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| author | Ricardo Wurmus <rekado@elephly.net> | 2024-03-14 21:01:00 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2024-03-14 21:01:37 +0100 |
| commit | efe62c5ed38a09d7467a6c1c3d5f509d284ad290 (patch) | |
| tree | 991d192f4b25148607294ca69432f15e916b40d6 /gnu/packages | |
| parent | 7319b4d5286d31a9c6a889e81af72308efdaab41 (diff) | |
gnu: Add morpheus.
* gnu/packages/bioinformatics.scm (morpheus): New variable.
Co-authored-by: Navid Afkhami <navid.afkhami@mdc-berlin.de>
Change-Id: I4bf14414f497ff17690b1d26420d442d236fd6b5
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 63 |
1 files changed, 63 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index b8ecea013c..dd51f73d5b 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -9308,6 +9308,69 @@ viewer.") (delete 'patch-tests) (delete 'configure)))))))) +(define-public morpheus + (package + (name "morpheus") + (version "2.3.6") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://gitlab.com/morpheus.lab/morpheus") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1jyzbkz8d39kjicrk3ihcx7yvq5wsynvnlcw922bqqsw8nwnn12c")) + (modules '((guix build utils))) + (snippet + '(begin + (delete-file-recursively "3rdparty/eigen") + (substitute* '("morpheus/core/cpm_shape_tracker.cpp" + "morpheus/core/membranemapper.h" + "morpheus/testing/components/motility/directed_motion_test.cpp" + "morpheus/testing/components/interaction/generator_cell_sorting.cpp" + "morpheus/testing/components/interaction/test_cell_sorting.cpp" + "morpheus/testing/core/cpm/generator_csm_plane.cpp" + "morpheus/testing/test_operators.h") + (("#include \"eigen/") "#include \"eigen3/")))))) + ;; This is for a different Morpheus. + (properties '((lint-hidden-cve "CVE-2022-31261"))) + (build-system cmake-build-system) + (arguments + (list + #:configure-flags + '(list "-DMORPHEUS_GUI=OFF" + "-DBUILD_TESTING=ON" + "-DDOWNLOAD_XTENSOR=OFF") + #:phases + '(modify-phases %standard-phases + (add-after 'unpack 'disable-gtest-download + (lambda _ + (substitute* "3rdparty/CMakeLists.txt" + (("add_subdirectory\\(GTest\\)") "")))) + (replace 'check + (lambda* (#:key tests? #:allow-other-keys) + (when tests? + (invoke "ctest" "--output-junit" "test_results.xml"))))))) + (inputs (list boost + eigen + file + gnuplot + libtiff + libxslt + xsimd + xtensor + xtl + zlib)) + (native-inputs + (list doxygen googletest xxd)) + (home-page "https://gitlab.com/morpheus.lab/morpheus") + (synopsis "Multicellular simulation") + (description + "Morpheus is a modeling and simulation environment for the study of +multi-scale and multicellular systems.") + (license license:bsd-3))) + (define-public mosaik (let ((commit "5c25216d3522d6a33e53875cd76a6d65001e4e67")) (package |