This patch is original to Guix, ongoing work to upstream bits as possible. From 9acc56db5e7469f5976be38b52ba4993de98ee38 Mon Sep 17 00:00:00 2001 From: Efraim Flashner Date: Sun, 17 Jan 2021 13:27:17 +0200 Subject: [PATCH] devendor-dependants --- meson.build | 84 +++++++++++++++++++++++++++++++++++++++++------------ 1 file changed, 66 insertions(+), 18 deletions(-) diff --git a/meson.build b/meson.build index f6bf242..bded4af 100644 --- a/meson.build +++ b/meson.build @@ -9,8 +9,13 @@ project('freebayes', ['cpp', 'c'], zlib_dep = dependency('zlib') lzma_dep = dependency('liblzma') +simde_dep = dependency('simde') bzip2_dep = dependency('bz2lib', required: false) htslib_dep = dependency('htslib', required : false) +tabixpp_dep = dependency('tabixpp', required : false) +fastahack_dep = dependency('fastahack', required : false) +smithwaterman_dep = dependency('smithwaterman', required : false) +vcflib_dep = dependency('libvcflib', required: false) thread_dep = dependency('threads') if htslib_dep.found() @@ -59,6 +64,56 @@ else ] endif +if tabixpp_dep.found() + tabixpp_includes = '' + tabixpp_src = [] +else + tabixpp_includes = [ + 'vcflib/tabixpp', + ] + tabixpp_src = [ + 'vcflib/tabixpp/tabix.cpp', + ] +endif + +if vcflib_dep.found() + vcflib_includes = '' + vcflib_src = [] +else + vcflib_includes = [ + 'vcflib/src', + 'vcflib/multichoose', + 'vcflib/filevercmp', + ] + vcflib_src = [ + 'vcflib/src/Variant.cpp', + ] +endif + +if fastahack_dep.found() + fastahack_src = [] +else + fastahack_src = [ + 'vcflib/fastahack/Fasta.cpp', + 'vcflib/src/split.cpp', + ] +endif + +if smithwaterman_dep.found() + smithwaterman_includes = '' + smithwaterman_src = [] +else + smithwaterman_includes = [ + 'vcflib/smithwaterman', + ] + smithwaterman_src = [ + 'vcflib/smithwaterman/SmithWatermanGotoh.cpp', + 'vcflib/smithwaterman/disorder.cpp', + 'vcflib/smithwaterman/Repeats.cpp', + 'vcflib/smithwaterman/LeftAlign.cpp', + 'vcflib/smithwaterman/IndelAllele.cpp', + ] +endif # @@ -105,23 +160,18 @@ seqlib_src = [ ] vcflib_src = [ - 'vcflib/tabixpp/tabix.cpp', - 'vcflib/src/Variant.cpp', - 'vcflib/smithwaterman/SmithWatermanGotoh.cpp', - 'vcflib/smithwaterman/disorder.cpp', - 'vcflib/smithwaterman/Repeats.cpp', - 'vcflib/smithwaterman/LeftAlign.cpp', - 'vcflib/smithwaterman/IndelAllele.cpp', + vcflib_src, + tabixpp_src, + smithwaterman_src, ] bamleftalign_src = [ 'src/bamleftalign.cpp', 'src/IndelAllele.cpp', 'contrib/SeqLib/src/BamWriter.cpp', - 'vcflib/fastahack/Fasta.cpp', - 'vcflib/smithwaterman/LeftAlign.cpp', - 'vcflib/smithwaterman/IndelAllele.cpp', - 'vcflib/src/split.cpp', + fastahack_src, + smithwaterman_src, + vcflib_src, 'src/LeftAlign.cpp', ] @@ -134,11 +184,9 @@ incdir = include_directories( 'ttmath', 'contrib', 'contrib/SeqLib', - 'vcflib/src', - 'vcflib/tabixpp', - 'vcflib/smithwaterman', - 'vcflib/multichoose', - 'vcflib/filevercmp') + tabixpp_includes, + smithwaterman_includes, + vcflib_includes) c_args = ['-fpermissive','-w'] cpp_args = ['-fpermissive','-w','-Wc++14-compat'] @@ -152,7 +200,7 @@ executable('freebayes', include_directories : incdir, cpp_args : cpp_args, c_args : c_args, - dependencies: [zlib_dep, lzma_dep, htslib_dep, thread_dep], + dependencies: [zlib_dep, lzma_dep, simde_dep, htslib_dep, tabixpp_dep, smithwaterman_dep, vcflib_dep, thread_dep], install: true ) @@ -165,7 +213,7 @@ executable('bamleftalign', include_directories : incdir, cpp_args : cpp_args, c_args : c_args, - dependencies: [zlib_dep, lzma_dep, htslib_dep, thread_dep], + dependencies: [zlib_dep, lzma_dep, simde_dep, htslib_dep, tabixpp_dep, fastahack_dep, smithwaterman_dep, vcflib_dep, thread_dep], install: true ) -- 2.30.0