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gnu: eigensoft: Update to 7.2.1.
* gnu/packages/bioinformatics.scm (eigensoft): Update to 7.2.1. [arguments]: Remove Makefile modification.
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1 changed files with 52 additions and 61 deletions
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@ -2274,72 +2274,63 @@ (define-public discrover
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(license license:gpl3+)))
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(define-public eigensoft
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(let ((revision "1")
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(commit "b14d1e202e21e532536ff8004f0419cd5e259dc7"))
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(package
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(name "eigensoft")
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(version (string-append "6.1.2-"
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revision "."
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(string-take commit 9)))
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(source
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(origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/DReichLab/EIG.git")
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(commit commit)))
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(file-name (string-append "eigensoft-" commit "-checkout"))
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(sha256
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(base32
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"0f5m6k2j5c16xc3xbywcs989xyc26ncy1zfzp9j9n55n9r4xcaiq"))
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(modules '((guix build utils)))
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;; Remove pre-built binaries.
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(snippet '(begin
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(delete-file-recursively "bin")
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(mkdir "bin")
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#t))))
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(build-system gnu-build-system)
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(arguments
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`(#:tests? #f ; There are no tests.
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#:make-flags '("CC=gcc")
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#:phases
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(modify-phases %standard-phases
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;; There is no configure phase, but the Makefile is in a
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;; sub-directory.
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(replace 'configure
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(lambda _
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(chdir "src")
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;; The link flags are incomplete.
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(substitute* "Makefile"
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(("-lgsl") "-lgsl -lm -llapack -llapacke -lpthread"))
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#t))
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;; The provided install target only copies executables to
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;; the "bin" directory in the build root.
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(add-after 'install 'actually-install
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(lambda* (#:key outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(bin (string-append out "/bin")))
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(for-each (lambda (file)
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(install-file file bin))
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(find-files "../bin" ".*"))
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#t))))))
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(inputs
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`(("gsl" ,gsl)
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("lapack" ,lapack)
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("openblas" ,openblas)
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("perl" ,perl)
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("gfortran" ,gfortran "lib")))
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(home-page "https://github.com/DReichLab/EIG")
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(synopsis "Tools for population genetics")
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(description "The EIGENSOFT package provides tools for population
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(package
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(name "eigensoft")
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(version "7.2.1")
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(source
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(origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/DReichLab/EIG.git")
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(commit (string-append "v" version))))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"1c141fqvhnzibmnf22sv23vbmzm20kjjyrib44cfh75wyndp2d9k"))
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(modules '((guix build utils)))
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;; Remove pre-built binaries.
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(snippet '(begin
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(delete-file-recursively "bin")
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(mkdir "bin")
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#t))))
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(build-system gnu-build-system)
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(arguments
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`(#:tests? #f ; There are no tests.
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#:make-flags '("CC=gcc")
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#:phases
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(modify-phases %standard-phases
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;; There is no configure phase, but the Makefile is in a
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;; sub-directory.
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(replace 'configure
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(lambda _ (chdir "src") #t))
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;; The provided install target only copies executables to
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;; the "bin" directory in the build root.
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(add-after 'install 'actually-install
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(lambda* (#:key outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(bin (string-append out "/bin")))
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(for-each (lambda (file)
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(install-file file bin))
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(find-files "../bin" ".*"))
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#t))))))
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(inputs
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`(("gsl" ,gsl)
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("lapack" ,lapack)
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("openblas" ,openblas)
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("perl" ,perl)
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("gfortran" ,gfortran "lib")))
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(home-page "https://github.com/DReichLab/EIG")
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(synopsis "Tools for population genetics")
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(description "The EIGENSOFT package provides tools for population
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genetics and stratification correction. EIGENSOFT implements methods commonly
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used in population genetics analyses such as PCA, computation of Tracy-Widom
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statistics, and finding related individuals in structured populations. It
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comes with a built-in plotting script and supports multiple file formats and
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quantitative phenotypes.")
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;; The license of the eigensoft tools is Expat, but since it's
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;; linking with the GNU Scientific Library (GSL) the effective
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;; license is the GPL.
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(license license:gpl3+))))
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;; The license of the eigensoft tools is Expat, but since it's
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;; linking with the GNU Scientific Library (GSL) the effective
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;; license is the GPL.
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(license license:gpl3+)))
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(define-public edirect
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(package
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