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gnu: python-tables: Update to 3.10.1.

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* gnu/packages/python-xyz.scm (python-tables): Update to 3.10.1.
[source]: Update snippet.
[arguments]: Delete FIXME, which no longer applies to reworked definition.
Delete use-gcc phase.  Delete build phase override.  Add set-LD_LIBRARY_PATH
phase.  Honor TESTS? in check phase.
[propagated-inputs]: Add python-blosc2 and python-typing-extensions.
[inputs]: Add c-blosc2.

Change-Id: Idfed15a617e51c8ec1593d9a35afdcfa132e0740
This commit is contained in:
Maxim Cournoyer 2024-12-17 21:27:24 +09:00
parent 63a2243d58
commit 9ff9ae2e62
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GPG key ID: 1260E46482E63562
1 changed files with 23 additions and 53 deletions
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76
gnu/packages/python-xyz.scm
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@ -52,7 +52,7 @@
;;; Copyright © 2018-2024 Nicolas Goaziou <mail@nicolasgoaziou.fr>
;;; Copyright © 2018 Oleg Pykhalov <go.wigust@gmail.com>
;;; Copyright © 2018, 2019, 2021, 2023 Clément Lassieur <clement@lassieur.org>
;;; Copyright © 2018, 2019, 2020, 2021, 2022, 2023 Maxim Cournoyer <maxim.cournoyer@gmail.com>
;;; Copyright © 2018-2024 Maxim Cournoyer <maxim.cournoyer@gmail.com>
;;; Copyright © 2018 Luther Thompson <lutheroto@gmail.com>
;;; Copyright © 2018 Vagrant Cascadian <vagrant@debian.org>
;;; Copyright © 2015, 2018 Pjotr Prins <pjotr.guix@thebird.nl>
@ -16778,76 +16778,46 @@ tasks, sockets, files, locks, and queues.")
(define-public python-tables
(package
(name "python-tables")
(version "3.7.0")
(version "3.10.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "tables" version))
(sha256
(base32
"1zp1qmas4pgcag9sn0gwd40c6ibn9bg056d6ckjq7agjsrx8hap9"))
(modules '((guix build utils)))
(snippet
'(begin
;; Remove pre-compiled .pyc files from source.
(for-each delete-file-recursively
(find-files "." "__pycache__" #:directories? #t))
(for-each delete-file (find-files "." "\\.pyc$"))
(for-each delete-file
(list "tables/_comp_bzip2.c"
"tables/_comp_lzo.c"
"tables/hdf5extension.c"
"tables/indexesextension.c"
"tables/linkextension.c"
"tables/lrucacheextension.c"
"tables/tableextension.c"
"tables/utilsextension.c"))))))
"1kr6y4qivqy462gva4bqym3x4alhxijfqjplxax3gh5r6k3pm82a"))
(snippet '(begin
(use-modules (guix build utils))
(delete-file-recursively "c-blosc")))))
(build-system python-build-system)
(arguments
(list
#:phases
;; FIXME: python-build-system does not pass configure-flags to "build"
;; or "check", so we must override the build and check phases.
#~(modify-phases %standard-phases
(add-after 'unpack 'use-gcc
(lambda _
(substitute* "setup.py"
(("lib_dirs = \\[\\]")
(string-append "lib_dirs = ["
"'" #$(this-package-input "hdf5") "/lib',"
"'" #$(this-package-input "bzip2") "/lib',"
"'" #$(this-package-input "c-blosc") "/lib',"
"]"))
(("^( +)compiler = new_compiler\\(\\)" line indent)
(string-append line
"\n"
indent
"compiler.set_executables(compiler='gcc',"
"compiler_so='gcc',"
"linker_exe='gcc',"
"linker_so='gcc -shared')")))))
(add-after 'unpack 'disable-tuning
(lambda _
(substitute* "setup.py"
(("cpu_flags = .*")
"cpu_flags = ['sse2']\n"))))
(replace 'build
(lambda* (#:key inputs #:allow-other-keys)
(invoke "python" "setup.py" "build"
(string-append "--hdf5="
(assoc-ref inputs "hdf5")))))
(add-before 'build 'set-LD_LIBRARY_PATH
(lambda _
;; The setup.py build system makes use of ctypes.CDLL, which
;; uses dlopen, which looks up library names from standard
;; locations or LD_LIBRARY_PATH.
(setenv "LD_LIBRARY_PATH" (getenv "LIBRARY_PATH"))))
(replace 'check
(lambda* (#:key inputs #:allow-other-keys)
(invoke "python" "setup.py" "check"
(string-append "--hdf5="
(assoc-ref inputs "hdf5"))))))))
(lambda* (#:key tests? #:allow-other-keys)
(when tests?
(invoke "python" "setup.py" "check")))))))
(propagated-inputs
(list python-numexpr python-numpy python-packaging
python-py-cpuinfo))
(native-inputs
(list python-cython pkg-config))
(inputs
(list c-blosc hdf5-1.10 bzip2 lzo zlib))
(list python-blosc2
python-numpy
python-numexpr
python-packaging
python-py-cpuinfo
python-typing-extensions))
(native-inputs (list pkg-config python-cython))
(inputs (list c-blosc c-blosc2 hdf5-1.10 bzip2 lzo zlib))
(home-page "https://www.pytables.org/")
(synopsis "Hierarchical datasets for Python")
(description "PyTables is a package for managing hierarchical datasets and