From 34a15bce446a401a5c6be60d1b6c8ce641709007 Mon Sep 17 00:00:00 2001
From: "Paul A. Patience" <paul@apatience.com>
Date: Thu, 8 Jul 2021 23:38:51 -0400
Subject: [PATCH] gnu: Add nomad-optimizer.
* gnu/packages/maths.scm (nomad-optimizer): New variable.
---
gnu/packages/maths.scm | 148 +++++++++++++++++++++++++++++++++++++++++
1 file changed, 148 insertions(+)
@@ -1798,6 +1798,154 @@ large-scale nonlinear optimization. It provides C++, C, and Fortran
interfaces.")
(license license:epl2.0)))
+(define-public nomad-optimizer
+ (package
+ (name "nomad-optimizer")
+ (version "4.1.0")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/bbopt/nomad/")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "0w386d8r5ldbvnv0c0g7vz95pfpvwdxis26vaalk2amsa5akl775"))))
+ (build-system cmake-build-system)
+ (native-inputs
+ `(("python" ,python-wrapper)
+ ("python-cython" ,python-cython)))
+ (arguments
+ `(#:imported-modules ((guix build python-build-system)
+ ,@%cmake-build-system-modules)
+ #:modules (((guix build python-build-system)
+ #:select (python-version site-packages))
+ (guix build cmake-build-system)
+ (guix build utils))
+ #:configure-flags
+ '("-DBUILD_INTERFACES=ON"
+ "-DBUILD_TESTS=ON")
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'fix-sources-for-build
+ (lambda* (#:key outputs #:allow-other-keys)
+ (substitute* "CMakeLists.txt"
+ ;; CMAKE_INSTALL_PREFIX is accidentally hardcoded.
+ (("set\\(CMAKE_INSTALL_PREFIX .* FORCE\\)") "")
+ ;; Requiring GCC version 8 or later is unwarranted.
+ (("message\\(FATAL_ERROR \"GCC version < 8")
+ "message(STATUS \"GCC version < 8"))
+
+ (let ((out (assoc-ref outputs "out")))
+ (substitute* "interfaces/PyNomad/CMakeLists.txt"
+ ;; We don't want to build in-place, and anyway the install
+ ;; command further below runs build_ext as a prerequisite.
+ (("COMMAND python setup_PyNomad\\.py .* build_ext --inplace\n")
+ "")
+ ;; Don't install locally.
+ (("COMMAND python (setup_PyNomad\\.py .* install) --user\n"
+ _ args)
+ (string-append "COMMAND ${CMAKE_COMMAND} -E env"
+ " CC=" ,(cc-for-target)
+ " CXX=" ,(cxx-for-target)
+ " " (which "python")
+ " " args
+ " --prefix=" out
+ "\n")))
+ ;; Fix erroneous assumptions about the paths of the include and
+ ;; library directories.
+ (substitute* "interfaces/PyNomad/setup_PyNomad.py"
+ (("^( +os_include_dirs = ).*" _ prefix)
+ (string-append prefix "[\"../../src\"]\n"))
+ (("^(installed_lib_dir = ).*" _ prefix)
+ (string-append prefix "\"" out "/lib\"\n"))))
+ #t))
+
+ ;; Fix the tests so they run in out-of-source builds.
+ (add-after 'fix-sources-for-build 'fix-sources-for-tests
+ (lambda _
+ (substitute*
+ (map (lambda (d) (string-append "examples/" d "/CMakeLists.txt"))
+ (append
+ (map (lambda (d) (string-append "basic/library/" d))
+ '("example1" "example2" "example3"
+ "single_obj_parallel"))
+ (map (lambda (d) (string-append "advanced/library/" d))
+ '("FixedVariable" "NMonly" "PSDMads" "Restart"
+ "c_api/example1" "c_api/example2"
+ "exampleSuggestAndObserve"))))
+ ;; The built examples are assumed to be in the source tree
+ ;; (which isn't the case here).
+ (("(COMMAND \\$\\{CMAKE_BINARY_DIR\\}/examples/runExampleTest\\.sh )\\.(/.*)"
+ _ command test)
+ (string-append command "${CMAKE_CURRENT_BINARY_DIR}" test)))
+ ;; (Unrelated to support for out-of-source testing.)
+ (make-file-writable
+ "examples/advanced/library/exampleSuggestAndObserve/cache0.txt")
+
+ (let* ((builddir (string-append (getcwd) "/../build"))
+ ;; The BB_EXE and SURROGATE_EXE paths are interpreted
+ ;; relative to the configuration file provided to NOMAD.
+ ;; However, the configuration files are all in the source
+ ;; tree rather than in the build tree (unlike the compiled
+ ;; executables).
+ (fix-exe-path (lambda* (dir #:optional
+ (file "param.txt")
+ (exe-opt "BB_EXE"))
+ (substitute* (string-append dir "/" file)
+ (((string-append "^" exe-opt " +"))
+ ;; The $ prevents NOMAD from prefixing
+ ;; the executable with the path of the
+ ;; parent directory of the configuration
+ ;; file NOMAD was provided with as
+ ;; argument (param.txt or some such).
+ (string-append exe-opt " $"
+ builddir "/" dir "/"))))))
+ (for-each
+ (lambda (dir)
+ (let ((dir (string-append "examples/" dir)))
+ (substitute* (string-append dir "/CMakeLists.txt")
+ ;; The install phase has not yet run.
+ (("COMMAND \\$\\{CMAKE_INSTALL_PREFIX\\}/bin/nomad ")
+ "COMMAND ${CMAKE_BINARY_DIR}/src/nomad "))
+ (fix-exe-path dir)
+ (when (equal? dir "examples/basic/batch/surrogate_sort")
+ (fix-exe-path dir "param.txt" "SURROGATE_EXE"))))
+ (append (map (lambda (d) (string-append "basic/batch/" d))
+ '("example1" "example2"
+ "single_obj" "single_obj_parallel"
+ "surrogate_sort"))
+ '("advanced/batch/LHonly")))
+
+ (let ((dir "examples/advanced/batch/FixedVariable"))
+ (substitute* (string-append dir "/runFixed.sh")
+ ;; Hardcoded path to NOMAD executable.
+ (("^\\.\\./\\.\\./\\.\\./\\.\\./bin/nomad ")
+ (string-append builddir "/src/nomad ")))
+ (for-each
+ (lambda (f) (fix-exe-path dir f))
+ '("param1.txt" "param2.txt" "param3.txt" "param10.txt"))))
+ #t))
+
+ ;; The information in the .egg-info file is not kept up to date.
+ (add-after 'install 'delete-superfluous-egg-info
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ (delete-file (string-append
+ (site-packages inputs outputs)
+ "PyNomad-0.0.0-py"
+ (python-version (assoc-ref inputs "python"))
+ ".egg-info"))
+ #t)))))
+ (home-page "https://www.gerad.ca/nomad/")
+ (synopsis "Nonlinear optimization by mesh-adaptive direct search")
+ (description
+ "NOMAD is a C++ implementation of the mesh-adaptive direct search (MADS)
+algorithm, designed for difficult blackbox optimization problems. These
+problems occur when the functions defining the objective and constraints are
+the result of costly computer simulations.")
+ (license license:lgpl3)))
+
(define-public cbc
(package
(name "cbc")
--
2.32.0
On Thursday, July 8th, 2021 at 23:29, Paul A. Patience <paul@apatience.com> wrote: > The attached patch adds the nomad-optimizer package. I forgot to run guix lint. Here is the updated patch. Unfortunately, guix lint complains about a long line, but forcing it to wrap would cause it to become more unreadable, in my opinion. Best regards, Paul