483 lines
20 KiB
Scheme
483 lines
20 KiB
Scheme
;;; GNU Guix --- Functional package management for GNU
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;;; Copyright © 2015, 2016, 2018, 2019, 2023 Ricardo Wurmus <rekado@elephly.net>
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;;; Copyright © 2016, 2017, 2019–2021 Tobias Geerinckx-Rice <me@tobias.gr>
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;;; Copyright © 2018 Meiyo Peng <meiyo.peng@gmail.com>
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;;; Copyright © 2019, 2020, 2022 Efraim Flashner <efraim@flashner.co.il>
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;;; Copyright © 2020 Mark H Weaver <mhw@netris.org>
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;;; Copyright © 2020, 2022 Marius Bakke <marius@gnu.org>
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;;; Copyright © 2023 Nicolas Goaziou <mail@nicolasgoaziou.fr>
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;;; Copyright © 2023 Zheng Junjie <873216071@qq.com>
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;;;
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;;; This file is part of GNU Guix.
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;;;
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;;; GNU Guix is free software; you can redistribute it and/or modify it
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;;; under the terms of the GNU General Public License as published by
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;;; the Free Software Foundation; either version 3 of the License, or (at
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;;; your option) any later version.
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;;;
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;;; GNU Guix is distributed in the hope that it will be useful, but
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;;; WITHOUT ANY WARRANTY; without even the implied warranty of
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;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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;;; GNU General Public License for more details.
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;;;
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;;; You should have received a copy of the GNU General Public License
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;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
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(define-module (gnu packages datastructures)
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#:use-module (gnu packages)
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#:use-module (gnu packages autotools)
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#:use-module (gnu packages boost)
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#:use-module (gnu packages perl)
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#:use-module (gnu packages pkg-config)
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#:use-module ((guix licenses) #:prefix license:)
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#:use-module (guix packages)
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#:use-module (guix gexp)
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#:use-module (guix download)
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#:use-module (guix git-download)
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#:use-module (guix build-system cmake)
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#:use-module (guix build-system gnu)
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#:use-module (guix build-system meson))
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(define-public coucal
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(let ((commit "73ada075553b7607d083037a87cb9c73b3683bfc")
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(revision "1"))
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(package
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(name "coucal")
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(version (git-version "0" revision commit))
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(source (origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/xroche/coucal")
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(commit commit)))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"01996vda3wj5ywpwg9yhysaq6cyi44xnkyhihbwwi43hrj1ic2vm"))))
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(build-system gnu-build-system)
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(arguments
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(list
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#:phases
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#~(modify-phases %standard-phases
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(add-after 'unpack 'do-not-run-tests-early
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(lambda _
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(substitute* "Makefile"
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(("(all: ).*" _ lead) (string-append lead "gcc")))))
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(add-after 'unpack 'remove-Werror
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;; Prevent "this statement may fall through
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;; [-Wimplicit-fallthrough=]" errors from "murmurhash3.h" file.
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(lambda _
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(substitute* "Makefile"
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(("-Werror ") ""))))
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(delete 'configure) ;no configure script
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(replace 'install ;no install target
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(lambda _
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(let ((doc (string-append #$output
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"/share/doc/" #$name "-" #$version)))
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(install-file "README.md" doc))
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(for-each (lambda (f) (install-file f #$output))
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(find-files "." "(coucal|murmurhash)"))))
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(replace 'check
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(lambda* (#:key tests? #:allow-other-keys)
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(when tests?
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(invoke "make" "tests" "runtests")))))))
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(home-page "https://github.com/xroche/coucal")
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(synopsis "Cuckoo-hashing-based hashtable with stash area C library")
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(description "Coucal is an implementation of the Cuckoo hashing
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algorithm with a stash area using by default the MurmurHash hash function.")
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;; Library is released under Expat terms, but the source includes
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;; "murmurhash3.h", which is placed in the public domain.
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(license (list license:expat license:public-domain)))))
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(define-public gdsl
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(package
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(name "gdsl")
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(version "1.8")
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(source (origin
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(method git-fetch)
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(uri (git-reference
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(url "https://example.org") ;only hosted on Software Heritage
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(commit "6adb53be8b8f9f2e4bbfc92d357eedeefb4c7430")))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"0a52g12d9sf9hhcyvwfd7xdazj2a9i9jh97cnlqf2ymvwnvjk1g0"))))
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(build-system gnu-build-system)
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(home-page "https://web.archive.org/web/20170502005430/http://home.gna.org/gdsl/")
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(synopsis "Generic data structures library")
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(description "The Generic Data Structures Library (GDSL) is a collection
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of routines for generic data structures manipulation. It is a re-entrant
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library fully written from scratch in pure ANSI C. It is designed to offer
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for C programmers common data structures with powerful algorithms, and hidden
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implementation. Available structures are lists, queues, stacks, hash tables,
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binary trees, binary search trees, red-black trees, 2D arrays, permutations
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and heaps.")
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(license license:gpl2+)))
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(define-public marisa
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(package
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(name "marisa")
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(version "0.2.6")
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(source
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(origin
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(method url-fetch)
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(uri (string-append "https://github.com/s-yata/marisa-trie/files/"
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"4832504/marisa-" version ".tar.gz"))
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(sha256
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(base32 "1pk6wmi28pa8srb4szybrwfn71jldb61c5vgxsiayxcyg1ya4qqh"))))
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(build-system gnu-build-system)
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(native-inputs
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(list autoconf automake libtool))
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(home-page "https://github.com/s-yata/marisa-trie")
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(synopsis "Trie data structure C++ library")
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(description "@acronym{MARISA, Matching Algorithm with Recursively
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Implemented StorAge} is a static and space-efficient trie data structure C++
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library.")
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;; Dual-licensed, according to docs/readme.en.html (source files lack
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;; copyright/license headers.)
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(license (list license:bsd-2 license:lgpl2.1+))))
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(define-public sparsehash
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(package
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(name "sparsehash")
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(version "2.0.4")
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(source (origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/sparsehash/sparsehash")
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(commit (string-append name "-" version))))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"1pf1cjvcjdmb9cd6gcazz64x0cd2ndpwh6ql2hqpypjv725xwxy7"))))
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(build-system gnu-build-system)
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(synopsis "Memory-efficient hashtable implementations")
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(description
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"This library contains several hash-map implementations, similar in API
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to SGI's @code{hash_map} class, but with different performance
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characteristics. @code{sparse_hash_map} uses very little space overhead, 1-2
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bits per entry. @code{dense_hash_map} is very fast, particularly on lookup.
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@code{sparse_hash_set} and @code{dense_hash_set} are the set versions of these
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routines. All these implementation use a hashtable with internal quadratic
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probing. This method is space-efficient -- there is no pointer overhead --
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and time-efficient for good hash functions.")
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(home-page "https://github.com/sparsehash/sparsehash")
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(license license:bsd-3)))
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(define-public ssdeep
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(package
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(name "ssdeep")
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(version "2.14.1")
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(source
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(origin
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(method url-fetch)
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(uri (string-append "https://github.com/ssdeep-project/ssdeep/"
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"releases/download/release-" version "/"
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"ssdeep-" version ".tar.gz"))
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(sha256
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(base32 "04qkjc6kksxkv7xbnk32rwmf3a8czdv2vvrdzfs0kw06h73snbpz"))))
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(build-system gnu-build-system)
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(arguments
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`(#:configure-flags
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(list "--disable-static")))
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(home-page "https://ssdeep-project.github.io")
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(synopsis "Context-triggered piecewise hashing algorithm")
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(description "ssdeep computes and matches context triggered piecewise
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hashes (CTPH), also called fuzzy checksums. It can identify similar files
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that have sequences of identical bytes in the same order, even though bytes
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in between these sequences may be different in both content and length.")
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(license license:gpl2+)))
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(define-public libcuckoo
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(package
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(name "libcuckoo")
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(version "0.3.1")
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(source (origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/efficient/libcuckoo")
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(commit (string-append "v" version))))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"0h9yhpkhk813dk66y6bs2csybw3pbpfnp3cakr2xism02vjwy19l"))))
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(build-system cmake-build-system)
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(arguments
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(list #:configure-flags #~'("-DBUILD_TESTS=1")))
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(home-page "https://efficient.github.io/libcuckoo/")
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(synopsis "Concurrent hash table")
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(description
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"@code{libcuckoo} provides a high-performance, compact hash table that
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allows multiple concurrent reader and writer threads.")
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(license license:asl2.0)))
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(define-public liburcu
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(package
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(name "liburcu")
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(version "0.14.0")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://www.lttng.org/files/urcu/"
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"userspace-rcu-" version ".tar.bz2"))
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(sha256
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(base32
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"0kwx4fi3gn4p4sdxqkz2zh4z0fv06q449bnz43zjqfad3lkbyhya"))))
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(build-system gnu-build-system)
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(native-inputs
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(list perl)) ; for tests
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(home-page "https://liburcu.org/")
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(synopsis "User-space RCU data synchronisation library")
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(description "liburcu is a user-space @dfn{Read-Copy-Update} (RCU) data
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synchronisation library. It provides read-side access that scales linearly
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with the number of cores. liburcu-cds provides efficient data structures
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based on RCU and lock-free algorithms. These structures include hash tables,
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queues, stacks, and doubly-linked lists.")
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(license (list license:lgpl2.1 license:expat))))
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(define-public uthash
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(package
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(name "uthash")
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(version "2.1.0")
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(source
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(origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/troydhanson/uthash")
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(commit (string-append "v" version))))
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(file-name (git-file-name name version))
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(sha256
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(base32 "0k80bjbb6ss5wpmfmfji6xbyjm990hg9kcshwwnhdnh73vxkcd1m"))))
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(build-system gnu-build-system)
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(native-inputs
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(list perl))
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(arguments
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`(#:make-flags
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(list "CC=gcc")
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#:phases
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(modify-phases %standard-phases
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(delete 'configure) ; nothing to configure
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(delete 'build) ; nothing to build
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(replace 'check
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(lambda* (#:key make-flags #:allow-other-keys)
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(with-directory-excursion "tests"
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(apply invoke "make" make-flags))))
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(replace 'install
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;; There is no top-level Makefile to do this for us.
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(lambda* (#:key outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(doc (string-append out "/share/doc/" ,name "-" ,version))
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(include (string-append out "/include")))
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;; Don't install HTML files: they're just the below .txt files
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;; dolled up, can be stale, and regeneration requires asciidoc.
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(for-each (λ (file) (install-file file doc))
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(find-files "doc" "\\.txt$"))
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(for-each (λ (file) (install-file file include))
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(find-files "src" "\\.h$"))
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#t))))))
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(home-page "https://troydhanson.github.io/uthash/")
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(synopsis
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"Hash tables, lists, and other data structures implemented as C macros")
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(description
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"uthash implements a hash table and a few other basic data structures
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as C preprocessor macros. It aims to be minimalistic and efficient: it's
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around 1,000 lines of code which, being macros, inline automatically.
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Unlike function calls with fixed prototypes, macros operate on untyped
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arguments. Thus, they are able to work with any type of structure and key.
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Any C structure can be stored in a hash table by adding @code{UT_hash_handle}
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to the structure and choosing one or more fields to act as the key.")
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(license license:bsd-2)))
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(define-public sdsl-lite
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(package
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(name "sdsl-lite")
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(version "2.1.1")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/simongog/sdsl-lite/"
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"releases/download/v" version "/"
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"sdsl-lite-" version
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".tar.gz.offline.install.gz"))
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(sha256
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(base32
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"1v86ivv3mmdy802i9xkjpxb4cggj3s27wb19ja4sw1klnivjj69g"))
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(modules '((guix build utils)))
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(snippet
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'(begin
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(delete-file-recursively "external") #t))
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(patches
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(list (origin
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(method url-fetch)
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(uri "https://salsa.debian.org/science-team/libsdsl/raw/debian/2.1.1+dfsg-2/debian/patches/0001-Patch-cmake-files.patch")
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(file-name "sdsl-lite-dont-use-bundled-libraries.patch")
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(sha256
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(base32
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"0m542xpys54bni29zibgrfpgpd0zgyny4h131virxsanixsbz52z")))))))
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(build-system cmake-build-system)
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(arguments
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`(#:phases
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(modify-phases %standard-phases
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(add-after 'install 'install-static-library
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(lambda* (#:key outputs #:allow-other-keys)
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(let ((out (assoc-ref outputs "out")))
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(copy-file "lib/libsdsl_static.a"
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(string-append out "/lib/libsdsl.a")))
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#t))
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(add-after 'install 'install-pkgconfig-file
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(lambda* (#:key outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(lib (string-append out "/lib")))
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(mkdir-p (string-append lib "/pkgconfig"))
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(with-output-to-file (string-append lib "/pkgconfig/sdsl-lite.pc")
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(lambda _
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(format #t "prefix=~a~@
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exec_prefix=${prefix}~@
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libdir=${exec_prefix}/lib~@
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includedir=${prefix}/include~@
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~@
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~@
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Name: sdsl~@
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Version: ~a~@
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Description: SDSL: Succinct Data Structure Library~@
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Libs: -L${libdir} -lsdsl -ldivsufsort -ldivsufsort64~@
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Cflags: -I${includedir}~%"
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out ,version)))
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#t))))))
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(propagated-inputs
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||
(list libdivsufsort))
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||
(home-page "https://github.com/simongog/sdsl-lite")
|
||
(synopsis "Succinct data structure library")
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||
(description "The Succinct Data Structure Library (SDSL) is a powerful and
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flexible C++11 library implementing succinct data structures. In total, the
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library contains the highlights of 40 research publications. Succinct data
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structures can represent an object (such as a bitvector or a tree) in space
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close to the information-theoretic lower bound of the object while supporting
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operations of the original object efficiently. The theoretical time
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complexity of an operation performed on the classical data structure and the
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equivalent succinct data structure are (most of the time) identical.")
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(license license:gpl3+)))
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|
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(define-public tllist
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(package
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(name "tllist")
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(version "1.1.0")
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(home-page "https://codeberg.org/dnkl/tllist")
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||
(source (origin
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||
(method git-fetch)
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||
(uri (git-reference (url home-page) (commit version)))
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||
(file-name (git-file-name name version))
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||
(sha256
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||
(base32
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||
"03296h1w0rnsj87490cgy007axngyg1v8w3z5nvm6x5gcs6b8rg1"))))
|
||
(build-system meson-build-system)
|
||
(synopsis "Typed link list for C")
|
||
(description
|
||
"@code{tllist} is a @dfn{typed linked list} C header file only library
|
||
implemented using pre-processor macros. It supports primitive data types as
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well as aggregated ones such as structs, enums and unions.")
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||
(license license:expat)))
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||
|
||
(define-public libdivsufsort
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||
(package
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||
(name "libdivsufsort")
|
||
(version "2.0.1")
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(source (origin
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||
(method git-fetch)
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||
(uri (git-reference
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||
(url "https://github.com/y-256/libdivsufsort")
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||
(commit version)))
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||
(file-name (git-file-name name version))
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||
(sha256
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||
(base32
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||
"0fgdz9fzihlvjjrxy01md1bv9vh12rkgkwbm90b1hj5xpbaqp7z2"))))
|
||
(build-system cmake-build-system)
|
||
(arguments
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||
'(#:tests? #f ; there are no tests
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||
#:configure-flags
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||
;; Needed for rapmap and sailfish.
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'("-DBUILD_DIVSUFSORT64=ON")))
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(home-page "https://github.com/y-256/libdivsufsort")
|
||
(synopsis "Lightweight suffix-sorting library")
|
||
(description "libdivsufsort is a software library that implements a
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lightweight suffix array construction algorithm. This library provides a
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simple and an efficient C API to construct a suffix array and a
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Burrows-Wheeler transformed string from a given string over a constant-size
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alphabet. The algorithm runs in O(n log n) worst-case time using only 5n+O(1)
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bytes of memory space, where n is the length of the string.")
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(license license:expat)))
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(define-public robin-map
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(package
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(name "robin-map")
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(version "0.6.3")
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(source (origin
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||
(method git-fetch)
|
||
(uri (git-reference
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||
(url "https://github.com/Tessil/robin-map")
|
||
(commit (string-append "v" version))))
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(file-name (git-file-name name version))
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||
(sha256
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||
(base32
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"1li70vwsksva9c4yly90hjafgqfixi1g6d52qq9p6r60vqc4pkjj"))))
|
||
(build-system cmake-build-system)
|
||
(native-inputs
|
||
(list boost)) ; needed for tests
|
||
(arguments
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||
`(#:phases
|
||
(modify-phases %standard-phases
|
||
(replace 'check
|
||
(lambda _
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||
(mkdir "tests")
|
||
(with-directory-excursion "tests"
|
||
(invoke "cmake" "../../source/tests")
|
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(invoke "cmake" "--build" ".")
|
||
(invoke "./tsl_robin_map_tests")))))))
|
||
(home-page "https://github.com/Tessil/robin-map")
|
||
(synopsis "C++ implementation of a fast hash map and hash set")
|
||
(description "The robin-map library is a C++ implementation of a fast hash
|
||
map and hash set using open-addressing and linear robin hood hashing with
|
||
backward shift deletion to resolve collisions.
|
||
|
||
Four classes are provided: tsl::robin_map, tsl::robin_set, tsl::robin_pg_map
|
||
and tsl::robin_pg_set. The first two are faster and use a power of two growth
|
||
policy, the last two use a prime growth policy instead and are able to cope
|
||
better with a poor hash function.")
|
||
(license license:expat)))
|
||
|
||
(define-public zix
|
||
(package
|
||
(name "zix")
|
||
(version "0.4.2")
|
||
(source (origin
|
||
(method git-fetch)
|
||
(uri (git-reference
|
||
(url "https://gitlab.com/drobilla/zix.git")
|
||
(commit (string-append "v" version))))
|
||
(file-name (git-file-name name version))
|
||
(sha256
|
||
(base32
|
||
"07pbq4bi64iv39swldfbcp7131b5n4hs64pgd417gqlwv8qvgjcw"))))
|
||
(build-system meson-build-system)
|
||
(arguments
|
||
(list #:configure-flags #~(list "-Ddocs=disabled"))) ;needs "sphinxygen"
|
||
(native-inputs (list pkg-config))
|
||
(home-page "https://gitlab.com/drobilla/zix")
|
||
(synopsis "C library of portability wrappers and data structures")
|
||
(description
|
||
"Zix is a C library of portability wrappers and data structures. It
|
||
provides the following components:
|
||
@table @code
|
||
@item ZixAllocator A customizable allocator.
|
||
@item ZixBumpAllocator A simple realtime-safe bump-pointer allocator.
|
||
@item ZixBTree A page-allocated B-tree.
|
||
@item ZixHash An open-addressing hash table.
|
||
@item ZixRing A lock-free realtime-safe ring buffer.
|
||
@item ZixSem A portable semaphore wrapper.
|
||
@item ZixThread A portable thread wrapper.
|
||
@item ZixTree A binary search tree.
|
||
@item zixgest.h Digest functions suitable for hashing arbitrary data.
|
||
zix/filesystem.h Functions for working with filesystems.
|
||
@item zix/path.h Functions for working with filesystem paths lexically.
|
||
@end table")
|
||
(license license:isc)))
|