1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
|
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2017 John Darrington <jmd@gnu.org>
;;; Copyright © 2017 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2014 Ludovic Courtès <ludo@gnu.org>
;;; Copyright © 2014 Mark H Weaver <mhw@netris.org>
;;; Copyright © 2016 Eric Bavier <bavier@member.fsf.org>
;;;
;;; 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 image-processing)
#:use-module ((guix licenses) #:prefix license:)
#:use-module (guix packages)
#:use-module (guix utils)
#:use-module (guix download)
#:use-module (guix build-system cmake)
#:use-module (guix build-system gnu)
#:use-module (gnu packages)
#:use-module (gnu packages algebra)
#:use-module (gnu packages boost)
#:use-module (gnu packages compression)
#:use-module (gnu packages documentation)
#:use-module (gnu packages fontutils)
#:use-module (gnu packages gl)
#:use-module (gnu packages gnome)
#:use-module (gnu packages graphics)
#:use-module (gnu packages graphviz)
#:use-module (gnu packages image)
#:use-module (gnu packages maths)
#:use-module (gnu packages perl)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages python)
#:use-module (gnu packages serialization)
#:use-module (gnu packages xiph)
#:use-module (gnu packages xml)
#:use-module (gnu packages xorg))
;; We use the latest snapshot of this package because the latest release is
;; from 2011 and has known vulnerabilities that cannot easily be fixed by
;; applying patches.
(define-public dcmtk
(package
(name "dcmtk")
(version "3.6.1_20170228")
(source (origin
(method url-fetch)
(uri (string-append "ftp://dicom.offis.de/pub/dicom/offis/"
"software/dcmtk/snapshot/dcmtk-"
version ".tar.gz"))
(sha256
(base32
"04cwfx8yrscqcd59mxk2fh6314ckayi9cp68iql5a57pf2pg5qld"))))
(build-system gnu-build-system)
(inputs
`(("libtiff" ,libtiff)
("libpng" ,libpng)
("doxygen" ,doxygen)
("zlib" ,zlib)))
(native-inputs
`(("perl" ,perl)))
(home-page "http://dcmtk.org")
(synopsis "Libraries and programs implementing parts of the DICOM standard")
(description "DCMTK is a collection of libraries and applications
implementing large parts the DICOM standard. It includes software for
examining, constructing and converting DICOM image files, handling offline
media, sending and receiving images over a network connection, as well as
demonstrative image storage and worklist servers.")
(license (license:fsf-free
"file://COPYRIGHT"
"A union of the Apache 2.0 licence and various non-copyleft
licences similar to the Modified BSD licence."))))
(define-public mia
(package
(name "mia")
(version "2.4.4")
(source (origin
(method url-fetch)
(uri (string-append "mirror://sourceforge/mia/mia/"
(version-major+minor version)
"/mia-" version ".tar.xz"))
(sha256
(base32
"124gvf8nkls59mlnx8ynq00n9zrah7a54gsywafx7qmfr0y95ra7"))))
(build-system cmake-build-system)
(arguments
`(#:configure-flags
(list "-DMIA_CREATE_NIPYPE_INTERFACES=0"
"-DCMAKE_CXX_FLAGS=-fpermissive")))
(inputs
`(("boost" ,boost)
("dcmtk" ,dcmtk)
("doxygen" ,doxygen)
("eigen" ,eigen)
("fftw" ,fftw)
("fftwf" ,fftwf)
("gsl" ,gsl)
("gts" ,gts)
("hdf5" ,hdf5)
("itpp" ,itpp)
("libjpeg" ,libjpeg)
("libpng" ,libpng)
("libtiff" ,libtiff)
("libxml" ,libxml2)
("libxml++" ,libxml++)
("maxflow" ,maxflow)
("niftilib" ,niftilib)
("nlopt" ,nlopt)
("openexr" ,openexr)
("python-lxml" ,python2-lxml)
("vtk" ,vtk)))
(native-inputs
`(("pkg-config" ,pkg-config)
("python" ,python-2)))
(home-page "http://mia.sourceforge.net")
(synopsis "Toolkit for gray scale medical image analysis")
(description "MIA provides a combination of command line tools, plug-ins,
and libraries that make it possible run image processing tasks interactively
in a command shell and to prototype using the shell's scripting language. It
is built around a plug-in structure that makes it easy to add functionality
without compromising the original code base and it makes use of a wide variety
of external libraries that provide additional functionality.")
(license license:gpl3+)))
(define-public vtk
(package
(name "vtk")
(version "7.1.0")
(source (origin
(method url-fetch)
(uri (string-append "http://www.vtk.org/files/release/"
(version-major+minor version)
"/VTK-" version ".tar.gz"))
(sha256
(base32
"0yj96z58haan77gzilnqp7xpf8hg5jk11a3jx55p2ksd400s0gjz"))))
(build-system cmake-build-system)
(arguments
'(#:build-type "Release" ;Build without '-g' to save space.
;; -DVTK_USE_SYSTEM_NETCDF:BOOL=TRUE requires netcdf_cxx
#:configure-flags '("-DVTK_USE_SYSTEM_EXPAT:BOOL=TRUE"
"-DVTK_USE_SYSTEM_FREETYPE:BOOL=TRUE"
"-DVTK_USE_SYSTEM_HDF5:BOOL=TRUE"
"-DVTK_USE_SYSTEM_JPEG:BOOL=TRUE"
"-DVTK_USE_SYSTEM_JSONCPP:BOOL=TRUE"
"-DVTK_USE_SYSTEM_LIBXML2:BOOL=TRUE"
"-DVTK_USE_SYSTEM_OGGTHEORA:BOOL=TRUE"
"-DVTK_USE_SYSTEM_PNG:BOOL=TRUE"
"-DVTK_USE_SYSTEM_TIFF:BOOL=TRUE"
"-DVTK_USE_SYSTEM_ZLIB:BOOL=TRUE")
#:tests? #f)) ;XXX: no "test" target
(inputs
`(("libXt" ,libxt)
("xproto" ,xproto)
("libX11" ,libx11)
("libxml2" ,libxml2)
("mesa" ,mesa)
("glu" ,glu)
("expat" ,expat)
("freetype" ,freetype)
("hdf5" ,hdf5)
("jpeg" ,libjpeg)
("jsoncpp" ,jsoncpp)
("libogg" ,libogg)
("libtheora" ,libtheora)
("png" ,libpng)
("tiff" ,libtiff)
("zlib" ,zlib)))
(home-page "http://www.vtk.org/")
(synopsis "Libraries for 3D computer graphics")
(description
"The Visualization Toolkit (VTK) is a C++ library for 3D computer graphics,
image processing and visualization. It supports a wide variety of
visualization algorithms including: scalar, vector, tensor, texture, and
volumetric methods; and advanced modeling techniques such as: implicit
modeling, polygon reduction, mesh smoothing, cutting, contouring, and Delaunay
triangulation. VTK has an extensive information visualization framework, has
a suite of 3D interaction widgets, supports parallel processing, and
integrates with various databases on GUI toolkits such as Qt and Tk.")
(license license:bsd-3)))
|
