e3cde9aaf8
* gnu/packages/patches/mosaicatcher-unbundle-htslib.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/bioinformatics.scm (mosaicatcher): New variable.
49 lines
1.3 KiB
Diff
49 lines
1.3 KiB
Diff
--- a/src/CMakeLists.txt 2021-05-28 13:07:25.655107983 +0200
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+++ b/src/CMakeLists.txt 2021-05-28 13:09:55.764025497 +0200
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@@ -21,24 +21,6 @@
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-### Link HTSlib
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-
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-ExternalProject_Add(htslib
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- PREFIX ${CMAKE_BINARY_DIR}/htslib
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- GIT_REPOSITORY "https://github.com/samtools/htslib.git"
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- GIT_TAG "1.3.1"
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- UPDATE_COMMAND ""
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- BUILD_IN_SOURCE 1
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- CONFIGURE_COMMAND ""
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- BUILD_COMMAND make
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- INSTALL_COMMAND make install prefix=${CMAKE_BINARY_DIR}/htslib
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- LOG_DOWNLOAD 1
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-)
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-link_directories (${CMAKE_BINARY_DIR}/htslib/lib)
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-include_directories (${CMAKE_BINARY_DIR}/htslib/include)
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-
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-
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-
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### Set version
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# Get the current working branch
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@@ -64,13 +46,6 @@
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# 2. Boost version from find_package (Boost_VERSION)
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-# 3. Get HTSlib version from git
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-execute_process(
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- COMMAND git describe --always
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- WORKING_DIRECTORY ${PROJECT_BINARY_DIR}/htslib
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- OUTPUT_VARIABLE HTSLIB_VERSION
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- OUTPUT_STRIP_TRAILING_WHITESPACE
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-)
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set(HTSLIB_VERSION "1.3.1 ${HTSLIB_VERSION}")
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# 4. write version.hpp file
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@@ -105,7 +80,6 @@
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add_executable (mosaic main.cpp ${HEADER_FILES})
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target_link_libraries (mosaic LINK_PUBLIC ${Boost_LIBRARIES})
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target_link_libraries (mosaic LINK_PUBLIC hts)
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-add_dependencies (mosaic htslib)
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### Doxygen API documentation
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