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| author | snehring <7978778+snehring@users.noreply.github.com> | 2023-09-25 23:26:19 -0500 |
|---|---|---|
| committer | GitHub <noreply@github.com> | 2023-09-26 06:26:19 +0200 |
| commit | 9fda22d942854098bc48bec4256456957d5005e8 (patch) | |
| tree | c4e4b55fd59cefdf084a20e767d8caa5ff959b94 | |
| parent | 550613ee3a8e36e6b74a4d33dc7bea3ec6ac81d5 (diff) | |
| download | spack-9fda22d942854098bc48bec4256456957d5005e8.tar.gz spack-9fda22d942854098bc48bec4256456957d5005e8.tar.bz2 spack-9fda22d942854098bc48bec4256456957d5005e8.tar.xz spack-9fda22d942854098bc48bec4256456957d5005e8.zip | |
bcl2fastq2: patch for compiling on aarch64 (#40195)
| -rw-r--r-- | var/spack/repos/builtin/packages/bcl2fastq2/cxxConfigure-aarch64.patch | 11 | ||||
| -rw-r--r-- | var/spack/repos/builtin/packages/bcl2fastq2/package.py | 2 |
2 files changed, 13 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/bcl2fastq2/cxxConfigure-aarch64.patch b/var/spack/repos/builtin/packages/bcl2fastq2/cxxConfigure-aarch64.patch new file mode 100644 index 0000000000..490b9fcd07 --- /dev/null +++ b/var/spack/repos/builtin/packages/bcl2fastq2/cxxConfigure-aarch64.patch @@ -0,0 +1,11 @@ +--- a/src/cmake/cxxConfigure.cmake 2017-06-22 12:14:50.000000000 -0500 ++++ b/src/cmake/cxxConfigure.cmake 2023-09-25 11:50:55.819690648 -0500 +@@ -118,7 +118,7 @@ + set(BCL2FASTQ_DEP_LIB ${BCL2FASTQ_DEP_LIB} "${LIBEXSLT_LIBRARIES}" "${LIBXSLT_LIBRARIES}" "${LIBXML2_LIBRARIES}") + + #set (CMAKE_CXX_FLAGS "$ENV{CXX_FLAGS} $ENV{CXXFLAGS} -fopenmp -msse2 -Werror -Wall -Wextra -Wunused -Wno-long-long -Wsign-compare -Wpointer-arith" CACHE STRING "g++ flags" FORCE) +-set (CMAKE_CXX_FLAGS "$ENV{CXX_FLAGS} $ENV{CXXFLAGS} -std=c++11 -fopenmp -msse2 -Wall -Wextra -Wunused -Wno-long-long -Wsign-compare -Wpointer-arith" CACHE STRING "g++ flags" FORCE) ++set (CMAKE_CXX_FLAGS "$ENV{CXX_FLAGS} $ENV{CXXFLAGS} -std=c++11 -fopenmp -Wall -Wextra -Wunused -Wno-long-long -Wsign-compare -Wpointer-arith" CACHE STRING "g++ flags" FORCE) + #set (CMAKE_CXX_FLAGS_DEBUG "-O0 -g -pg -fprofile-arcs -ftest-coverage -D_GLIBCXX_DEBUG" CACHE STRING "g++ flags" FORCE) + set (CMAKE_CXX_FLAGS_DEBUG "-O0 -std=c++11 -g -pg -fprofile-arcs -ftest-coverage" CACHE STRING "g++ flags" FORCE) + #set (CMAKE_CXX_FLAGS_DEBUG "-std=c++11 -O0 -g -pg -fprofile-arcs -ftest-coverage" CACHE STRING "g++ flags" FORCE) diff --git a/var/spack/repos/builtin/packages/bcl2fastq2/package.py b/var/spack/repos/builtin/packages/bcl2fastq2/package.py index 2dfc2ac8e5..65695f04f4 100644 --- a/var/spack/repos/builtin/packages/bcl2fastq2/package.py +++ b/var/spack/repos/builtin/packages/bcl2fastq2/package.py @@ -49,6 +49,8 @@ class Bcl2fastq2(Package): # After finding the libxslt bits, cmake still needs to wire in the # libexslt bits. patch("cxxConfigure-cmake.patch") + # -msse2 isn't valid for arm + patch("cxxConfigure-aarch64.patch", when="target=aarch64:") root_cmakelists_dir = "src" |