[med-svn] [simpleitk] 02/03: Initial debianization
Ghislain Vaillant
ghisvail-guest at moszumanska.debian.org
Tue Oct 31 19:00:10 UTC 2017
This is an automated email from the git hooks/post-receive script.
ghisvail-guest pushed a commit to branch master
in repository simpleitk.
commit c9e34fa1c1742036253e106ad596d39c95aaa2ee
Author: Ghislain Antony Vaillant <ghisvail at gmail.com>
Date: Fri Aug 4 17:14:36 2017 +0100
Initial debianization
---
debian/changelog | 5 +
debian/compat | 1 +
debian/control | 65 +++
debian/copyright | 535 +++++++++++++++++++++
debian/gbp.conf | 8 +
debian/libsimpleitk1-dev.install | 3 +
debian/libsimpleitk1.0.install | 1 +
debian/libsimpleitk1.0.lintian-overrides | 1 +
...ix-build-with-ITKV3_COMPATIBILITY-enabled.patch | 21 +
...h-created-for-output-of-4D-images-in-test.patch | 42 ++
debian/patches/series | 2 +
debian/python3-simpleitk.install | 1 +
debian/rules | 50 ++
debian/source/format | 1 +
debian/source/lintian-overrides | 2 +
debian/watch | 7 +
16 files changed, 745 insertions(+)
diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..191c3cb
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,5 @@
+simpleitk (1.0.1-1) UNRELEASED; urgency=low
+
+ * Initial release. (Closes: #740296)
+
+ -- Ghislain Antony Vaillant <ghisvail at gmail.com> Fri, 04 Aug 2017 17:13:54 +0100
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..f599e28
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+10
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..4fd479c
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,65 @@
+Source: simpleitk
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Ghislain Antony Vaillant <ghisvail at gmail.com>
+Section: libs
+Priority: optional
+Build-Depends: cmake (>= 3.0),
+ debhelper (>= 10),
+ dh-python,
+ googletest,
+ libfftw3-dev,
+ libinsighttoolkit4-dev (>= 4.11),
+ lua5.1,
+ python3-dev,
+ python3-numpy,
+ python3-setuptools,
+ swig (>= 3.0.12)
+Standards-Version: 4.1.1
+Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/simpleitk.git
+Vcs-Git: https://anonscm.debian.org/git/debian-med/simpleitk.git
+Homepage: http://www.simpleitk.org/
+
+Package: libsimpleitk1.0
+Architecture: any
+Multi-Arch: same
+Depends: ${misc:Depends},
+ ${shlibs:Depends}
+Description: cross-platform image analysis toolkit
+ SimpleITK is an image analysis toolkit with a large number of components
+ supporting general filtering operations, image segmentation and registration.
+ It is built on top of the Insight Segmentation and Registration Toolkit ITK
+ with the intent of providing a simplified interface to ITK. SimpleITK itself is
+ written in C++ but is available for a large number of programming languages.
+ .
+ This package provides the shared libraries.
+
+Package: libsimpleitk1-dev
+Architecture: any
+Multi-Arch: same
+Section: libdevel
+Depends: ${misc:Depends},
+ ${shlibs:Depends},
+ libsimpleitk1.0 (= ${binary:Version})
+Description: development files for SimpleITK
+ SimpleITK is an image analysis toolkit with a large number of components
+ supporting general filtering operations, image segmentation and registration.
+ It is built on top of the Insight Segmentation and Registration Toolkit ITK
+ with the intent of providing a simplified interface to ITK. SimpleITK itself is
+ written in C++ but is available for a large number of programming languages.
+ .
+ This package provides the development files.
+
+Package: python3-simpleitk
+Architecture: any
+Section: python
+Depends: ${misc:Depends},
+ ${python3:Depends},
+ ${shlibs:Depends}
+Description: Python bindings for SimpleITK
+ SimpleITK is an image analysis toolkit with a large number of components
+ supporting general filtering operations, image segmentation and registration.
+ It is built on top of the Insight Segmentation and Registration Toolkit ITK
+ with the intent of providing a simplified interface to ITK. SimpleITK itself is
+ written in C++ but is available for a large number of programming languages.
+ .
+ This package provides the Python bindings.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..c4fd094
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,535 @@
+Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: SimpleITK
+Source: https://sourceforge.net/projects/simpleitk/
+
+Files: *
+Copyright: Insight Software Consortium
+License: Apache-2.0
+
+Files: CMake/FindCSharp.cmake
+ CMake/FindDotNetFrameworkSdk.cmake
+ CMake/FindMono.cmake
+ CMake/UseCSharp.cmake
+ CMake/UseDotNetFrameworkSdk.cmake
+ CMake/UseMono.cmake
+Copyright: 2006-2010 Mathieu Malaterre <mathieu.malaterre at gmail.com>
+License: BSD-2-Clause
+
+Files: CMake/ExternalData.cmake
+ CMake/FindGTest.cmake
+ CMake/GoogleTest.cmake
+Copyright: 2000-2017 Kitware, Inc. and Contributors
+License: BSD-3-Clause
+
+Files: CMake/GetGitRevisionDescription.cmake
+Copyright: 2009-2010 Iowa State University
+License: BSL-1.0
+
+Files: Code/Common/include/Ancillary/hl_*.*
+Copyright: 2007-2010 Benjamin Grüdelbach
+License: BSD-2-Clause
+
+Files: debian/*
+Copyright: 2017 Ghislain Antony Vaillant <ghisvail at gmail.com>
+License: Apache-2.0
+
+Files: Utilities/C99/inttypes.h
+Copyright: 2006 Alexander Chemeris
+License: BSD-3-Clause
+
+Files: Utilities/C99/stdint.h
+Copyright: 2006-2008 Alexander Chemeris
+License: BSD-3-Clause
+
+Files: Utilities/GenerateDocs/doxy2swig.py
+Copyright: Prabhu Ramachandran
+License: BSD-2-Clause
+
+Files: Utilities/Hooks/pre-commit-style.bash
+Copyright: 2010-2011 Kitware, Inc.
+License: Apache-2.0
+
+Files: Wrapping/Python/sitkPython.h
+Copyright: Ken Martin, Will Schroeder, Bill Lorensen
+License: BSD-3-Clause
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/algorithm.sty
+ Wrapping/R/Packaging/SimpleITK/vignettes/algorithmic.sty
+Copyright: 1994 Peter Williams
+License: Latex2e
+ Permission is granted to make and distribute verbatim copies of this manual
+ provided the copyright notice and this permission notice are preserved on all
+ copies.
+ .
+ Permission is granted to copy and distribute modified versions of this manual
+ under the conditions for verbatim copying, provided that the entire resulting
+ derived work is distributed under the terms of a permission notice identical
+ to this one.
+ .
+ Permission is granted to copy and distribute translations of this manual into
+ another language, under the above conditions for modified versions.
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/amssymb.sty
+Copyright: 2001 American Mathematical Society
+License: amsfonts
+ Copying of this file is authorized only if either:
+ (1) you make absolutely no changes to your copy, including name; OR
+ (2) if you do make changes, you first rename it to some other name.
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/fancyhdr.sty
+Copyright: 1994-1998 Piet van Oostrum
+License: fancyhdr.sty
+ This is free software. You are allowed to use and distribute
+ this software in any way you like. You are also allowed to make modified
+ versions of it, but you can distribute a modified version only if you
+ clearly indicate that it is a modified version and the person(s) who
+ modified it. This indication should be in a prominent place, e.g. in the
+ top of the file. If possible a contact address, preferably by email,
+ should be given for these persons. If that is feasible the modifications
+ should be indicated in the source code.
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/floatflt.sty
+Copyright: 1994-1998 Mats Dahlgren <matsd at sssk.se>
+License: LPPL-1.2
+Comment: https://ctan.org/tex-archive/macros/latex/contrib/floatflt
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/fncychap.sty
+Copyright: 1998 Ulf A. Lindgren
+License: fncychap.sty
+ Permission is granted to modify this file under
+ the condition that it is saved using another
+ file and package name.
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/jss.cls
+Copyright: Achim Zeileis
+License: GPL-2
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/times.sty
+Copyright: 1995-1998 Sebastian Rahtz
+License: psfonts.dtx
+ Any modified versions of this file must be renamed
+ with new filenames distinct from times.sty.
+ .
+ For distribution of the original source see the terms
+ for copying and modification in the file psfonts.dtx.
+ .
+ This generated file may be distributed as long as the
+ original source files, as listed above, are part of the
+ same distribution. (The sources need not necessarily be
+ in the same archive or directory.)
+Comment: The original source files were: psfonts.dtx (with options: `times')
+
+Files: Wrapping/R/Packaging/SimpleITK/vignettes/upquote.sty
+Copyright: 2000 Michael A. Covington
+ 2003 Michael A. Covington, Frank Mittelbach
+License: LPPL-1.2
+
+License: Apache-2.0
+ Licensed under the Apache License, Version 2.0 (the "License");
+ you may not use this file except in compliance with the License.
+ You may obtain a copy of the License at
+ http://www.apache.org/licenses/LICENSE-2.0
+ Unless required by applicable law or agreed to in writing, software
+ distributed under the License is distributed on an "AS IS"BASIS,
+ WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ See the License for the specific language governing permissions and
+ limitations under the License.
+ .
+ On Debian systems, the complete text of the Apache License,
+ Version 2.0 can be found in '/usr/share/common-licenses/Apache-2.0'.
+
+License: BSD-2-Clause
+ Redistribution and use in source and binary forms, with or without
+ modification, are permitted provided that the following conditions are met:
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+ * Redistributions of source code must retain the above copyright notice, this
+ list of conditions and the following disclaimer.
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diff --git a/debian/gbp.conf b/debian/gbp.conf
new file mode 100644
index 0000000..89a8927
--- /dev/null
+++ b/debian/gbp.conf
@@ -0,0 +1,8 @@
+[DEFAULT]
+upstream-branch = upstream
+debian-branch = master
+upstream-tag = upstream/%(version)s
+debian-tag = debian/%(version)s
+sign-tags = True
+pristine-tar = True
+component = data
diff --git a/debian/libsimpleitk1-dev.install b/debian/libsimpleitk1-dev.install
new file mode 100644
index 0000000..bb72267
--- /dev/null
+++ b/debian/libsimpleitk1-dev.install
@@ -0,0 +1,3 @@
+usr/include
+usr/lib/*/*.so
+usr/lib/*/cmake
diff --git a/debian/libsimpleitk1.0.install b/debian/libsimpleitk1.0.install
new file mode 100644
index 0000000..55dfa22
--- /dev/null
+++ b/debian/libsimpleitk1.0.install
@@ -0,0 +1 @@
+usr/lib/*/*-1.0.so.*
diff --git a/debian/libsimpleitk1.0.lintian-overrides b/debian/libsimpleitk1.0.lintian-overrides
new file mode 100644
index 0000000..8675979
--- /dev/null
+++ b/debian/libsimpleitk1.0.lintian-overrides
@@ -0,0 +1 @@
+package-name-doesnt-match-sonames
diff --git a/debian/patches/Fix-build-with-ITKV3_COMPATIBILITY-enabled.patch b/debian/patches/Fix-build-with-ITKV3_COMPATIBILITY-enabled.patch
new file mode 100644
index 0000000..6f2eb01
--- /dev/null
+++ b/debian/patches/Fix-build-with-ITKV3_COMPATIBILITY-enabled.patch
@@ -0,0 +1,21 @@
+From: Bradley Lowekamp <blowekamp at mail.nih.gov>
+Date: Mon, 5 Jun 2017 11:46:10 +0100
+Subject: Fix build with ITKV3_COMPATIBILITY enabled
+
+---
+ Code/BasicFilters/json/HistogramMatchingImageFilter.json | 2 +-
+ 1 file changed, 1 insertion(+), 1 deletion(-)
+
+diff --git a/Code/BasicFilters/json/HistogramMatchingImageFilter.json b/Code/BasicFilters/json/HistogramMatchingImageFilter.json
+index 26363cf..18efe40 100644
+--- a/Code/BasicFilters/json/HistogramMatchingImageFilter.json
++++ b/Code/BasicFilters/json/HistogramMatchingImageFilter.json
+@@ -5,7 +5,7 @@
+ "filter_type" : "itk::HistogramMatchingImageFilter<InputImageType, OutputImageType>",
+ "number_of_inputs" : 2,
+ "doc" : "",
+- "pixel_types" : "BasicPixelIDTypeList",
++ "pixel_types" : "typelist::MakeTypeList<BasicPixelID<int8_t>, BasicPixelID<uint8_t>, BasicPixelID<int16_t>, BasicPixelID<uint16_t>, BasicPixelID<int32_t>, BasicPixelID<uint32_t>, BasicPixelID<float>, BasicPixelID<double> >::Type",
+ "members" : [
+ {
+ "name" : "NumberOfHistogramLevels",
diff --git a/debian/patches/Fix-path-created-for-output-of-4D-images-in-test.patch b/debian/patches/Fix-path-created-for-output-of-4D-images-in-test.patch
new file mode 100644
index 0000000..d64874d
--- /dev/null
+++ b/debian/patches/Fix-path-created-for-output-of-4D-images-in-test.patch
@@ -0,0 +1,42 @@
+From: Bradley Lowekamp <blowekamp at mail.nih.gov>
+Date: Thu, 18 May 2017 13:20:56 -0400
+Subject: Fix path created for output of 4D images in test
+
+There was missing a directory separator.
+---
+ Testing/Unit/sitkImage4DTests.cxx | 8 ++++----
+ 1 file changed, 4 insertions(+), 4 deletions(-)
+
+diff --git a/Testing/Unit/sitkImage4DTests.cxx b/Testing/Unit/sitkImage4DTests.cxx
+index af6c16a..1dcd45c 100644
+--- a/Testing/Unit/sitkImage4DTests.cxx
++++ b/Testing/Unit/sitkImage4DTests.cxx
+@@ -491,11 +491,11 @@ TEST( IO, Image4D )
+ EXPECT_EQ( 1u, image.GetNumberOfComponentsPerPixel() );
+
+ sitk::ImageFileWriter imageWriter;
+- imageWriter.SetFileName( dataFinder.GetOutputDirectory()+"image4d.nii" );
++ imageWriter.SetFileName( dataFinder.GetOutputDirectory()+"/image4d.nii" );
+ ASSERT_NO_THROW( imageWriter.Execute( image ) );
+
+ sitk::ImageFileReader imageReader;
+- imageReader.SetFileName( dataFinder.GetOutputDirectory()+"image4d.nii" );
++ imageReader.SetFileName( dataFinder.GetOutputDirectory()+"/image4d.nii" );
+ ASSERT_NO_THROW( imageRead = imageReader.Execute() );
+ EXPECT_EQ ( sitk::Hash( image ), sitk::Hash( imageRead ) );
+
+@@ -509,12 +509,12 @@ TEST( IO, Image4D )
+ EXPECT_EQ( 21u, imageRead2.GetDepth() );
+ EXPECT_EQ( 4u, imageRead2.GetSize()[3] );
+
+- imageWriter.SetFileName( dataFinder.GetOutputDirectory()+"image4d2.nii" );
++ imageWriter.SetFileName( dataFinder.GetOutputDirectory()+"/image4d2.nii" );
+ ASSERT_NO_THROW( imageWriter.Execute( imageRead2 ) );
+
+ sitk::Image imageRead3;
+ ASSERT_NO_THROW( imageRead3 = imageReader.Execute() );
+- imageReader.SetFileName( dataFinder.GetOutputDirectory()+"image4d2.nii" );
++ imageReader.SetFileName( dataFinder.GetOutputDirectory()+"/image4d2.nii" );
+ EXPECT_EQ ( "9e81d4b3cdf10a4da5d54c8cd7c4954449d76d5d", sitk::Hash( imageRead3 ) );
+
+ // VectorImage
diff --git a/debian/patches/series b/debian/patches/series
new file mode 100644
index 0000000..dbfd771
--- /dev/null
+++ b/debian/patches/series
@@ -0,0 +1,2 @@
+Fix-build-with-ITKV3_COMPATIBILITY-enabled.patch
+Fix-path-created-for-output-of-4D-images-in-test.patch
diff --git a/debian/python3-simpleitk.install b/debian/python3-simpleitk.install
new file mode 100644
index 0000000..b06a399
--- /dev/null
+++ b/debian/python3-simpleitk.install
@@ -0,0 +1 @@
+usr/lib/python3
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..e72d852
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,50 @@
+#!/usr/bin/make -f
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+export DEB_BUILD_MAINT_OPTIONS=hardening=+all
+
+BUILDDIR=$(CURDIR)/SimpleITK-build
+DESTDIR=$(CURDIR)/debian/tmp
+
+BUILD_OPTIONS=-DBUILD_EXAMPLES:BOOL=OFF \
+ -DBUILD_SHARED_LIBS:BOOL=ON \
+ -DExternalData_OBJECT_STORES:PATH=$(CURDIR)/data/.ExternalData \
+ -DSimpleITK_4D_IMAGES:BOOL=ON \
+ -DSimpleITK_BUILD_DISTRIBUTE:BOOL=ON \
+ -DSimpleITK_EXPLICIT_INSTANTIATION:BOOL=OFF \
+ -DSimpleITK_FORBID_DOWNLOADS:BOOL=ON \
+ -DSimpleITK_INSTALL_ARCHIVE_DIR:PATH=lib/$(DEB_HOST_MULTIARCH) \
+ -DSimpleITK_INSTALL_LIBRARY_DIR:PATH=lib/$(DEB_HOST_MULTIARCH) \
+ -DWRAP_DEFAULT:BOOL=OFF
+
+ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
+BUILD_OPTIONS+=-DBUILD_TESTING:BOOL=ON \
+ -DGTEST_ROOT:PATH=/usr/src/googletest
+else
+BUILD_OPTIONS+=-DBUILD_TESTING:BOOL=OFF
+endif
+
+PYTHON3:=$(shell py3versions -d)
+
+BUILD_OPTIONS+=-DWRAP_PYTHON:BOOL=ON \
+ -DSimpleITK_PYTHON_USE_VIRTUALENV:BOOL=OFF \
+ -DSimpleITK_PYTHON_WHEEL:BOOL=OFF \
+ -DPYTHON_EXECUTABLE:FILEPATH=/usr/bin/$(PYTHON3)
+
+%:
+ dh $@ --with python3 --builddirectory=$(BUILDDIR)
+
+override_dh_auto_configure:
+ dh_auto_configure -- $(BUILD_OPTIONS)
+
+override_dh_auto_test:
+ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
+ LD_LIBRARY_PATH=$(BUILDDIR)/lib dh_auto_test
+endif
+
+override_dh_auto_install:
+ dh_auto_install
+ cd $(BUILDDIR)/Wrapping/Python/Packaging \
+ && $(PYTHON3) setup.py install --root $(DESTDIR) --install-layout=deb
diff --git a/debian/source/format b/debian/source/format
new file mode 100644
index 0000000..163aaf8
--- /dev/null
+++ b/debian/source/format
@@ -0,0 +1 @@
+3.0 (quilt)
diff --git a/debian/source/lintian-overrides b/debian/source/lintian-overrides
new file mode 100644
index 0000000..8dfd0b2
--- /dev/null
+++ b/debian/source/lintian-overrides
@@ -0,0 +1,2 @@
+# Dual-licensed under the BSD-2-Clause license.
+license-problem-non-free-RFC Code/Common/include/Ancillary/hl_sha1.*
diff --git a/debian/watch b/debian/watch
new file mode 100644
index 0000000..14f854d
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,7 @@
+version=4
+opts=uversionmangle=s/(rc|a|b|c)/~$1/
+ https://github.com/SimpleITK/SimpleITK/releases \
+ .*/SimpleITK at ANY_VERSION@@ARCHIVE_EXT@ debian
+opts=component=data,uversionmangle=s/(rc|a|b|c)/~$1/ \
+ https://github.com/SimpleITK/SimpleITK/releases \
+ .*/SimpleITKData at ANY_VERSION@@ARCHIVE_EXT@ same
--
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