GNU bug report logs -
#75284
[PATCH] gnu: Add netcdf-cxx4 and netcdf-cxx4-parallel-openmpi.
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Reported by: Lars Bilke <lars.bilke <at> ufz.de>
Date: Thu, 2 Jan 2025 13:53:02 UTC
Severity: normal
Tags: patch
Done: Ludovic Courtès <ludo <at> gnu.org>
Bug is archived. No further changes may be made.
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Report forwarded
to
andreas <at> enge.fr, bavier <at> posteo.net, sharlatanus <at> gmail.com, guix-patches <at> gnu.org:
bug#75284; Package
guix-patches.
(Thu, 02 Jan 2025 13:53:03 GMT)
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Acknowledgement sent
to
Lars Bilke <lars.bilke <at> ufz.de>:
New bug report received and forwarded. Copy sent to
andreas <at> enge.fr, bavier <at> posteo.net, sharlatanus <at> gmail.com, guix-patches <at> gnu.org.
(Thu, 02 Jan 2025 13:53:04 GMT)
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Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (netcdf-cxx4): New variable.
* gnu/packages/maths.scm (netcdf-cxx4-parallel-openmpi: New variable.
Change-Id: I9781aa31567b80e20c528abb5e9289bc625bb3eb
---
gnu/packages/maths.scm | 60 ++++++++++++++++++++++++++++++++++++++++++
1 file changed, 60 insertions(+)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 22e2822c8c..71ea757e0e 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2381,6 +2381,66 @@ (define-public netcdf-fortran
(home-page (package-home-page netcdf))
(license (package-license netcdf))))
+(define-public netcdf-cxx4
+ (package
+ (name "netcdf-cxx4")
+ (synopsis "NetCDF C++ interface")
+ (license license:bsd-3)
+ (description "C++ interface for NetCDF.")
+ (home-page "https://github.com/Unidata/netcdf-cxx4")
+ (version "4.3.1")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/Unidata/netcdf-cxx4")
+ (commit (string-append "v" version))))
+ (sha256
+ (base32 "05kydd5z9iil5iv4fp7l11cicda5n5lsg5sdmsmc55xpspnsg7hr"))))
+ (build-system cmake-build-system)
+ (inputs (list netcdf hdf5))
+ (arguments
+ `(#:phases (modify-phases %standard-phases
+ (add-before 'configure 'patch-configure
+ (lambda _
+ (substitute* "libnetcdf-cxx.settings.in"
+ ;; Don't record the build-time host, time and gcc path to make the
+ ;; settings file reproducible.
+ (("@CONFIG_DATE@")
+ "Not set (Guix build)")
+ (("@host_cpu@-@host_vendor@-@host_os@")
+ "Linux")
+ (("@CC_VERSION@")
+ "gcc"))
+ ;; The filter tests fail with 'Caught unexpected exception'.
+ (substitute* "cxx4/CMakeLists.txt"
+ (("add_bin_test\\(cxx4 test_filter\\)")
+ ""))
+ (substitute* "examples/CMakeLists.txt"
+ (("add_sh_test\\(examples tst_filter\\)")
+ ""))))
+ (add-after 'install 'clear-reference-to-compiler
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ ;; Do not retain a reference to GCC and other build only inputs.
+ (let ((out (assoc-ref outputs "out")))
+ (substitute* (string-append out "/bin/ncxx4-config")
+ (("cc=([[:graph:]]+)/bin/gcc")
+ "cc=\"gcc")
+ (("cxx=([[:graph:]]+)/bin/c\\+\\+")
+ "cxx=\"c++"))))))
+ #:configure-flags (list (string-append "-DHDF5_C_LIBRARY_hdf5="
+ (assoc-ref %build-inputs "hdf5")
+ "/lib/libhdf5.so"))))))
+
+(define-public netcdf-cxx4-parallel-openmpi
+ (package
+ (inherit netcdf-cxx4)
+ (name "netcdf-cxx4-parallel-openmpi")
+ (inputs (modify-inputs (package-inputs netcdf-cxx4)
+ (prepend openmpi)
+ (replace "hdf5" hdf5-parallel-openmpi)
+ (replace "netcdf" netcdf-parallel-openmpi)))))
+
(define-public n2p2
(package
(name "n2p2")
base-commit: ab43d883a0a88adbcfd3c3ab8d4c097cd9054b90
--
2.46.1
Information forwarded
to
andreas <at> enge.fr, bavier <at> posteo.net, sharlatanus <at> gmail.com, guix-patches <at> gnu.org:
bug#75284; Package
guix-patches.
(Fri, 03 Jan 2025 07:22:01 GMT)
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Message #8 received at 75284 <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/maths.scm (netcdf-cxx4): New variable.
* gnu/packages/maths.scm (netcdf-cxx4-parallel-openmpi: New variable.
Change-Id: I9781aa31567b80e20c528abb5e9289bc625bb3eb
---
gnu/packages/maths.scm | 60 ++++++++++++++++++++++++++++++++++++++++++
1 file changed, 60 insertions(+)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 22e2822c8c..dee8c0636a 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2381,6 +2381,66 @@ (define-public netcdf-fortran
(home-page (package-home-page netcdf))
(license (package-license netcdf))))
+(define-public netcdf-cxx4
+ (package
+ (name "netcdf-cxx4")
+ (version "4.3.1")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/Unidata/netcdf-cxx4")
+ (commit (string-append "v" version))))
+ (sha256
+ (base32 "05kydd5z9iil5iv4fp7l11cicda5n5lsg5sdmsmc55xpspnsg7hr"))))
+ (build-system cmake-build-system)
+ (arguments
+ `(#:phases (modify-phases %standard-phases
+ (add-before 'configure 'patch-configure
+ (lambda _
+ (substitute* "libnetcdf-cxx.settings.in"
+ ;; Don't record the build-time host, time and gcc path to make the
+ ;; settings file reproducible.
+ (("@CONFIG_DATE@")
+ "Not set (Guix build)")
+ (("@host_cpu@-@host_vendor@-@host_os@")
+ "Linux")
+ (("@CC_VERSION@")
+ "gcc"))
+ ;; The filter tests fail with 'Caught unexpected exception'.
+ (substitute* "cxx4/CMakeLists.txt"
+ (("add_bin_test\\(cxx4 test_filter\\)")
+ ""))
+ (substitute* "examples/CMakeLists.txt"
+ (("add_sh_test\\(examples tst_filter\\)")
+ ""))))
+ (add-after 'install 'clear-reference-to-compiler
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ ;; Do not retain a reference to GCC and other build only inputs.
+ (let ((out (assoc-ref outputs "out")))
+ (substitute* (string-append out "/bin/ncxx4-config")
+ (("cc=([[:graph:]]+)/bin/gcc")
+ "cc=\"gcc")
+ (("cxx=([[:graph:]]+)/bin/c\\+\\+")
+ "cxx=\"c++"))))))
+ #:configure-flags (list (string-append "-DHDF5_C_LIBRARY_hdf5="
+ (assoc-ref %build-inputs "hdf5")
+ "/lib/libhdf5.so"))))
+ (inputs (list netcdf hdf5))
+ (home-page "https://github.com/Unidata/netcdf-cxx4")
+ (synopsis "NetCDF C++ interface")
+ (description "C++ interface for NetCDF.")
+ (license license:bsd-3)))
+
+(define-public netcdf-cxx4-parallel-openmpi
+ (package
+ (inherit netcdf-cxx4)
+ (name "netcdf-cxx4-parallel-openmpi")
+ (inputs (modify-inputs (package-inputs netcdf-cxx4)
+ (prepend openmpi)
+ (replace "hdf5" hdf5-parallel-openmpi)
+ (replace "netcdf" netcdf-parallel-openmpi)))))
+
(define-public n2p2
(package
(name "n2p2")
base-commit: ab43d883a0a88adbcfd3c3ab8d4c097cd9054b90
--
2.46.1
Reply sent
to
Ludovic Courtès <ludo <at> gnu.org>:
You have taken responsibility.
(Sun, 19 Jan 2025 23:13:02 GMT)
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Notification sent
to
Lars Bilke <lars.bilke <at> ufz.de>:
bug acknowledged by developer.
(Sun, 19 Jan 2025 23:13:02 GMT)
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Message #13 received at 75284-done <at> debbugs.gnu.org (full text, mbox):
[Message part 1 (text/plain, inline)]
Hi,
Lars Bilke <lars.bilke <at> ufz.de> skribis:
> * gnu/packages/maths.scm (netcdf-cxx4): New variable.
> * gnu/packages/maths.scm (netcdf-cxx4-parallel-openmpi: New variable.
>
> Change-Id: I9781aa31567b80e20c528abb5e9289bc625bb3eb
Applied with the changes below: addressing a ‘guix lint’ issue, and
following the conventions at
<https://guix.gnu.org/manual/devel/en/html_node/Synopses-and-Descriptions.html>.
Thanks,
Ludo’.
[Message part 2 (text/x-patch, inline)]
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 5f40f751d3..4e3ea6df26 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2391,6 +2391,7 @@ (define-public netcdf-cxx4
(uri (git-reference
(url "https://github.com/Unidata/netcdf-cxx4")
(commit (string-append "v" version))))
+ (file-name (git-file-name name version))
(sha256
(base32 "05kydd5z9iil5iv4fp7l11cicda5n5lsg5sdmsmc55xpspnsg7hr"))))
(build-system cmake-build-system)
@@ -2424,18 +2425,22 @@ (define-public netcdf-cxx4
(("cxx=([[:graph:]]+)/bin/c\\+\\+")
"cxx=\"c++"))))))
#:configure-flags (list (string-append "-DHDF5_C_LIBRARY_hdf5="
- (assoc-ref %build-inputs "hdf5")
- "/lib/libhdf5.so"))))
+ (search-input-file
+ %build-inputs
+ "/lib/libhdf5.so")))))
(inputs (list netcdf hdf5))
(home-page "https://github.com/Unidata/netcdf-cxx4")
(synopsis "NetCDF C++ interface")
- (description "C++ interface for NetCDF.")
+ (description
+ "This package provides a C++ interface to the NetCDF library for
+scientific data storage.")
(license license:bsd-3)))
(define-public netcdf-cxx4-parallel-openmpi
(package
(inherit netcdf-cxx4)
(name "netcdf-cxx4-parallel-openmpi")
+ (synopsis "NetCDF C++ interface (with MPI support)")
(inputs (modify-inputs (package-inputs netcdf-cxx4)
(prepend openmpi)
(replace "hdf5" hdf5-parallel-openmpi)
bug archived.
Request was from
Debbugs Internal Request <help-debbugs <at> gnu.org>
to
internal_control <at> debbugs.gnu.org.
(Mon, 17 Feb 2025 12:24:14 GMT)
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This bug report was last modified 24 days ago.
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