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gnu: Add hdf-java.

* gnu/packages/maths.scm (hdf-java): New variable.
This commit is contained in:
Thomas Danckaert 2017-10-04 17:17:03 +02:00
parent 88f256a192
commit 2fd26d055a
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@ -14,7 +14,7 @@
;;; Copyright © 2016 Kei Kebreau <kkebreau@posteo.net>
;;; Copyright © 2016, 2017 Ludovic Courtès <ludo@gnu.org>
;;; Copyright © 2016 Leo Famulari <leo@famulari.name>
;;; Copyright © 2016 Thomas Danckaert <post@thomasdanckaert.be>
;;; Copyright © 2016, 2017 Thomas Danckaert <post@thomasdanckaert.be>
;;; Copyright © 2017 Paul Garlick <pgarlick@tourbillion-technology.com>
;;; Copyright © 2017 ng0 <contact.ng0@cryptolab.net>
;;; Copyright © 2017 Ben Woodcroft <donttrustben@gmail.com>
@ -70,6 +70,7 @@
#:use-module (gnu packages graphviz)
#:use-module (gnu packages gtk)
#:use-module (gnu packages image)
#:use-module (gnu packages java)
#:use-module (gnu packages less)
#:use-module (gnu packages lisp)
#:use-module (gnu packages logging)
@ -743,6 +744,124 @@ extremely large and complex data collections.")
(license (license:x11-style
"http://www.hdfgroup.org/ftp/HDF5/current/src/unpacked/COPYING"))))
(define-public hdf-java
(package
(name "hdf-java")
(version "3.3.2")
(source
(origin
(method url-fetch)
(uri (string-append
"http://www.hdfgroup.org/ftp/HDF5/releases/HDF-JAVA/hdfjni-"
version "/src/CMake-hdfjava-" version ".tar.gz"))
(sha256
(base32 "0m1gp2aspcblqzmpqbdpfp6giskws85ds6p5gz8sx7asyp7wznpr"))
(modules '((guix build utils)))
(snippet ; Make sure we don't use the bundled sources and binaries.
`(begin
(for-each delete-file
(list "SZip.tar.gz" "ZLib.tar.gz" "JPEG8d.tar.gz"
"HDF4.tar.gz" "HDF5.tar.gz"))
(delete-file-recursively ,(string-append "hdfjava-" version "/lib"))))))
(build-system gnu-build-system)
(native-inputs
`(("jdk" ,icedtea "jdk")
("automake" ,automake) ; For up to date 'config.guess' and 'config.sub'.
;; For tests:
("hamcrest-core" ,java-hamcrest-core)
("junit" ,java-junit)
("slf4j-simple" ,java-slf4j-simple)))
(inputs
`(("hdf4" ,hdf4)
("hdf5" ,hdf5)
("zlib" ,zlib)
("libjpeg" ,libjpeg)
("slf4j-api" ,java-slf4j-api)))
(arguments
`(#:configure-flags
(list (string-append "--target=" ,(or (%current-target-system) (%current-system)))
(string-append "--with-jdk=" (assoc-ref %build-inputs "jdk") "/include,"
(assoc-ref %build-inputs "jdk") "/lib" )
(string-append "--with-hdf4=" (assoc-ref %build-inputs "hdf4") "/lib")
(string-append "--with-hdf5=" (assoc-ref %build-inputs "hdf5") "/lib"))
#:make-flags
(list (string-append "HDFLIB=" (assoc-ref %build-inputs "hdf4") "/lib")
(string-append "HDF5LIB=" (assoc-ref %build-inputs "hdf5") "/lib")
(string-append "ZLIB=" (assoc-ref %build-inputs "zlib") "/lib/libz.so")
(string-append "JPEGLIB="
(assoc-ref %build-inputs "libjpeg") "/lib/libjpeg.so")
"LLEXT=so")
#:phases
(modify-phases %standard-phases
(add-before 'configure 'chdir-to-source
(lambda _ (chdir ,(string-append "hdfjava-" version))))
(add-before 'configure 'patch-build
(lambda* (#:key inputs outputs #:allow-other-keys)
(substitute* "configure"
(("COPT=\"") "COPT=\"-O2 ") ; CFLAGS is ignored in Makefiles
(("/bin/cat") (which "cat")))
;; Set classpath for compilation
(substitute* '("hdf/hdf5lib/Makefile.in"
"hdf/hdf5lib/exceptions/Makefile.in"
"hdf/hdflib/Makefile.in")
(("\\$\\(TOP\\)/lib/slf4j-api-1\\.7\\.5\\.jar")
(string-append (assoc-ref inputs "slf4j-api")
"/share/java/slf4j-api.jar")))
;; Replace outdated config.sub and config.guess:
(with-directory-excursion "config"
(for-each (lambda (file)
(copy-file
(string-append (assoc-ref inputs "automake")
"/share/automake-1.15/" file) file))
'("config.sub" "config.guess")))
(mkdir-p (string-append (assoc-ref outputs "out")))
;; Set classpath for tests
(let* ((build-dir (getcwd))
(lib (string-append build-dir "/lib"))
(jhdf (string-append lib "/jhdf.jar"))
(jhdf5 (string-append lib "/jhdf5.jar"))
(testjars
(map (lambda (i)
(string-append (assoc-ref inputs i)
"/share/java/" i ".jar"))
'("junit" "hamcrest-core" "slf4j-api" "slf4j-simple")))
(class-path
(string-join `("." ,build-dir ,jhdf ,jhdf5 ,@testjars) ":")))
(substitute* '("test/hdf5lib/Makefile.in"
"test/hdf5lib/junit.sh.in"
"examples/runExample.sh.in")
(("/usr/bin/test")
(string-append (assoc-ref inputs "coreutils")
"/bin/test"))
(("/usr/bin/uname")
(string-append (assoc-ref inputs "coreutils")
"/bin/uname"))
(("CLASSPATH=[^\n]*")
(string-append "CLASSPATH=" class-path)))
(setenv "CLASSPATH" class-path))
#t))
(add-before 'check 'build-examples
(lambda _
(zero? (apply system* `("javac"
,@(find-files "examples" ".*\\.java")))))))
#:parallel-build? #f
#:parallel-tests? #f ))
(home-page "https://support.hdfgroup.org/products/java")
(synopsis "Java interface for the HDF4 and HDF5 libraries")
(description "Java HDF Interface (JHI) and Java HDF5 Interface (JHI5) use
the Java Native Interface to wrap the HDF4 and HDF5 libraries, which are
implemented in C.")
;; BSD-style license:
(license (license:x11-style
"https://support.hdfgroup.org/ftp/HDF5/hdf-java\
/current/src/unpacked/COPYING"))))
(define-public hdf-eos2
(package
(name "hdf-eos2")