gnu/packages/image-processing.scm

   1 ;;; GNU Guix --- Functional package management for GNU
   2 ;;; Copyright © 2017 John Darrington <jmd@gnu.org>
   3 ;;; Copyright © 2017 Ricardo Wurmus <rekado@elephly.net>
   4 ;;; Copyright © 2014 Ludovic Courtès <ludo@gnu.org>
   5 ;;; Copyright © 2014 Mark H Weaver <mhw@netris.org>
   6 ;;; Copyright © 2016 Eric Bavier <bavier@member.fsf.org>
   7 ;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
   8 ;;;
   9 ;;; This file is part of GNU Guix.
  10 ;;;
  11 ;;; GNU Guix is free software; you can redistribute it and/or modify it
  12 ;;; under the terms of the GNU General Public License as published by
  13 ;;; the Free Software Foundation; either version 3 of the License, or (at
  14 ;;; your option) any later version.
  15 ;;;
  16 ;;; GNU Guix is distributed in the hope that it will be useful, but
  17 ;;; WITHOUT ANY WARRANTY; without even the implied warranty of
  18 ;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
  19 ;;; GNU General Public License for more details.
  20 ;;;
  21 ;;; You should have received a copy of the GNU General Public License
  22 ;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.
  23
  24 (define-module (gnu packages image-processing)
  25   #:use-module ((guix licenses) #:prefix license:)
  26   #:use-module (guix packages)
  27   #:use-module (guix utils)
  28   #:use-module (guix download)
  29   #:use-module (guix build-system cmake)
  30   #:use-module (guix build-system gnu)
  31   #:use-module (gnu packages)
  32   #:use-module (gnu packages algebra)
  33   #:use-module (gnu packages boost)
  34   #:use-module (gnu packages compression)
  35   #:use-module (gnu packages documentation)
  36   #:use-module (gnu packages fontutils)
  37   #:use-module (gnu packages gl)
  38   #:use-module (gnu packages gnome)
  39   #:use-module (gnu packages graphics)
  40   #:use-module (gnu packages graphviz)
  41   #:use-module (gnu packages image)
  42   #:use-module (gnu packages maths)
  43   #:use-module (gnu packages perl)
  44   #:use-module (gnu packages pkg-config)
  45   #:use-module (gnu packages python)
  46   #:use-module (gnu packages serialization)
  47   #:use-module (gnu packages xiph)
  48   #:use-module (gnu packages xml)
  49   #:use-module (gnu packages xorg))
  50
  51 ;; We use the latest snapshot of this package because the latest release is
  52 ;; from 2011 and has known vulnerabilities that cannot easily be fixed by
  53 ;; applying patches.
  54 (define-public dcmtk
  55   (package
  56     (name "dcmtk")
  57     (version "3.6.1_20170228")
  58     (source (origin
  59               (method url-fetch)
  60               (uri (string-append "ftp://dicom.offis.de/pub/dicom/offis/"
  61                                   "software/dcmtk/snapshot/dcmtk-"
  62                                   version ".tar.gz"))
  63               (sha256
  64                (base32
  65                 "04cwfx8yrscqcd59mxk2fh6314ckayi9cp68iql5a57pf2pg5qld"))))
  66     (build-system gnu-build-system)
  67     (inputs
  68      `(("libtiff" ,libtiff)
  69        ("libpng" ,libpng)
  70        ("doxygen" ,doxygen)
  71        ("zlib" ,zlib)))
  72     (native-inputs
  73      `(("perl" ,perl)))
  74     (home-page "http://dcmtk.org")
  75     (synopsis "Libraries and programs implementing parts of the DICOM standard")
  76     (description "DCMTK is a collection of libraries and applications
  77 implementing large parts the DICOM standard.  It includes software for
  78 examining, constructing and converting DICOM image files, handling offline
  79 media, sending and receiving images over a network connection, as well as
  80 demonstrative image storage and worklist servers.")
  81     (license (license:fsf-free
  82               "file://COPYRIGHT"
  83               "A union of the Apache 2.0 licence and various non-copyleft
  84 licences similar to the Modified BSD licence."))))
  85
  86 (define-public mia
  87   (package
  88     (name "mia")
  89     (version "2.4.6")
  90     (source (origin
  91               (method url-fetch)
  92               (uri (string-append "mirror://sourceforge/mia/mia/"
  93                                   (version-major+minor version)
  94                                   "/mia-" version ".tar.xz"))
  95               (sha256
  96                (base32
  97                 "0j4nd5z7i3v199jh7hqqhwd4g7snchizkc7rhzanpvngqg91m1pb"))))
  98     (build-system cmake-build-system)
  99     (arguments
 100      `(#:configure-flags
 101        (list "-DMIA_CREATE_NIPYPE_INTERFACES=0"
 102              "-DCMAKE_CXX_FLAGS=-fpermissive")))
 103     (inputs
 104      `(("boost" ,boost)
 105        ("dcmtk" ,dcmtk)
 106        ("doxygen" ,doxygen)
 107        ("eigen" ,eigen)
 108        ("fftw" ,fftw)
 109        ("fftwf" ,fftwf)
 110        ("gsl" ,gsl)
 111        ("gts" ,gts)
 112        ("hdf5" ,hdf5)
 113        ("itpp" ,itpp)
 114        ("libjpeg" ,libjpeg)
 115        ("libpng" ,libpng)
 116        ("libtiff" ,libtiff)
 117        ("libxml" ,libxml2)
 118        ("libxml++" ,libxml++)
 119        ("maxflow" ,maxflow)
 120        ("niftilib" ,niftilib)
 121        ("nlopt" ,nlopt)
 122        ("openexr" ,openexr)
 123        ("python-lxml" ,python2-lxml)
 124        ("vtk" ,vtk)))
 125     (native-inputs
 126      `(("pkg-config" ,pkg-config)
 127        ("python" ,python-2)))
 128     (home-page "http://mia.sourceforge.net")
 129     (synopsis "Toolkit for gray scale medical image analysis")
 130     (description "MIA provides a combination of command line tools, plug-ins,
 131 and libraries that make it possible run image processing tasks interactively
 132 in a command shell and to prototype using the shell's scripting language.  It
 133 is built around a plug-in structure that makes it easy to add functionality
 134 without compromising the original code base and it makes use of a wide variety
 135 of external libraries that provide additional functionality.")
 136     (license license:gpl3+)))
 137
 138 (define-public vtk
 139   (package
 140     (name "vtk")
 141     (version "7.1.0")
 142     (source (origin
 143               (method url-fetch)
 144               (uri (string-append "http://www.vtk.org/files/release/"
 145                                   (version-major+minor version)
 146                                   "/VTK-" version ".tar.gz"))
 147               (sha256
 148                (base32
 149                 "0yj96z58haan77gzilnqp7xpf8hg5jk11a3jx55p2ksd400s0gjz"))))
 150     (build-system cmake-build-system)
 151     (arguments
 152      '(#:build-type "Release"           ;Build without '-g' to save space.
 153        ;; -DVTK_USE_SYSTEM_NETCDF:BOOL=TRUE requires netcdf_cxx
 154        #:configure-flags '("-DVTK_USE_SYSTEM_EXPAT:BOOL=TRUE"
 155                            "-DVTK_USE_SYSTEM_FREETYPE:BOOL=TRUE"
 156                            "-DVTK_USE_SYSTEM_HDF5:BOOL=TRUE"
 157                            "-DVTK_USE_SYSTEM_JPEG:BOOL=TRUE"
 158                            "-DVTK_USE_SYSTEM_JSONCPP:BOOL=TRUE"
 159                            "-DVTK_USE_SYSTEM_LIBXML2:BOOL=TRUE"
 160                            "-DVTK_USE_SYSTEM_OGGTHEORA:BOOL=TRUE"
 161                            "-DVTK_USE_SYSTEM_PNG:BOOL=TRUE"
 162                            "-DVTK_USE_SYSTEM_TIFF:BOOL=TRUE"
 163                            "-DVTK_USE_SYSTEM_ZLIB:BOOL=TRUE")
 164        #:tests? #f))                              ;XXX: no "test" target
 165     (inputs
 166      `(("libXt" ,libxt)
 167        ("xproto" ,xproto)
 168        ("libX11" ,libx11)
 169        ("libxml2" ,libxml2)
 170        ("mesa" ,mesa)
 171        ("glu" ,glu)
 172        ("expat" ,expat)
 173        ("freetype" ,freetype)
 174        ("hdf5" ,hdf5)
 175        ("jpeg" ,libjpeg)
 176        ("jsoncpp" ,jsoncpp)
 177        ("libogg" ,libogg)
 178        ("libtheora" ,libtheora)
 179        ("png" ,libpng)
 180        ("tiff" ,libtiff)
 181        ("zlib" ,zlib)))
 182     (home-page "http://www.vtk.org/")
 183     (synopsis "Libraries for 3D computer graphics")
 184     (description
 185      "The Visualization Toolkit (VTK) is a C++ library for 3D computer graphics,
 186 image processing and visualization.  It supports a wide variety of
 187 visualization algorithms including: scalar, vector, tensor, texture, and
 188 volumetric methods; and advanced modeling techniques such as: implicit
 189 modeling, polygon reduction, mesh smoothing, cutting, contouring, and Delaunay
 190 triangulation.  VTK has an extensive information visualization framework, has
 191 a suite of 3D interaction widgets, supports parallel processing, and
 192 integrates with various databases on GUI toolkits such as Qt and Tk.")
 193     (license license:bsd-3)))