gnu: petsc: Update to 3.16.1.
* gnu/packages/maths.scm (petsc): Update to 3.16.1. [native-inputs]: Use PYTHON instead of PYTHON-2. Add WHICH. [arguments]: Rewrite using gexps. Pass '--with-openblas-dir'. In 'configure' phase, modify "config/example_template.py".
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Ludovic Courtès
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07ac13a26a
@ -2870,7 +2870,7 @@ September 2004}")
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(define-public petsc
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(package
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(name "petsc")
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(version "3.11.2")
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(version "3.16.1")
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(source
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(origin
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(method url-fetch)
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@ -2878,12 +2878,13 @@ September 2004}")
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(uri (string-append "http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/"
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"petsc-lite-" version ".tar.gz"))
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(sha256
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(base32 "1645nwwcp9bcnfnxikk480mhbbacdvhsay2c401818hk97dqj5nx"))))
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(base32 "0sm03vpg010q9icidiq587n325m0598cj6hab2rdv85nwyygg74h"))))
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(outputs '("out" ; libraries and headers
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"examples")) ; ~30MiB of examples
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(build-system gnu-build-system)
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(native-inputs
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`(("python" ,python-2)))
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`(("python" ,python)
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("which" ,which)))
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(inputs
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`(("gfortran" ,gfortran)
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("openblas" ,openblas)
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@ -2892,75 +2893,80 @@ September 2004}")
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;; leaving out opengl, as configuration seems to only be for mac
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))
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(arguments
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`(#:test-target "test"
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#:parallel-build? #f ; build is parallel by default
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#:configure-flags
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`("--with-mpi=0"
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"--with-openmp=1"
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"--with-openblas=1"
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"--with-superlu=1")
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#:make-flags
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;; Honor (parallel-job-count) for build. Do not use --with-make-np,
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;; whose value is dumped to $out/lib/petsc/conf/petscvariables.
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(list (format #f "MAKE_NP=~a" (parallel-job-count)))
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#:phases
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(modify-phases %standard-phases
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(replace 'configure
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;; PETSc's configure script is actually a python script, so we can't
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;; run it with bash.
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(lambda* (#:key outputs (configure-flags '())
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#:allow-other-keys)
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(let* ((prefix (assoc-ref outputs "out"))
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(flags `(,(string-append "--prefix=" prefix)
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,@configure-flags)))
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(format #t "build directory: ~s~%" (getcwd))
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(format #t "configure flags: ~s~%" flags)
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(apply invoke "./configure" flags))))
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(add-after 'configure 'clean-local-references
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(lambda* (#:key outputs #:allow-other-keys)
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(let ((out (assoc-ref outputs "out")))
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(substitute* (find-files "." "^petsc(conf|machineinfo).h$")
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;; Prevent build directory from leaking into compiled code
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(((getcwd)) out)
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;; Scrub timestamp for reproducibility
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((".*Libraries compiled on.*") ""))
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(substitute* (find-files "." "petscvariables")
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;; Do not expose build machine characteristics, set to defaults.
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(("MAKE_NP = [:digit:]+") "MAKE_NP = 2")
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(("NPMAX = [:digit:]+") "NPMAX = 2"))
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#t)))
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(add-after 'install 'clean-install
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;; Try to keep installed files from leaking build directory names.
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(lambda* (#:key inputs outputs #:allow-other-keys)
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(let ((out (assoc-ref outputs "out")))
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(substitute* (map (lambda (file)
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(string-append out "/lib/petsc/conf/" file))
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'("petscvariables"))
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(((getcwd)) out))
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;; Make compiler references point to the store
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(substitute* (string-append out "/lib/petsc/conf/petscvariables")
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(("= (gcc|g\\+\\+|gfortran)" _ compiler)
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(string-append "= " (which compiler))))
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;; PETSc installs some build logs, which aren't necessary.
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(for-each (lambda (file)
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(let ((f (string-append out "/lib/petsc/conf/" file)))
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(when (file-exists? f)
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(delete-file f))))
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'("configure.log" "make.log" "gmake.log"
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"test.log" "error.log" "RDict.db"
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"PETScBuildInternal.cmake"
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;; Once installed, should uninstall with Guix
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"uninstall.py"))
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#t)))
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(add-after 'install 'move-examples
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(lambda* (#:key outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(examples (assoc-ref outputs "examples"))
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(exdir (string-append out "/share/petsc/examples"))
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(exdir' (string-append examples "/share/petsc/examples")))
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(copy-recursively exdir exdir')
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(delete-file-recursively exdir)
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#t))))))
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(list
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#:test-target "test"
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#:parallel-build? #f ; build is parallel by default
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#:configure-flags
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#~(list "--with-mpi=0"
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"--with-openmp=1"
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"--with-openblas=1"
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(string-append "--with-openblas-dir="
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#$(this-package-input "openblas"))
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"--with-superlu=1")
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#:make-flags
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;; Honor (parallel-job-count) for build. Do not use --with-make-np,
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;; whose value is dumped to $out/lib/petsc/conf/petscvariables.
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#~(list (format #f "MAKE_NP=~a" (parallel-job-count)))
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#:phases
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#~(modify-phases %standard-phases
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(replace 'configure
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;; PETSc's configure script is actually a python script, so we can't
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;; run it with bash.
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(lambda* (#:key outputs (configure-flags '())
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#:allow-other-keys)
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(let* ((prefix (assoc-ref outputs "out"))
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(flags `(,(string-append "--prefix=" prefix)
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,@configure-flags)))
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(format #t "build directory: ~s~%" (getcwd))
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(format #t "configure flags: ~s~%" flags)
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(apply invoke "./configure" flags)
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;; Generate test scripts with the right shebang.
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(substitute* "config/example_template.py"
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(("#!/usr/bin/env bash")
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(string-append "#!" (which "bash")))))))
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(add-after 'configure 'clean-local-references
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(lambda* (#:key outputs #:allow-other-keys)
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(let ((out (assoc-ref outputs "out")))
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(substitute* (find-files "." "^petsc(conf|machineinfo).h$")
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;; Prevent build directory from leaking into compiled code
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(((getcwd)) out)
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;; Scrub timestamp for reproducibility
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((".*Libraries compiled on.*") ""))
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(substitute* (find-files "." "petscvariables")
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;; Do not expose build machine characteristics, set to defaults.
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(("MAKE_NP = [:digit:]+") "MAKE_NP = 2")
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(("NPMAX = [:digit:]+") "NPMAX = 2")))))
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(add-after 'install 'clean-install
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;; Try to keep installed files from leaking build directory names.
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(lambda* (#:key inputs outputs #:allow-other-keys)
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(let ((out (assoc-ref outputs "out")))
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(substitute* (map (lambda (file)
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(string-append out "/lib/petsc/conf/" file))
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'("petscvariables"))
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(((getcwd)) out))
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;; Make compiler references point to the store
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(substitute* (string-append out "/lib/petsc/conf/petscvariables")
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(("= (gcc|g\\+\\+|gfortran)" _ compiler)
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(string-append "= " (which compiler))))
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;; PETSc installs some build logs, which aren't necessary.
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(for-each (lambda (file)
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(let ((f (string-append out "/lib/petsc/conf/" file)))
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(when (file-exists? f)
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(delete-file f))))
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'("configure.log" "make.log" "gmake.log"
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"test.log" "error.log" "RDict.db"
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"PETScBuildInternal.cmake"
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;; Once installed, should uninstall with Guix
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"uninstall.py")))))
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(add-after 'install 'move-examples
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(lambda* (#:key outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(examples (assoc-ref outputs "examples"))
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(exdir (string-append out "/share/petsc/examples"))
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(exdir' (string-append examples "/share/petsc/examples")))
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(copy-recursively exdir exdir')
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(delete-file-recursively exdir)))))))
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(home-page "https://www.mcs.anl.gov/petsc")
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(synopsis "Library to solve PDEs")
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(description "PETSc, pronounced PET-see (the S is silent), is a suite of
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