aca2bf51b7
* gnu/packages/datastructures.scm (sdsl-lite)[source]: Remove bundled libraries in a snippet. Add patch to link to external libraries. [arguments]: Add phase to install static library. [native-inputs]: Add libdivsufsort.
280 lines
12 KiB
Scheme
280 lines
12 KiB
Scheme
;;; GNU Guix --- Functional package management for GNU
|
|
;;; Copyright © 2015, 2016, 2018, 2019 Ricardo Wurmus <rekado@elephly.net>
|
|
;;; Copyright © 2016, 2017, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
|
|
;;; Copyright © 2018 Meiyo Peng <meiyo.peng@gmail.com>
|
|
;;; Copyright © 2019 Efraim Flashner <efraim@flashner.co.il>
|
|
;;;
|
|
;;; 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 datastructures)
|
|
#:use-module (gnu packages)
|
|
#:use-module (gnu packages perl)
|
|
#:use-module ((guix licenses) #:prefix license:)
|
|
#:use-module (guix packages)
|
|
#:use-module (guix download)
|
|
#:use-module (guix git-download)
|
|
#:use-module (guix build-system cmake)
|
|
#:use-module (guix build-system gnu))
|
|
|
|
(define-public gdsl
|
|
(package
|
|
(name "gdsl")
|
|
(version "1.8")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (string-append "http://download.gna.org/gdsl/"
|
|
"gdsl-" version ".tar.gz"))
|
|
(sha256
|
|
(base32
|
|
"1v64jvlnj8jfpphphgjgb36p0kv50kwfyqncf0y12f16v8ydyiaw"))))
|
|
(build-system gnu-build-system)
|
|
(home-page "http://home.gna.org/gdsl/")
|
|
(synopsis "Generic data structures library")
|
|
(description "The Generic Data Structures Library (GDSL) is a collection
|
|
of routines for generic data structures manipulation. It is a re-entrant
|
|
library fully written from scratch in pure ANSI C. It is designed to offer
|
|
for C programmers common data structures with powerful algorithms, and hidden
|
|
implementation. Available structures are lists, queues, stacks, hash tables,
|
|
binary trees, binary search trees, red-black trees, 2D arrays, permutations
|
|
and heaps.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public marisa
|
|
(package
|
|
(name "marisa")
|
|
(version "0.2.5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (string-append "https://github.com/s-yata/marisa-trie"
|
|
"/releases/download/v" version "/" name "-"
|
|
version ".tar.gz"))
|
|
(sha256
|
|
(base32 "19ifrcmnbr9whaaf4ly3s9ndyiq9sjqhnfkrxbz9zsb44w2n36hf"))))
|
|
(build-system gnu-build-system)
|
|
(home-page "https://github.com/s-yata/marisa-trie")
|
|
(synopsis "Trie data structure C++ library")
|
|
(description "Matching Algorithm with Recursively Implemented
|
|
StorAge (MARISA) is a static and space-efficient trie data structure C++
|
|
library.")
|
|
|
|
;; Dual-licensed, according to docs/readme.en.html (source files lack
|
|
;; copyright/license headers.)
|
|
(license (list license:bsd-2 license:lgpl2.1+))))
|
|
|
|
(define-public sparsehash
|
|
(package
|
|
(name "sparsehash")
|
|
(version "2.0.3")
|
|
(source (origin
|
|
(method git-fetch)
|
|
(uri (git-reference
|
|
(url "https://github.com/sparsehash/sparsehash.git")
|
|
(commit (string-append name "-" version))))
|
|
(file-name (git-file-name name version))
|
|
(sha256
|
|
(base32
|
|
"0m3f0cnpnpf6aak52wn8xbrrdw8p0yhq8csgc8nlvf9zp8c402na"))))
|
|
(build-system gnu-build-system)
|
|
(synopsis "Memory-efficient hashtable implementations")
|
|
(description
|
|
"This library contains several hash-map implementations, similar in API
|
|
to SGI's @code{hash_map} class, but with different performance
|
|
characteristics. @code{sparse_hash_map} uses very little space overhead, 1-2
|
|
bits per entry. @code{dense_hash_map} is very fast, particularly on lookup.
|
|
@code{sparse_hash_set} and @code{dense_hash_set} are the set versions of these
|
|
routines. All these implementation use a hashtable with internal quadratic
|
|
probing. This method is space-efficient -- there is no pointer overhead --
|
|
and time-efficient for good hash functions.")
|
|
(home-page "https://github.com/sparsehash/sparsehash")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public ssdeep
|
|
(package
|
|
(name "ssdeep")
|
|
(version "2.13")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (string-append "mirror://sourceforge/ssdeep/"
|
|
name "-" version "/"
|
|
name "-" version ".tar.gz"))
|
|
(sha256
|
|
(base32
|
|
"1igqy0j7jrklb8fdlrm6ald4cyl1fda5ipfl8crzyl6bax2ajk3f"))))
|
|
(build-system gnu-build-system)
|
|
(home-page "http://ssdeep.sourceforge.net")
|
|
(synopsis "Context-triggered piecewise hashing algorithm")
|
|
(description "ssdeep computes and matches context triggered piecewise
|
|
hashes (CTPH), also called fuzzy checksums. It can identify similar files
|
|
that have sequences of identical bytes in the same order, even though bytes
|
|
in between these sequences may be different in both content and length.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public liburcu
|
|
(package
|
|
(name "liburcu")
|
|
(version "0.11.1")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (string-append "https://www.lttng.org/files/urcu/"
|
|
"userspace-rcu-" version ".tar.bz2"))
|
|
(sha256
|
|
(base32
|
|
"0l1kxgzch4m8fxiz2hc8fwg56hrvzzspp7n0svnl7i7iycdrgfcj"))))
|
|
(build-system gnu-build-system)
|
|
(native-inputs
|
|
`(("perl" ,perl))) ; for tests
|
|
(home-page "https://liburcu.org/")
|
|
(synopsis "User-space RCU data synchronisation library")
|
|
(description "liburcu is a user-space @dfn{Read-Copy-Update} (RCU) data
|
|
synchronisation library. It provides read-side access that scales linearly
|
|
with the number of cores. liburcu-cds provides efficient data structures
|
|
based on RCU and lock-free algorithms. These structures include hash tables,
|
|
queues, stacks, and doubly-linked lists.")
|
|
(license license:lgpl2.1+)))
|
|
|
|
(define-public uthash
|
|
(package
|
|
(name "uthash")
|
|
(version "2.0.2")
|
|
(source
|
|
(origin
|
|
(method git-fetch)
|
|
(uri (git-reference
|
|
(url "https://github.com/troydhanson/uthash.git")
|
|
(commit (string-append "v" version))))
|
|
(file-name (git-file-name name version))
|
|
(sha256
|
|
(base32
|
|
"0kslz8k6lssh7fl7ayzwlj62p0asxs3dq03357ls5ywjad238gqg"))))
|
|
(build-system gnu-build-system)
|
|
(native-inputs
|
|
`(("perl" ,perl)))
|
|
(arguments
|
|
`(#:make-flags
|
|
(list "CC=gcc")
|
|
#:phases
|
|
(modify-phases %standard-phases
|
|
(delete 'configure) ; nothing to configure
|
|
(delete 'build) ; nothing to build
|
|
(replace 'check
|
|
(lambda* (#:key make-flags #:allow-other-keys)
|
|
(with-directory-excursion "tests"
|
|
(apply invoke "make" make-flags))))
|
|
(replace 'install
|
|
;; There is no top-level Makefile to do this for us.
|
|
(lambda* (#:key outputs #:allow-other-keys)
|
|
(let* ((out (assoc-ref outputs "out"))
|
|
(doc (string-append out "/share/doc/" ,name))
|
|
(include (string-append out "/include")))
|
|
;; Don't install HTML files: they're just the below .txt files
|
|
;; dolled up, can be stale, and regeneration requires asciidoc.
|
|
(for-each (λ (file) (install-file file doc))
|
|
(find-files "doc" "\\.txt$"))
|
|
(for-each (λ (file) (install-file file include))
|
|
(find-files "src" "\\.h$"))
|
|
#t))))))
|
|
(home-page "https://troydhanson.github.io/uthash/")
|
|
(synopsis
|
|
"Hash tables, lists, and other data structures implemented as C macros")
|
|
(description
|
|
"uthash implements a hash table and a few other basic data structures
|
|
as C preprocessor macros. It aims to be minimalistic and efficient: it's
|
|
around 1,000 lines of code which, being macros, inline automatically.
|
|
|
|
Unlike function calls with fixed prototypes, macros operate on untyped
|
|
arguments. Thus, they are able to work with any type of structure and key.
|
|
Any C structure can be stored in a hash table by adding @code{UT_hash_handle}
|
|
to the structure and choosing one or more fields to act as the key.")
|
|
(license license:bsd-2)))
|
|
|
|
(define-public sdsl-lite
|
|
(package
|
|
(name "sdsl-lite")
|
|
(version "2.1.1")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (string-append "https://github.com/simongog/sdsl-lite/"
|
|
"releases/download/v" version "/"
|
|
"sdsl-lite-" version
|
|
".tar.gz.offline.install.gz"))
|
|
(sha256
|
|
(base32
|
|
"1v86ivv3mmdy802i9xkjpxb4cggj3s27wb19ja4sw1klnivjj69g"))
|
|
(modules '((guix build utils)))
|
|
(snippet
|
|
'(begin
|
|
(delete-file-recursively "external") #t))
|
|
(patches
|
|
(list (origin
|
|
(method url-fetch)
|
|
(uri "https://salsa.debian.org/science-team/libsdsl/raw/debian/2.1.1+dfsg-2/debian/patches/0001-Patch-cmake-files.patch")
|
|
(file-name "sdsl-lite-dont-use-bundled-libraries.patch")
|
|
(sha256
|
|
(base32
|
|
"0m542xpys54bni29zibgrfpgpd0zgyny4h131virxsanixsbz52z")))))))
|
|
(build-system cmake-build-system)
|
|
(arguments
|
|
'(#:phases
|
|
(modify-phases %standard-phases
|
|
(add-after 'install 'install-static-library
|
|
(lambda* (#:key outputs #:allow-other-keys)
|
|
(let ((out (assoc-ref outputs "out")))
|
|
(copy-file "lib/libsdsl_static.a"
|
|
(string-append out "/lib/libsdsl.a")))
|
|
#t)))))
|
|
(native-inputs
|
|
`(("libdivsufsort" ,libdivsufsort)))
|
|
(home-page "https://github.com/simongog/sdsl-lite")
|
|
(synopsis "Succinct data structure library")
|
|
(description "The Succinct Data Structure Library (SDSL) is a powerful and
|
|
flexible C++11 library implementing succinct data structures. In total, the
|
|
library contains the highlights of 40 research publications. Succinct data
|
|
structures can represent an object (such as a bitvector or a tree) in space
|
|
close to the information-theoretic lower bound of the object while supporting
|
|
operations of the original object efficiently. The theoretical time
|
|
complexity of an operation performed on the classical data structure and the
|
|
equivalent succinct data structure are (most of the time) identical.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public libdivsufsort
|
|
(package
|
|
(name "libdivsufsort")
|
|
(version "2.0.1")
|
|
(source (origin
|
|
(method git-fetch)
|
|
(uri (git-reference
|
|
(url "https://github.com/y-256/libdivsufsort.git")
|
|
(commit version)))
|
|
(file-name (git-file-name name version))
|
|
(sha256
|
|
(base32
|
|
"0fgdz9fzihlvjjrxy01md1bv9vh12rkgkwbm90b1hj5xpbaqp7z2"))))
|
|
(build-system cmake-build-system)
|
|
(arguments
|
|
'(#:tests? #f ; there are no tests
|
|
#:configure-flags
|
|
;; Needed for rapmap and sailfish.
|
|
'("-DBUILD_DIVSUFSORT64=ON")))
|
|
(home-page "https://github.com/y-256/libdivsufsort")
|
|
(synopsis "Lightweight suffix-sorting library")
|
|
(description "libdivsufsort is a software library that implements a
|
|
lightweight suffix array construction algorithm. This library provides a
|
|
simple and an efficient C API to construct a suffix array and a
|
|
Burrows-Wheeler transformed string from a given string over a constant-size
|
|
alphabet. The algorithm runs in O(n log n) worst-case time using only 5n+O(1)
|
|
bytes of memory space, where n is the length of the string.")
|
|
(license license:expat)))
|