Update genesis to fix #21

lczech · Jun 11, 2024 · 0d66fe4 · 0d66fe4
1 parent 0bf5733
commit 0d66fe4
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/CMakeLists.txt b/CMakeLists.txt
@@ -168,7 +168,7 @@ include( "${CMAKE_CURRENT_LIST_DIR}/tools/cmake/DownloadDependency.cmake" )
 # These are replaced by tools/cmake/update_dependencies.sh to the hashes that are currently checked out.
 # Thus, do not replace the hashes manually!
 SET( CLI11_COMMIT_HASH "5cb3efabce007c3a0230e4cc2e27da491c646b6c" ) #CLI11_COMMIT_HASH#
-SET( genesis_COMMIT_HASH "d4965aa62357dcb8904ed46623543465c8ea96fa" ) #genesis_COMMIT_HASH#
+SET( genesis_COMMIT_HASH "2963f5c9f17fa5cb27e894af523c14f711b5c512" ) #genesis_COMMIT_HASH#
 
 # Call the github download function, which takes four arguments:
 #  - LIBPATH    : Path to the libracy dir where dependencies are stored.

diff --git a/libs/genesis b/libs/genesis
+3 −3		lib/genesis/genesis.hpp
+3 −3		lib/genesis/placement.hpp
+3 −3		lib/genesis/population.hpp
+7 −10		lib/genesis/population/format/vcf_common.cpp
+26 −0		lib/genesis/population/format/vcf_record.cpp
+7 −0		lib/genesis/population/format/vcf_record.hpp
+16 −14		lib/genesis/population/function/diversity_pool_functions.cpp
+2 −2		lib/genesis/population/function/genome_locus_set.cpp
+6 −1		lib/genesis/population/stream/variant_input_stream_sources.cpp
+6 −7		lib/genesis/sequence.hpp
+0 −255		lib/genesis/sequence/formats/fasta_input_iterator.hpp
+16 −16		lib/genesis/sequence/formats/fasta_output_stream.hpp
+0 −255		lib/genesis/sequence/formats/fastq_input_iterator.hpp
+16 −16		lib/genesis/sequence/formats/fastq_output_stream.hpp
+353 −0		lib/genesis/sequence/formats/fastx_input_stream.hpp
+3 −3		lib/genesis/taxonomy.hpp
+3 −3		lib/genesis/tree.hpp
+3 −3		lib/genesis/utils.hpp
+20 −4		lib/genesis/utils/io/input_source.hpp
+43 −8		lib/genesis/utils/io/output_target.hpp
+3 −1		test/data/population/example_ad.vcf
+66 −15		test/src/population/variant.cpp
+5 −1		test/src/population/variant_input_stream.cpp
+44 −45		test/src/sequence/fasta.cpp
+19 −14		test/src/sequence/fastq.cpp
+7 −7		tools/deploy/make_genesis_header.sh