24155bf40d
* gnu/packages/compression.scm (bitshuffle-for-snappy): Export variable. (java-snappy, java-snappy-1, java-iq80-snappy, java-jbzip2, java-tukaani-xz): Move these variables from here... * gnu/packages/java-compression.scm: ...to this new file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. * gnu/packages/java.scm, gnu/packages/bioinformatics.scm: Adjust module references.
309 lines
13 KiB
Scheme
309 lines
13 KiB
Scheme
;;; GNU Guix --- Functional package management for GNU
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;;; Copyright © 2017, 2019 Ricardo Wurmus <rekado@elephly.net>
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;;; Copyright © 2017, 2018 Julien Lepiller <julien@lepiller.eu>
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;;; Copyright © 2018 Marius Bakke <mbakke@fastmail.com>
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;;; Copyright © 2018 Mark H Weaver <mhw@netris.org>
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;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
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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 java-compression)
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#:use-module ((guix licenses) #:prefix license:)
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#:use-module (guix utils)
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#:use-module (guix packages)
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#:use-module (guix download)
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#:use-module (guix build-system ant)
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#:use-module (gnu packages)
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#:use-module (gnu packages compression)
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#:use-module (gnu packages java)
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#:use-module (gnu packages perl))
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(define-public java-snappy
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(package
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(name "java-snappy")
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(version "1.1.7.2")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/xerial/snappy-java/archive/"
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version ".tar.gz"))
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(file-name (string-append name "-" version ".tar.gz"))
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(sha256
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(base32
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"1p557vdv006ysgxbpp83krmq0066k46108vyiyka69w8i4i8rbbm"))))
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(build-system ant-build-system)
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(arguments
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`(#:jar-name "snappy.jar"
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#:source-dir "src/main/java"
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#:phases
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(modify-phases %standard-phases
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(add-before 'build 'remove-binaries
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(lambda _
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(delete-file "lib/org/xerial/snappy/OSInfo.class")
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(delete-file-recursively "src/main/resources/org/xerial/snappy/native")
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#t))
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(add-before 'build 'build-jni
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(lambda _
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;; Rebuild one of the binaries we removed earlier
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(invoke "javac" "src/main/java/org/xerial/snappy/OSInfo.java"
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"-d" "lib")
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;; Link to the dynamic bitshuffle and snappy, not the static ones
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(substitute* "Makefile.common"
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(("-shared")
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"-shared -lbitshuffle -lsnappy"))
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(substitute* "Makefile"
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;; Don't try to use git, don't download bitshuffle source
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;; and don't build it.
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(("\\$\\(SNAPPY_GIT_UNPACKED\\) ")
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"")
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((": \\$\\(SNAPPY_GIT_UNPACKED\\)")
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":")
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(("\\$\\(BITSHUFFLE_UNPACKED\\) ")
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"")
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((": \\$\\(SNAPPY_SOURCE_CONFIGURED\\)") ":")
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;; What we actually want to build
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(("SNAPPY_OBJ:=.*")
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"SNAPPY_OBJ:=$(addprefix $(SNAPPY_OUT)/, \
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SnappyNative.o BitShuffleNative.o)\n")
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;; Since we removed the directory structure in "native" during
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;; the previous phase, we need to recreate it.
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(("NAME\\): \\$\\(SNAPPY_OBJ\\)")
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"NAME): $(SNAPPY_OBJ)\n\t@mkdir -p $(@D)"))
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;; Finally we can run the Makefile to build the dynamic library.
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;; Use the -nocmake target to avoid a dependency on cmake,
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;; which in turn requires the "git_unpacked" directory.
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(invoke "make" "native-nocmake")))
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;; Once we have built the shared library, we need to place it in the
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;; "build" directory so it can be added to the jar file.
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(add-after 'build-jni 'copy-jni
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(lambda _
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(copy-recursively "src/main/resources/org/xerial/snappy/native"
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"build/classes/org/xerial/snappy/native")
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#t))
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(add-before 'check 'fix-failing
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(lambda _
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(with-directory-excursion "src/test/java/org/xerial/snappy"
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;; This package assumes maven build, which puts results in "target".
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;; We put them in "build" instead, so fix that.
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(substitute* "SnappyLoaderTest.java"
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(("target/classes") "build/classes"))
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;; This requires Hadoop, which is not in Guix yet.
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(delete-file "SnappyHadoopCompatibleOutputStreamTest.java"))
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#t)))))
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(inputs
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`(("osgi-framework" ,java-osgi-framework)))
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(propagated-inputs
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`(("bitshuffle" ,bitshuffle-for-snappy)
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("snappy" ,snappy)))
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(native-inputs
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`(("junit" ,java-junit)
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("hamcrest" ,java-hamcrest-core)
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("xerial-core" ,java-xerial-core)
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("classworlds" ,java-plexus-classworlds)
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("commons-lang" ,java-commons-lang)
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("commons-io" ,java-commons-io)
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("perl" ,perl)))
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(home-page "https://github.com/xerial/snappy-java")
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(synopsis "Compression/decompression algorithm in Java")
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(description "Snappy-java is a Java port of snappy, a fast C++
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compressor/decompressor.")
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(license license:asl2.0)))
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(define-public java-snappy-1
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(package
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(inherit java-snappy)
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(version "1.0.3-rc3")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/xerial/snappy-java/archive/"
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"snappy-java-" version ".tar.gz"))
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(sha256
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(base32
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"08hsxlqidiqck0q57fshwyv3ynyxy18vmhrai9fyc8mz17m7gsa3"))))
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(arguments
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`(#:jar-name "snappy.jar"
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#:source-dir "src/main/java"
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#:phases
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(modify-phases %standard-phases
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(add-before 'build 'remove-binaries
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(lambda _
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(delete-file "lib/org/xerial/snappy/OSInfo.class")
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(delete-file-recursively "src/main/resources/org/xerial/snappy/native")
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#t))
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(add-before 'build 'build-jni
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(lambda _
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;; Rebuild one of the binaries we removed earlier
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(invoke "javac" "src/main/java/org/xerial/snappy/OSInfo.java"
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"-d" "lib")
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;; Link to the dynamic snappy, not the static ones
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(substitute* "Makefile.common"
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(("-shared") "-shared -lsnappy"))
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(substitute* "Makefile"
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;; Don't download the sources here.
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(("\\$\\(SNAPPY_UNPACKED\\) ") "")
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((": \\$\\(SNAPPY_UNPACKED\\) ") ":")
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;; What we actually want to build
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(("SNAPPY_OBJ:=.*")
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"SNAPPY_OBJ:=$(addprefix $(SNAPPY_OUT)/, SnappyNative.o)\n")
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;; Since we removed the directory structure in "native" during
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;; the previous phase, we need to recreate it.
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(("NAME\\): \\$\\(SNAPPY_OBJ\\)")
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"NAME): $(SNAPPY_OBJ)\n\t@mkdir -p $(@D)"))
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;; Finally we can run the Makefile to build the dynamic library.
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(invoke "make" "native")))
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;; Once we have built the shared library, we need to place it in the
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;; "build" directory so it can be added to the jar file.
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(add-after 'build-jni 'copy-jni
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(lambda _
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(copy-recursively "src/main/resources/org/xerial/snappy/native"
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"build/classes/org/xerial/snappy/native")
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#t))
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(add-before 'check 'fix-tests
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(lambda _
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(mkdir-p "src/test/resources/org/xerial/snappy/")
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(copy-recursively "src/test/java/org/xerial/snappy/testdata"
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"src/test/resources/org/xerial/snappy/testdata")
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(install-file "src/test/java/org/xerial/snappy/alice29.txt"
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"src/test/resources/org/xerial/snappy/")
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#t)))))))
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(define-public java-iq80-snappy
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(package
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(name "java-iq80-snappy")
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(version "0.4")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/dain/snappy/archive/snappy-"
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version ".tar.gz"))
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(sha256
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(base32
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"0rb3zhci7w9wzd65lfnk7p3ip0n6gb58a9qpx8n7r0231gahyamf"))))
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(build-system ant-build-system)
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(arguments
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`(#:jar-name "iq80-snappy.jar"
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#:source-dir "src/main/java"
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#:test-dir "src/test"
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#:jdk ,icedtea-8
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#:phases
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(modify-phases %standard-phases
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(replace 'check
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(lambda _
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(define (test class)
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(invoke "java" "-cp" (string-append (getenv "CLASSPATH")
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":build/classes"
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":build/test-classes")
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"-Dtest.resources.dir=src/test/resources"
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"org.testng.TestNG" "-testclass"
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class))
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(invoke "ant" "compile-tests")
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(test "org.iq80.snappy.SnappyFramedStreamTest")
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(test "org.iq80.snappy.SnappyStreamTest")
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#t))
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(add-before 'build 'remove-hadoop-dependency
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(lambda _
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;; We don't have hadoop
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(delete-file "src/main/java/org/iq80/snappy/HadoopSnappyCodec.java")
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(delete-file "src/test/java/org/iq80/snappy/TestHadoopSnappyCodec.java")
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#t)))))
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(home-page "https://github.com/dain/snappy")
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(native-inputs
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`(("guava" ,java-guava)
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("java-snappy" ,java-snappy)
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("hamcrest" ,java-hamcrest-core)
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("testng" ,java-testng)))
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(synopsis "Java port of the Snappy (de)compressor")
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(description
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"Iq80-snappy is a port of the Snappy compressor and decompressor rewritten
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in pure Java. This compression code produces a byte-for-byte exact copy of the
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output created by the original C++ code, and is extremely fast.")
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(license license:asl2.0)))
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(define-public java-jbzip2
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(package
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(name "java-jbzip2")
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(version "0.9.1")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://storage.googleapis.com/"
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"google-code-archive-source/v2/"
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"code.google.com/jbzip2/"
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"source-archive.zip"))
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(file-name (string-append name "-" version ".zip"))
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(sha256
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(base32
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"0ncmhlqmrfmj96nqf6p77b9ws35lcfsvpfxzwxi2asissc83z1l3"))))
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(build-system ant-build-system)
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(native-inputs
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`(("unzip" ,unzip)
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("java-junit" ,java-junit)))
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(arguments
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`(#:tests? #f ; no tests
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#:jar-name "jbzip2.jar"
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#:source-dir "tags/release-0.9.1/src"
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#:phases
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(modify-phases %standard-phases
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(add-after 'unpack 'fix-encoding-problems
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(lambda _
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;; Some of the files we're patching are
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;; ISO-8859-1-encoded, so choose it as the default
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;; encoding so the byte encoding is preserved.
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(with-fluids ((%default-port-encoding #f))
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(substitute* "tags/release-0.9.1/src/org/itadaki/bzip2/HuffmanAllocator.java"
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(("Milidi.") "Milidiu")))
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#t)))))
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(home-page "https://code.google.com/archive/p/jbzip2/")
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(synopsis "Java bzip2 compression/decompression library")
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(description "Jbzip2 is a Java bzip2 compression/decompression library.
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It can be used as a replacement for the Apache @code{CBZip2InputStream} /
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@code{CBZip2OutputStream} classes.")
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(license license:expat)))
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(define-public java-tukaani-xz
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(package
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(name "java-tukaani-xz")
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(version "1.6")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://tukaani.org/xz/xz-java-" version ".zip"))
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(sha256
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(base32
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"1z3p1ri1gvl07inxn0agx44ck8n7wrzfmvkz8nbq3njn8r9wba8x"))))
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(build-system ant-build-system)
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(arguments
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`(#:tests? #f; no tests
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#:phases
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(modify-phases %standard-phases
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(add-after 'unpack 'chdir
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(lambda _
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;; Our build system enters the first directory in the archive, but
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;; the package is not contained in a subdirectory
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(chdir "..")
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#t))
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(replace 'install
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(lambda* (#:key outputs #:allow-other-keys)
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;; Do we want to install *Demo.jar?
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(install-file "build/jar/xz.jar"
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(string-append
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(assoc-ref outputs "out")
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"/share/java/xz.jar"))
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#t)))))
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(native-inputs
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`(("unzip" ,unzip)))
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(home-page "https://tukaani.org")
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(synopsis "XZ in Java")
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(description "Tukaani-xz is an implementation of xz compression/decompression
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algorithms in Java.")
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(license license:public-domain)))
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