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1 | ;;; GNU Guix --- Functional package management for GNU |
2 | ;;; Copyright © 2017 John Darrington <jmd@gnu.org> | |
3 | ;;; Copyright © 2017 Ricardo Wurmus <rekado@elephly.net> | |
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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> | |
11861d2b | 7 | ;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr> |
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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) | |
cdb2a211 | 29 | #:use-module (guix build-system cmake) |
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30 | #:use-module (guix build-system gnu) |
31 | #:use-module (gnu packages) | |
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32 | #:use-module (gnu packages algebra) |
33 | #:use-module (gnu packages boost) | |
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34 | #:use-module (gnu packages compression) |
35 | #:use-module (gnu packages documentation) | |
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36 | #:use-module (gnu packages fontutils) |
37 | #:use-module (gnu packages gl) | |
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38 | #:use-module (gnu packages gnome) |
39 | #:use-module (gnu packages graphics) | |
40 | #:use-module (gnu packages graphviz) | |
504c285d | 41 | #:use-module (gnu packages image) |
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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) | |
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46 | #:use-module (gnu packages serialization) |
47 | #:use-module (gnu packages xiph) | |
cdb2a211 | 48 | #:use-module (gnu packages xml) |
98d6cdda | 49 | #:use-module (gnu packages xorg)) |
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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.")))) | |
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85 | |
86 | (define-public mia | |
87 | (package | |
88 | (name "mia") | |
11861d2b | 89 | (version "2.4.6") |
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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 | |
11861d2b | 97 | "0j4nd5z7i3v199jh7hqqhwd4g7snchizkc7rhzanpvngqg91m1pb")))) |
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98 | (build-system cmake-build-system) |
99 | (arguments | |
100 | `(#:configure-flags | |
101 | (list "-DMIA_CREATE_NIPYPE_INTERFACES=0" | |
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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+))) | |
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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))) |