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commit: 40022cd56f21a7152d812b6435734aafa032c7f8 |
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Author: Horea Christian <chr <AT> chymera <DOT> eu> |
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AuthorDate: Fri Sep 25 19:40:28 2020 +0000 |
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Commit: Horea Christian <horea.christ <AT> gmail <DOT> com> |
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CommitDate: Fri Sep 25 19:40:28 2020 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=40022cd5 |
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|
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sci-biology/ants: version bump 2.3.4 |
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|
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Package-Manager: Portage-3.0.7, Repoman-3.0.1 |
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Signed-off-by: Horea Christian <chr <AT> chymera.eu> |
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|
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sci-biology/ants/ants-2.3.4.ebuild | 77 ++++++++++++++++ |
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sci-biology/ants/files/ants-2.3.4-libdir.patch | 117 ++++++++++++++++++++++++ |
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sci-biology/ants/files/ants-2.3.4-version.patch | 17 ++++ |
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3 files changed, 211 insertions(+) |
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|
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diff --git a/sci-biology/ants/ants-2.3.4.ebuild b/sci-biology/ants/ants-2.3.4.ebuild |
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new file mode 100644 |
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index 000000000..e00865149 |
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--- /dev/null |
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+++ b/sci-biology/ants/ants-2.3.4.ebuild |
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@@ -0,0 +1,77 @@ |
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+# Copyright 1999-2020 Gentoo Authors |
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+# Distributed under the terms of the GNU General Public License v2 |
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+ |
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+EAPI=7 |
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+ |
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+CMAKE_MAKEFILE_GENERATOR="emake" |
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+ |
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+inherit cmake multilib |
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+ |
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+MY_PN="ANTs" |
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+ |
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+DESCRIPTION="Advanced Normalitazion Tools for neuroimaging" |
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+HOMEPAGE="http://stnava.github.io/ANTs/" |
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+SRC_URI=" |
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+ https://github.com/ANTsX/ANTs/archive/v${PV}.tar.gz -> ${P}.tar.gz |
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+ test? ( |
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+ http://chymera.eu/distfiles/ants_testdata-${PV}.tar.xz |
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+ ) |
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+" |
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+ |
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+SLOT="0" |
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+LICENSE="BSD" |
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+KEYWORDS="~amd64 ~x86" |
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+IUSE="test vtk" |
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+ |
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+DEPEND=" |
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+ vtk? ( |
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+ ~sci-libs/itk-5.1.0[vtkglue] |
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+ sci-libs/vtk |
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+ ) |
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+ !vtk? ( ~sci-libs/itk-5.1.0 ) |
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+" |
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+RDEPEND="${DEPEND}" |
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+ |
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+PATCHES=( |
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+ "${FILESDIR}/${P}-version.patch" |
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+ "${FILESDIR}/${P}-libdir.patch" |
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+) |
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+ |
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+S="${WORKDIR}/${MY_PN}-${PV}" |
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+ |
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+src_unpack() { |
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+ default |
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+ if use test; then |
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+ mkdir -p "${S}/.ExternalData/MD5" || die "Could not create test data directory." |
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+ tar xvf "${DISTDIR}/ants_testdata-${PV}.tar.xz" -C "${S}/.ExternalData/MD5/" > /dev/null || die "Could not unpack test data." |
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+ fi |
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+} |
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+ |
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+src_configure() { |
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+ local mycmakeargs=( |
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+ -DUSE_SYSTEM_ITK=ON |
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+ -DITK_DIR="${EROOT}/usr/include/ITK-5.1/" |
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+ -DBUILD_TESTING="$(usex test ON OFF)" |
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+ -DUSE_VTK=$(usex vtk ON OFF) |
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+ -DUSE_SYSTEM_VTK=$(usex vtk ON OFF) |
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+ -DANTS_SNAPSHOT_VERSION:STRING=${PV} |
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+ ) |
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+ use vtk && mycmakeargs+=( |
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+ -DVTK_DIR="${EROOT}/usr/include/vtk-8.1/" |
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+ ) |
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+ use test && mycmakeargs+=( |
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+ -DExternalData_OBJECT_STORES="${S}/.ExternalData/MD5" |
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+ ) |
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+ cmake_src_configure |
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+} |
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+ |
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+src_install() { |
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+ BUILD_DIR="${WORKDIR}/${P}_build/ANTS-build" |
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+ cmake_src_install |
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+ cd "${S}/Scripts" || die "scripts dir not found" |
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+ dobin *.sh |
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+ dodir /usr/$(get_libdir)/ants |
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+ insinto "/usr/$(get_libdir)/ants" |
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+ doins * |
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+ doenvd "${FILESDIR}"/99ants |
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+} |
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|
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diff --git a/sci-biology/ants/files/ants-2.3.4-libdir.patch b/sci-biology/ants/files/ants-2.3.4-libdir.patch |
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new file mode 100644 |
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index 000000000..b593c2778 |
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--- /dev/null |
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+++ b/sci-biology/ants/files/ants-2.3.4-libdir.patch |
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@@ -0,0 +1,117 @@ |
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+From 329a7be631b33294d9cf3d58e8cdeb62e0aa993c Mon Sep 17 00:00:00 2001 |
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+From: Philip A Cook <cookpa@××××××××××××××××××.edu> |
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+Date: Fri, 26 Jun 2020 18:23:08 +0000 |
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+Subject: [PATCH] ENH: Use GNUInstallDirs CMake module |
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+ |
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+Trying to enable installation to the correct lib dir for each platform |
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+--- |
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+ Common.cmake | 7 +++++-- |
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+ Examples/CMakeLists.txt | 32 ++++++++++++++++---------------- |
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+ 2 files changed, 21 insertions(+), 18 deletions(-) |
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+ |
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+diff --git a/Common.cmake b/Common.cmake |
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+index 5e52d7f1..1e604113 100644 |
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+--- a/Common.cmake |
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++++ b/Common.cmake |
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+@@ -103,8 +103,6 @@ if(PLATFORM_CHECK) |
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+ endif() |
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+ endif() |
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+ |
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+- |
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+- |
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+ #------------------------------------------------------------------------- |
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+ # Augment compiler flags |
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+ #------------------------------------------------------------------------- |
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+@@ -124,3 +122,8 @@ if(NOT CMAKE_POSITION_INDEPENDENT_CODE) |
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+ set(CMAKE_POSITION_INDEPENDENT_CODE ON) |
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+ endif() |
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+ endif() |
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++ |
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++#------------------------------------------------------------------------- |
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++# Define install dirs for different platforms |
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++#------------------------------------------------------------------------- |
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++include(GNUInstallDirs) |
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+diff --git a/Examples/CMakeLists.txt b/Examples/CMakeLists.txt |
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+index 61781f56..cb352748 100644 |
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+--- a/Examples/CMakeLists.txt |
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++++ b/Examples/CMakeLists.txt |
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+@@ -1,4 +1,4 @@ |
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+-SET(CMAKE_INSTALL_RPATH "${CMAKE_INSTALL_PREFIX}/lib") |
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++SET(CMAKE_INSTALL_RPATH "${CMAKE_INSTALL_PREFIX}/${CMAKE_INSTALL_LIBDIR}") |
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+ ## Note that the antsUtilities can always be built static. It will then be linked |
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+ ## Directly into the other libraries. |
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+ add_library(antsUtilities antsUtilities.cxx |
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+@@ -14,11 +14,11 @@ add_library(antsUtilities antsUtilities.cxx |
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+ ) |
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+ target_link_libraries(antsUtilities ${ITK_LIBRARIES} ) |
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+ install(TARGETS antsUtilities |
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+- RUNTIME DESTINATION bin |
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++ RUNTIME DESTINATION ${CMAKE_INSTALL_BINDIR} |
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+ COMPONENT RUNTIME_antsUtilities |
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+- LIBRARY DESTINATION lib |
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++ LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT RUNTIME_antsUtilities |
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+- ARCHIVE DESTINATION lib |
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++ ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT DEVELOPMENT_antsUtilities |
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+ ) |
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+ |
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+@@ -34,22 +34,22 @@ macro(STATIC_ANTS_BUILD ANTS_FUNCTION_NAME EXTRA_LIBS) |
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+ |
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+ if (ANTS_INSTALL_LIBS_ONLY) |
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+ install(TARGETS l_${ANTS_FUNCTION_NAME} |
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+- # RUNTIME DESTINATION bin |
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++ # RUNTIME DESTINATION ${CMAKE_INSTALL_BINDIR} |
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+ # COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- LIBRARY DESTINATION lib |
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++ LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- ARCHIVE DESTINATION lib |
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++ ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT DEVELOPMENT_${ANTS_FUNCTION_NAME} |
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+ ) |
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+ else() |
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+ add_executable( ${ANTS_FUNCTION_NAME} cli_${ANTS_FUNCTION_NAME}.cxx ) |
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+ target_link_libraries( ${ANTS_FUNCTION_NAME} l_${ANTS_FUNCTION_NAME} ) |
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+ install(TARGETS l_${ANTS_FUNCTION_NAME} ${ANTS_FUNCTION_NAME} |
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+- RUNTIME DESTINATION bin |
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++ RUNTIME DESTINATION ${CMAKE_INSTALL_BINDIR} |
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+ COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- LIBRARY DESTINATION lib |
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++ LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- ARCHIVE DESTINATION lib |
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++ ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT DEVELOPMENT_${ANTS_FUNCTION_NAME} |
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+ ) |
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+ endif() |
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+@@ -68,11 +68,11 @@ macro(DYNAMIC_ANTS_BUILD ANTS_FUNCTION_NAME EXTRA_LIBS) |
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+ |
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+ if (ANTS_INSTALL_LIBS_ONLY) |
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+ install(TARGETS l_${ANTS_FUNCTION_NAME} |
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+- # RUNTIME DESTINATION bin |
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++ # RUNTIME DESTINATION ${CMAKE_INSTALL_BINDIR} |
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+ # COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- LIBRARY DESTINATION lib |
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++ LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- ARCHIVE DESTINATION lib |
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++ ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT DEVELOPMENT_${ANTS_FUNCTION_NAME} |
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+ ) |
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+ else() |
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+@@ -80,11 +80,11 @@ macro(DYNAMIC_ANTS_BUILD ANTS_FUNCTION_NAME EXTRA_LIBS) |
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+ target_link_libraries( ${ANTS_FUNCTION_NAME} l_${ANTS_FUNCTION_NAME} ) |
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+ |
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+ install(TARGETS l_${ANTS_FUNCTION_NAME} ${ANTS_FUNCTION_NAME} |
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+- RUNTIME DESTINATION bin |
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++ RUNTIME DESTINATION ${CMAKE_INSTALL_BINDIR} |
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+ COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- LIBRARY DESTINATION lib |
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++ LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT RUNTIME_${ANTS_FUNCTION_NAME} |
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+- ARCHIVE DESTINATION lib |
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++ ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR} |
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+ COMPONENT DEVELOPMENT_${ANTS_FUNCTION_NAME} |
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+ ) |
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+ endif() |
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|
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diff --git a/sci-biology/ants/files/ants-2.3.4-version.patch b/sci-biology/ants/files/ants-2.3.4-version.patch |
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new file mode 100644 |
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index 000000000..487151d69 |
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--- /dev/null |
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+++ b/sci-biology/ants/files/ants-2.3.4-version.patch |
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@@ -0,0 +1,17 @@ |
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+--- a/ANTS.cmake 2020-06-08 12:11:14.000000000 -0400 |
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++++ b/ANTS.cmake 2020-08-03 16:44:00.826633506 -0400 |
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+@@ -37,7 +37,6 @@ |
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+ set(${PROJECT_NAME}_VERSION_MAJOR 0) |
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+ set(${PROJECT_NAME}_VERSION_MINOR 0) |
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+ set(${PROJECT_NAME}_VERSION_PATCH 0) |
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+- set(${PROJECT_NAME}_VERSION_TWEAK 0) |
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+ set(${PROJECT_NAME}_VERSION "snapshot-${ANTS_SNAPSHOT_VERSION}") |
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+ endif() |
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+ |
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+@@ -46,7 +45,6 @@ |
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+ set(${PROJECT_NAME}_VERSION_MAJOR 0) |
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+ set(${PROJECT_NAME}_VERSION_MINOR 0) |
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+ set(${PROJECT_NAME}_VERSION_PATCH 0) |
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+- set(${PROJECT_NAME}_VERSION_TWEAK 0) |
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+ set(${PROJECT_NAME}_VERSION "0.0.0.0") |
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+ endif() |