning.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
index 4315d0d5b9..005ae0a8d5 100644
--- a/gnu/packages/machine-learning.scm
+++ b/gnu/packages/machine-learning.scm
@@ -1255,7 +1255,7 @@ (define (delete-ifdefs file)
("hdf5" ,hdf5)
("atlas" ,atlas)
("arpack" ,arpack-ng)
- ("lapack" ,lapack)
+ ("openblas" ,openblas)
("glpk" ,glpk)
("libxml2" ,libxml2)
("lzo" ,lzo)
--
2.41.0
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(Mon, 11 Mar 2024 11:10:17 GMT)
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Message #113 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/machine-learning.scm (kaldi-for-vosk): Remove dependency
to lapack.
Change-Id: I0f5f508288ccb2e7fd086aabeffb5b0b4d3f96b2
---
gnu/packages/machine-learning.scm | 4 +---
1 file changed, 1 insertion(+), 3 deletions(-)
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
index 005ae0a8d5..aa375b0c34 100644
--- a/gnu/packages/machine-learning.scm
+++ b/gnu/packages/machine-learning.scm
@@ -2517,7 +2517,6 @@ (define kaldi-for-vosk
(base32 "16w90za8narkfi590cxj4p7vc1f5sdxc927g5hk6kh4l3mf6iisl"))))
(inputs
(list alsa-lib
- lapack ;compared to base kaldi, replacing `(,gfortran "lib")
glib
gstreamer
jack-2
@@ -2536,7 +2535,6 @@ (define kaldi-for-vosk
(replace 'configure
(lambda _
(let ((portaudio #$(this-package-input "portaudio"))
- (lapack #$(this-package-input "lapack"))
(openfst #$(this-package-input "openfst"))
(openblas #$(this-package-input "openblas")))
#$@(if (target-x86?)
@@ -2570,7 +2568,7 @@ (define kaldi-for-vosk
(string-append "OPENBLASROOT=\"" openblas "\""))
(("-L\\$OPENBLASLIBDIR -l:libopenblas.a -l:libblas.a -l:liblapack.a -l:libf2c.a")
(string-append "-L$OPENBLASLIBDIR -lopenblas "
- "-L" lapack "/lib -lblas -llapack")))
+ "-L" openblas "/lib -lopenblas")))
(mkdir-p #$output) ; must exist
(setenv "CONFIG_SHELL" (which "bash"))
(setenv "OPENFST_VER" #$(package-version openfst))
--
2.41.0
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(Mon, 11 Mar 2024 11:22:01 GMT)
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Message #116 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/bioinformatics.scm (plink): Switch input dependency from
lapack to openblas.
Change-Id: I8066a50c880b72a77ba00c2bc39403e212605b9d
---
gnu/packages/bioinformatics.scm | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index b8ecea013c..8b2fe2d017 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -9599,8 +9599,8 @@ (define-public plink
(arguments
`(#:tests? #f ;no "check" target
#:make-flags ,#~(list (string-append "LIB_LAPACK="
- #$(this-package-input "lapack")
- "/lib/liblapack.so")
+ #$(this-package-input "openblas")
+ "/lib/libopenblas.so")
"WITH_LAPACK=1"
"FORCE_DYNAMIC=1"
;; disable phoning home
@@ -9615,7 +9615,7 @@ (define-public plink
"/bin/")))
(install-file "plink" bin)))))))
(inputs
- (list zlib lapack))
+ (list zlib openblas))
(native-inputs
(list unzip gcc-8))
(home-page "http://pngu.mgh.harvard.edu/~purcell/plink/")
--
2.41.0
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bug#69729; Package
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(Mon, 11 Mar 2024 11:22:02 GMT)
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Message #119 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/engineering.scm (mpb): Switch input dependency from
lapack to openblas.
Change-Id: Ie5920a0014942642360660f7022f887af4eab721
---
gnu/packages/engineering.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/engineering.scm b/gnu/packages/engineering.scm
index ae287cf51b..0b6f1f14f3 100644
--- a/gnu/packages/engineering.scm
+++ b/gnu/packages/engineering.scm
@@ -1682,7 +1682,7 @@ (define-public mpb
("gsl" ,gsl)
("guile" ,guile-2.2)
("hdf5" ,hdf5)
- ("lapack" ,lapack)
+ ("openblas" ,openblas)
("libctl" ,guile-libctl)
("readline" ,readline)
("zlib" ,zlib)))
--
2.41.0
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(Mon, 11 Mar 2024 11:22:02 GMT)
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Message #122 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/apl.scm (apl): Switch input dependency from
lapack to openblas.
Change-Id: I29f27ee4c9277cf21fa34d718e56291427293cdf
---
gnu/packages/apl.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/apl.scm b/gnu/packages/apl.scm
index afe02736ad..0b56c8b088 100644
--- a/gnu/packages/apl.scm
+++ b/gnu/packages/apl.scm
@@ -56,7 +56,7 @@ (define-public apl
(home-page "https://www.gnu.org/software/apl/")
(inputs
(list gettext-minimal
- lapack
+ openblas
pcre2
readline
sqlite))
--
2.41.0
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(Mon, 11 Mar 2024 11:22:02 GMT)
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Message #125 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/engineering.scm (harminv): Switch input dependency from
lapack to openblas.
Change-Id: Id6e85550f3559afde6732346e299486b3255cebe
---
gnu/packages/engineering.scm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gnu/packages/engineering.scm b/gnu/packages/engineering.scm
index d6552739c6..2eddc40f50 100644
--- a/gnu/packages/engineering.scm
+++ b/gnu/packages/engineering.scm
@@ -1616,7 +1616,7 @@ (define-public harminv
(native-inputs
`(("fortran" ,gfortran)))
(inputs
- (list lapack))
+ (list openblas))
(home-page "https://github.com/stevengj/harminv")
(synopsis "Harmonic inversion solver")
(description
--
2.41.0
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(Mon, 11 Mar 2024 11:22:03 GMT)
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Message #128 received at 69729 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/ocaml.scm (ocaml-lacaml): Remove dependency on lapack.
Change-Id: If3100fc29088110705e13e9be97abb7739f2fcab
---
gnu/packages/ocaml.scm | 9 +++++++--
1 file changed, 7 insertions(+), 2 deletions(-)
diff --git a/gnu/packages/ocaml.scm b/gnu/packages/ocaml.scm
index 0f4c351141..a45b2d3592 100644
--- a/gnu/packages/ocaml.scm
+++ b/gnu/packages/ocaml.scm
@@ -8344,9 +8344,14 @@ (define-public ocaml-lacaml
(properties '((tunable? . #t)))
(build-system dune-build-system)
(arguments
- `(#:tests? #f)) ; No test target.
+ (list #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'find-openblas
+ (lambda* _
+ (setenv "LACAML_LIBS" "-lopenblas"))))
+ #:tests? #f)) ; No test target.
(native-inputs
- (list openblas lapack ocaml-base ocaml-stdio))
+ (list openblas ocaml-base ocaml-stdio))
(home-page "https://mmottl.github.io/lacaml/")
(synopsis
"OCaml-bindings to BLAS and LAPACK")
--
2.41.0
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bug#69729; Package
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(Thu, 28 Mar 2024 10:42:02 GMT)
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Message #131 received at 69729 <at> debbugs.gnu.org (full text, mbox):
Hello,
Romain GARBAGE <romain.garbage <at> inria.fr> skribis:
> This patch series aims at improving the performance of several packages by changing the LAPACK library they depend on.
>
> The package `lapack` is the reference implementation from netlib.org of a numerical linear algebra library, written in FORTRAN.
>
> The package `openblas` is a optimized implementation of the LAPACK and BLAS APIs.
>
> Among the modified packages affected by the change, the following don't build:
> * shogun: atlas dependency doesn't build (pre-existing error)
> * lush2: preexisting error
> * proteinortho: preexisting error (tests 2 and 3 fail)
> * superlu-dist: dependency failure (combinatorial-blas)
>
>
> Also, the following packages have not been modified as it breaks the package:
> * xyce-serial
> * xyce-parallel
> * gnss-sdr
> * julia
<https://qa.guix.gnu.org/issue/69729> hasn’t processed it yet but it’s
already been more than two weeks. Given that you tested all the
dependents on guix.bordeaux.inria.fr, I’m willing to go ahead and push
the series within a few days even if qa.guix hasn’t caught up yet.
Thoughts?
Ludo’.
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(Tue, 02 Apr 2024 20:53:02 GMT)
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Message #134 received at 69729 <at> debbugs.gnu.org (full text, mbox):
[Message part 1 (text/plain, inline)]
Ludovic Courtès <ludovic.courtes <at> inria.fr> writes:
> Hello,
>
> Romain GARBAGE <romain.garbage <at> inria.fr> skribis:
>
>> This patch series aims at improving the performance of several packages by changing the LAPACK library they depend on.
>>
>> The package `lapack` is the reference implementation from netlib.org of a numerical linear algebra library, written in FORTRAN.
>>
>> The package `openblas` is a optimized implementation of the LAPACK and BLAS APIs.
>>
>> Among the modified packages affected by the change, the following don't build:
>> * shogun: atlas dependency doesn't build (pre-existing error)
>> * lush2: preexisting error
>> * proteinortho: preexisting error (tests 2 and 3 fail)
>> * superlu-dist: dependency failure (combinatorial-blas)
>>
>>
>> Also, the following packages have not been modified as it breaks the package:
>> * xyce-serial
>> * xyce-parallel
>> * gnss-sdr
>> * julia
>
> <https://qa.guix.gnu.org/issue/69729> hasn’t processed it yet but it’s
> already been more than two weeks. Given that you tested all the
> dependents on guix.bordeaux.inria.fr, I’m willing to go ahead and push
> the series within a few days even if qa.guix hasn’t caught up yet.
QA shouldn't block things, especially at the moment when it's not
keeping up. So yeah, please push.
[signature.asc (application/pgp-signature, inline)]
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to
Ludovic Courtès <ludovic.courtes <at> inria.fr>:
You have taken responsibility.
(Thu, 04 Apr 2024 15:18:02 GMT)
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Notification sent
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Romain GARBAGE <romain.garbage <at> inria.fr>:
bug acknowledged by developer.
(Thu, 04 Apr 2024 15:18:02 GMT)
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Message #139 received at 69729-done <at> debbugs.gnu.org (full text, mbox):
Hello,
Romain GARBAGE <romain.garbage <at> inria.fr> skribis:
> gnu: arpack-ng: Switch to openblas.
> gnu: armadillo: Switch to openblas.
> gnu: octave-cli: Switch to openblas.
> gnu: scalapack: Switch to openblas.
> gnu: hypre: Switch to openblas.
> gnu: igraph: Switch to openblas.
> gnu: vosk-api: Remove dependency on lapack.
> gnu: jags: Switch to openblas.
> gnu: sbcl-lla: Switch to openblas.
> gnu: itpp: Switch to openblas.
> gnu: gmsh: Switch to openblas.
> gnu: ghc-hmatrix: Switch to openblas.
> gnu: fenics-dolfin: Remove dependency on lapack.
> gnu: ipopt: Switch to openblas.
> gnu: ceres: Remove dependency on lapack.
> gnu: sundials-julia: Switch to openblas.
> gnu: plink: Switch to openblas.
> gnu: p4est: Remove dependency on lapack.
> gnu: plink-ng: Remove lapack dep.
> gnu: dealii: Remove dependency on lapack.
> gnu: elemental: Remove dependency on lapack.
> gnu: superlu-dist: Remove dependency on lapack.
> gnu: bonmin: Switch to openblas.
> gnu: mpb: Switch to openblas.
> gnu: meep: Switch to openblas.
> gnu: casacore: Remove dependency on lapack.
> gnu: aoflagger: Remove dependency on lapack.
> gnu: apl: Switch to openblas.
> gnu: eigensoft: Remove dependency on lapack.
> gnu: proteinortho: Remove dependency on lapack.
> gnu: scilab: Remove dependency on lapack.
> gnu: python-cvxopt: Remove dependency on lapack.
> gnu: dlib: Remove dependency on lapack.
> gnu: grass: Remove dependency on lapack.
> gnu: harminv: Switch to openblas.
> gnu: giac: Switch to openblas.
> gnu: libflame: Switch to openblas.
> gnu: lush2: Remove dependency on lapack.
> gnu: shogun: Switch to openblas.
> gnu: kaldi-for-vosk: Remove dependency on lapack.
> gnu: ocaml-lacaml: Remove dependency on lapack.
Pushed as e6df74d2b1afb71121228330fce9b5020d00220a.
Thanks!
Ludo’.
bug archived.
Request was from
Debbugs Internal Request <help-debbugs <at> gnu.org>
to
internal_control <at> debbugs.gnu.org.
(Fri, 03 May 2024 11:24:06 GMT)
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