guix/gnu/packages/python-compression.scm

;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2017, 2018, 2023 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017, 2019, 2021, 2022 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2017 Nikita <nikita@n0.is>
;;; Copyright © 2017 Julien Lepiller <julien@lepiller.eu>
;;; Copyright © 2018-2020, 2022 Efraim Flashner <efraim@flashner.co.il>
;;; Copyright © 2020 Nicolas Goaziou <mail@nicolasgoaziou.fr>
;;; Copyright © 2020, 2022 Marius Bakke <marius@gnu.org>
;;; Copyright © 2021 Brendan Tildesley <mail@brendan.scot>
;;;
;;; This file is part of GNU Guix.
;;;
;;; GNU Guix is free software; you can redistribute it and/or modify it
;;; under the terms of the GNU General Public License as published by
;;; the Free Software Foundation; either version 3 of the License, or (at
;;; your option) any later version.
;;;
;;; GNU Guix is distributed in the hope that it will be useful, but
;;; WITHOUT ANY WARRANTY; without even the implied warranty of
;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
;;; GNU General Public License for more details.
;;;
;;; You should have received a copy of the GNU General Public License
;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.

(define-module (gnu packages python-compression)
  #:use-module ((guix licenses) #:prefix license:)
  #:use-module (guix utils)
  #:use-module (guix packages)
  #:use-module (guix download)
  #:use-module (guix gexp)
  #:use-module (guix build-system gnu)
  #:use-module (guix build-system python)
  #:use-module (guix build-system pyproject)
  #:use-module (gnu packages)
  #:use-module (gnu packages libffi)
  #:use-module (gnu packages compression)
  #:use-module (gnu packages check)
  #:use-module (gnu packages maths)
  #:use-module (gnu packages pkg-config)
  #:use-module (gnu packages python)
  #:use-module (gnu packages python-build)
  #:use-module (gnu packages python-check)
  #:use-module (gnu packages python-crypto)
  #:use-module (gnu packages python-xyz)
  #:use-module (gnu packages sphinx))

(define-public python-multivolumefile
  (package
    (name "python-multivolumefile")
    (version "0.2.3")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "multivolumefile" version))
       (sha256
        (base32
         "1mh9sz50s1p8ik83a455pqd57syprad7xhfmk28yb5mwmw58sr50"))))
    (build-system pyproject-build-system)
    (native-inputs
     (list python-setuptools-scm
           python-coverage
           python-coveralls
           python-hypothesis
           python-pyannotate
           python-pytest
           python-pytest-cov))
    (home-page "https://github.com/miurahr/multivolume")
    (synopsis "Treat multiple files as one")
    (description "MultiVolumefile is a Python library that provides a
file-object abstraction, making it possible to use multiple files as if they
were a single file.")
    (license license:lgpl2.1+)))

(define-public python-pybcj
  (package
    (name "python-pybcj")
    (version "1.0.1")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "pybcj" version))
              (sha256
               (base32
                "1hvm3c3mb20z25kmbzyyn6pr5inx50z0ignl8b0bggxaik82ws4b"))))
    (build-system pyproject-build-system)
    (propagated-inputs (list python-importlib-metadata))
    (native-inputs
     (list python-coverage
           python-hypothesis
           python-pytest
           python-pytest-cov
           python-setuptools-scm))
    (home-page "https://codeberg.org/miurahr/pybcj")
    (synopsis "BCJ filter library")
    (description "In data compression, BCJ, short for Branch-Call-Jump, refers
to a technique that improves the compression of machine code of executable
binaries by replacing relative branch addresses with absolute ones. This
allows a LZMA compressor to identify duplicate targets and archive higher
compression rate.  BCJ is used in the 7-zip compression utility as the default
filter for executable binaries.

pybcj provides Python bindings to a BCJ implementation in C.")
    (license license:lgpl2.1+)))

(define-public python-bcj-cffi
  (package
    (name "python-bcj-cffi")
    (version "0.5.0")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "bcj-cffi" version))
       (sha256
        (base32
         "1jcczrb8zgg6w7v76w1wpz3nw75fghk3xwxkn09ll7kck7sdf68d"))))
    (build-system python-build-system)
    (propagated-inputs
     (list python-cffi python-toml python-setuptools-scm))
    (native-inputs
     (list python-setuptools python-coverage python-pytest
           python-pytest-cov))
    (home-page "https://github.com/miurahr/bcj-cffi")
    (synopsis "Branch / Call /Jump CFFI library in Python")
    (description "This package provides an implementation of the Branch / Call /
Jump conversion filter by CFFI for Python.")
    (license license:lgpl2.1+)))

(define-public python-brotlicffi
  (package
    (name "python-brotlicffi")
    (version "1.0.9.2")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "brotlicffi" version))
              (sha256
               (base32
                "15kxgdiqcg0cm6h5xq3vkbhw7674673hcx3n2yicd3wx29l8l90c"))
              (snippet
               #~(begin
                   (use-modules (guix build utils))
                   (delete-file-recursively "libbrotli")))))
    (build-system pyproject-build-system)
    (arguments
     (list
       #:phases
       #~(modify-phases %standard-phases
           (add-after 'unpack 'use-shared-brotli
             (lambda _
               (setenv "USE_SHARED_BROTLI" "1"))))))
    (propagated-inputs (list python-cffi))
    (inputs (list brotli))
    (home-page "https://github.com/python-hyper/brotlicffi")
    (synopsis "Python CFFI bindings to the Brotli library")
    (description "This package provides Python CFFI bindings to the Brotli
library.")
    (license license:expat)))

(define-public python-inflate64
  (package
    (name "python-inflate64")
    (version "0.3.1")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "inflate64" version))
              (sha256
               (base32
                "0767j35gkwaykl1iq9qn8rc25j1ggv56x3d1vzjpk89bzpzdhbdm"))))
    (build-system pyproject-build-system)
    (propagated-inputs (list python-importlib-metadata))
    (native-inputs
     (list python-pyannotate
           python-pytest
           python-setuptools-scm))
    (home-page "https://pypi.org/project/inflate64/")
    (synopsis "deflate64 compression/decompression library")
    (description "The @code{inflate64} package provides @code{Deflater} and
@code{Inflater} classes to compress and decompress with the Enhanced Deflate
compression algorithm.")
    (license license:lgpl2.1+)))

(define-public python-isal
  (package
    (name "python-isal")
    (version "1.1.0")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "isal" version))
       (sha256
        (base32 "01914gwfrb95dagz9sqnsmvc0hssg2pb6aj204fdamss4piz8r0k"))
       ;; Remove bundled isa-l source code
       (modules '((guix build utils)))
       (snippet
        '(delete-file-recursively "src/isal/isa-l"))))
    (build-system pyproject-build-system)
    (arguments
     `(#:phases
       (modify-phases %standard-phases
         (add-after 'unpack 'use-dynamic-linking
           (lambda _ (setenv "PYTHON_ISAL_LINK_DYNAMIC" "1"))))))
    (inputs (list isa-l))
    (native-inputs (list python-cython))
    (home-page "https://github.com/pycompression/python-isal")
    (synopsis "Python bindings for the ISA-L compression library")
    (description
     "This package aims to provide faster zlib and gzip compatible compression
and decompression by implementing Python bindings for the ISA-L library.")
    (license license:expat)))

(define-public python-pyppmd
  (package
    (name "python-pyppmd")
    (version "1.0.0")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "pyppmd" version))
              (sha256
               (base32
                "03w4x26mar0ha73c3v39psn1i0k6xrzwmaxfsxysic73jz99np07"))))
    (build-system pyproject-build-system)
    (native-inputs
     (list python-coverage
           python-hypothesis
           python-pytest
           python-pytest-benchmark
           python-pytest-cov
           python-pytest-timeout
           python-setuptools-scm))
    (home-page "https://github.com/miurahr/pyppmd")
    (synopsis "PPMd compression/decompression library")
    (description "Pyppmd provides classes and functions for compressing and
decompressing text data, using the @dfn{Prediction by partial matching} (PPM)
compression algorithm variation H and I.2.  It provides an API similar to
Python's zlib/bz2/lzma modules.")
    (license license:lgpl2.1+)))

(define-public python-ppmd-cffi
  (package
    (name "python-ppmd-cffi")
    (version "0.5.0")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "ppmd-cffi" version))
       (sha256
        (base32
         "0vprpl29fkflqx0m6anfpx7q7i4cw0d0qxcdm91k4pl82dcad81g"))))
    (build-system python-build-system)
    (propagated-inputs
     (list python-cffi))
    (native-inputs
     (list python-hypothesis
           python-setuptools-scm
           python-coverage
           python-pytest
           python-pytest-cov))
    (home-page "https://github.com/miurahr/ppmd")
    (synopsis "Prediction by Partial Matching compression library")
    (description "PPMd is a compression algorithm library using the Prediction
by Partial Matching statistical technique.  It is used in RAR and 7-Zip as one of
several possible methods.")
    (license license:lgpl2.1+)))

(define-public python-py7zr
  (package
    (name "python-py7zr")
    (version "0.20.2")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "py7zr" version))
       (sha256
        (base32
         "0lwniinfr3rb10n0c203a09vz06vxnnj637yqn8ipdlml89gj7kr"))))
    (build-system pyproject-build-system)
    (propagated-inputs
     (list python-brotli
           python-brotlicffi
           python-importlib-metadata
           python-inflate64
           python-multivolumefile
           python-psutil
           python-pybcj
           python-pycryptodomex
           python-pyppmd
           python-pyzstd
           python-texttable))
    (native-inputs
     (list python-setuptools
           python-setuptools-scm
           python-coverage
           python-coveralls
           python-libarchive-c
           python-py-cpuinfo
           python-pyannotate
           python-pytest
           python-pytest-benchmark
           python-pytest-cov
           python-pytest-remotedata
           python-pytest-timeout))
    (home-page "https://github.com/miurahr/py7zr")
    (synopsis "7-zip in Python")
    (description "This package provides py7zr, which implements 7-zip
archive compression, decompression, encryption and decryption in
Python.")
    (license license:lgpl2.1+)))

(define-public python-lzo
  (package
    (name "python-lzo")
    (version "1.14")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "python-lzo" version))
       (sha256
        (base32 "0315nq6r39n51n8qqamb7xv0ib0qrh76q7g3a1977172mbndijw3"))))
    (build-system python-build-system)
    (arguments
     (list
      #:test-target "check"
      #:phases
      #~(modify-phases %standard-phases
          (add-after 'unpack 'patch-setuppy
            (lambda _
              (substitute* "setup.py"
                (("include_dirs.append\\(.*\\)")
                 (string-append "include_dirs.append('"
                                #$(this-package-input "lzo")
                                "/include/lzo"
                                "')"))))))))
    (inputs
     (list lzo))
    (home-page "https://github.com/jd-boyd/python-lzo")
    (synopsis "Python bindings for the LZO data compression library")
    (description
     "Python-LZO provides Python bindings for LZO, i.e. you can access
the LZO library from your Python scripts thereby compressing ordinary
Python strings.")
    (license license:gpl2+)))

(define-public python-lz4
  (package
    (name "python-lz4")
    (version "4.3.2")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "lz4" version))
       (sha256
        (base32
         "1nmc36j5xnk7mvwwpm0nb1sddjk5iv77h877fdkkxcngm621shz1"))
       (modules '((guix build utils)))
       (snippet '(begin
                   ;; Remove bundled copy of lz4.
                   (delete-file-recursively "lz4libs")))))
    (build-system python-build-system)
    (arguments
     (list #:phases
           #~(modify-phases %standard-phases
               (replace 'check
                 (lambda* (#:key tests? #:allow-other-keys)
                   (when tests?
                     ;; Taken from tox.ini (excludes experimental tests).
                     (invoke "pytest" "-vv" "tests/block" "tests/frame")))))))
    (native-inputs
     (list pkg-config python-pytest python-pkgconfig python-setuptools-scm
           ;; For tests.
           python-psutil))
    (inputs
     (list lz4))
    (home-page "https://github.com/python-lz4/python-lz4")
    (synopsis "LZ4 bindings for Python")
    (description
     "This package provides python bindings for the lz4 compression library
by Yann Collet.  The project contains bindings for the LZ4 block format and
the LZ4 frame format.")
    (license license:bsd-3)))

(define-public python-lzstring
  (package
    (name "python-lzstring")
    (version "1.0.4")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "lzstring" version))
       (sha256
        (base32
         "18ly9pppy2yspxzw7k1b23wk77k7m44rz2g0271bqgqrk3jn3yhs"))))
    (build-system python-build-system)
    (propagated-inputs
     (list python-future))
    (home-page "https://github.com/gkovacs/lz-string-python")
    (synopsis "String compression")
    (description "Lz-string is a string compressor library for Python.")
    (license license:expat)))

(define-public bitshuffle
  (package
    (name "bitshuffle")
    (version "0.3.5")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "bitshuffle" version))
              (sha256
               (base32
                "1823x61kyax4dc2hjmc1xraskxi1193y8lvxd03vqv029jrj8cjy"))
              (modules '((guix build utils)))
              (snippet
               '(begin
                  ;; Remove generated Cython files.
                  (delete-file "bitshuffle/h5.c")
                  (delete-file "bitshuffle/ext.c")
                  #t))))
    (build-system python-build-system)
    (arguments
     `(#:tests? #f             ; fail: https://github.com/h5py/h5py/issues/769
       #:phases
       (modify-phases %standard-phases
         (add-after 'unpack 'fix-neon-detection
           ;; Neon is only for aarch64 ATM
           ;; see: https://github.com/kiyo-masui/bitshuffle/pull/73
           (lambda _
             (substitute* "src/bitshuffle_core.c"
               (("#define USEARMNEON")
                "#ifdef __aarch64__\n#define USEARMNEON\n#endif"))
             #t))
         (add-after 'unpack 'dont-build-native
           (lambda _
             (substitute* "setup.py"
               (("'-march=native', ") ""))
             #t)))))
    (inputs
     `(("numpy" ,python-numpy)
       ("h5py" ,python-h5py)
       ("hdf5" ,hdf5)))
    (native-inputs
     `(("cython" ,python-cython)))
    (home-page "https://github.com/kiyo-masui/bitshuffle")
    (synopsis "Filter for improving compression of typed binary data")
    (description "Bitshuffle is an algorithm that rearranges typed, binary data
for improving compression, as well as a python/C package that implements this
algorithm within the Numpy framework.")
    (license license:expat)))

(define-public bitshuffle-for-snappy
  (package/inherit bitshuffle
    (name "bitshuffle-for-snappy")
    (build-system gnu-build-system)
    (arguments
     (substitute-keyword-arguments (package-arguments bitshuffle)
       ((#:tests? _ #f) #f)
       ((#:phases phases)
        `(modify-phases %standard-phases
           (replace 'configure
             (lambda* (#:key outputs #:allow-other-keys)
               (with-output-to-file "Makefile"
                 (lambda _
                   (format #t "\
libbitshuffle.so: src/bitshuffle.o src/bitshuffle_core.o src/iochain.o lz4/lz4.o
\tgcc -O3 -ffast-math -std=c99 -o $@ -shared -fPIC $^

%.o: %.c
\tgcc -O3 -ffast-math -std=c99 -fPIC -Isrc -Ilz4 -c $< -o $@

PREFIX:=~a
LIBDIR:=$(PREFIX)/lib
INCLUDEDIR:=$(PREFIX)/include

install: libbitshuffle.so
\tinstall -dm755 $(LIBDIR)
\tinstall -dm755 $(INCLUDEDIR)
\tinstall -m755 libbitshuffle.so $(LIBDIR)
\tinstall -m644 src/bitshuffle.h $(INCLUDEDIR)
\tinstall -m644 src/bitshuffle_core.h $(INCLUDEDIR)
\tinstall -m644 src/iochain.h $(INCLUDEDIR)
\tinstall -m644 lz4/lz4.h $(INCLUDEDIR)
" (assoc-ref outputs "out"))))
               #t))))))
    (inputs '())
    (native-inputs '())))

(define-public python-zipp
  (package
    (name "python-zipp")
    (version "1.0.0")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "zipp" version))
       (sha256
        (base32
         "0v3qayhqv7vyzydpydwcp51bqciw8p2ajddw68x5k8zppc0vx3yk"))))
    (build-system python-build-system)
    (propagated-inputs
     (list python-more-itertools))
    (native-inputs
     (list python-setuptools-scm))
    (home-page "https://github.com/jaraco/zipp")
    (synopsis
     "Backport of pathlib-compatible object wrapper for zip files")
    (description
     "This package provides a @code{pathlib}-compatible @code{Zipfile} object
wrapper.  It provides a backport of the @code{Path} object.")
    (license license:expat)))

(define-public python-zopfli
  (package
    (name "python-zopfli")
    (version "0.2.2")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "zopfli" version ".zip"))
       (sha256
        (base32 "1z1akqx3fjnwa75insch9p08hafikqdvqkj6mxv1k6fr81sxnj9d"))))
    (build-system python-build-system)
    (arguments
     (list
      #:phases #~(modify-phases %standard-phases
                   (add-after 'unpack 'use-system-zopfli
                     (lambda _
                       (setenv "USE_SYSTEM_ZOPFLI" "1")))
                   (add-before 'build 'set-version
                     (lambda _
                       (setenv "SETUPTOOLS_SCM_PRETEND_VERSION" #$version)))
                   (replace 'check
                     (lambda* (#:key tests? #:allow-other-keys)
                       (when tests?
                         (invoke "pytest" "-vv")))))))
    (native-inputs (list unzip python-pytest python-setuptools-scm))
    (inputs (list zopfli))
    (home-page "https://github.com/fonttools/py-zopfli")
    (synopsis "Python bindings for Zopfli")
    (description "@code{pyzopfli} is a straight forward wrapper around the
@code{ZlibCompress} method of the the @code{zopfli} library.")
    (license license:asl2.0)))

(define-public python-zstandard
  (package
    (name "python-zstandard")
    (version "0.19.0")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "zstandard" version))
       (sha256
        (base32 "0qvqhs121spk7yc1l20samflxx47waxv3xm55ksxpn1djk6jzl9i"))))
    (build-system python-build-system)
    (propagated-inputs
     (list python-cffi))
    (native-inputs
     (list python-hypothesis))
    (home-page "https://github.com/indygreg/python-zstandard")
    (synopsis "Zstandard bindings for Python")
    (description "This project provides Python bindings for interfacing with
the Zstandard compression library.  A C extension and CFFI interface are
provided.")
    (license license:bsd-3)))

(define-public python-pyzstd
  (package
    (name "python-pyzstd")
    (version "0.15.9")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "pyzstd" version))
       (sha256
        (base32 "1iycfmif15v1jhv0gsza1hyd1hn3sz0vn9s1y79abzv8axndxzfb"))
       (modules '((guix build utils)))
       (snippet
        '(begin
           ;; Remove a bundled copy of the zstd sources.
           (delete-file-recursively "zstd")))))
    (build-system python-build-system)
    (arguments
     (list
      #:configure-flags
      #~(list "--dynamic-link-zstd")
      #:phases
      #~(modify-phases %standard-phases
          (replace 'build
            ;; The python-build-system's phase doesn't honour configure-flags.
            (lambda* (#:key configure-flags #:allow-other-keys)
              (apply invoke "python" "./setup.py" "build"
                     configure-flags)))
          (replace 'check
            ;; The python-build-system's phase doesn't honour configure-flags.
            (lambda* (#:key tests? test-target configure-flags
                      #:allow-other-keys)
              (when tests?
                (apply invoke "python" "./setup.py" test-target
                       configure-flags)))))))
    (inputs (list `(,zstd "lib")))
    (home-page "https://github.com/animalize/pyzstd")
    (synopsis "Zstandard bindings for Python")
    (description "This package provides Python bindings to the Zstandard (zstd)
compression library.  The API is similar to Python's bz2/lzma/zlib module.")
    (license license:bsd-3)))