@@ 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