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| author | Jason W. Bacon <jwb@FreeBSD.org> | 2023-09-29 18:24:07 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2023-09-29 18:24:07 +0000 |
| commit | f3576d9ad8210076b1f2e81f0bea81f48947f234 (patch) | |
| tree | 118f574f360559ef0d683119c19d235904961d6c | |
| parent | f49e723c4228128bd04abcb440a89026dd294e6b (diff) | |
| download | ports-f3576d9ad8210076b1f2e81f0bea81f48947f234.tar.gz ports-f3576d9ad8210076b1f2e81f0bea81f48947f234.zip | |
biology/wfa2-lib: Update to 2.3.4
A few bug fixes
Changes: https://github.com/smarco/WFA2-lib/releases
Reported by: portscout
| -rw-r--r-- | biology/wfa2-lib/Makefile | 3 | ||||
| -rw-r--r-- | biology/wfa2-lib/distinfo | 6 | ||||
| -rw-r--r-- | biology/wfa2-lib/files/patch-CMakeLists.txt | 2 | ||||
| -rw-r--r-- | biology/wfa2-lib/files/patch-wavefront_wavefront__extend__kernels.c | 11 | ||||
| -rw-r--r-- | biology/wfa2-lib/pkg-plist | 9 |
5 files changed, 24 insertions, 7 deletions
diff --git a/biology/wfa2-lib/Makefile b/biology/wfa2-lib/Makefile index 2300f379ec6f..a8a95a8229d4 100644 --- a/biology/wfa2-lib/Makefile +++ b/biology/wfa2-lib/Makefile @@ -1,7 +1,6 @@ PORTNAME= wfa2-lib DISTVERSIONPREFIX= v -DISTVERSION= 2.3.2 -PORTREVISION= 1 +DISTVERSION= 2.3.4 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org diff --git a/biology/wfa2-lib/distinfo b/biology/wfa2-lib/distinfo index 09a5d3555324..ab50e1352a95 100644 --- a/biology/wfa2-lib/distinfo +++ b/biology/wfa2-lib/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1675088499 -SHA256 (smarco-WFA2-lib-v2.3.2_GH0.tar.gz) = 310e3886506ab57d04205cdf5fed3ef31969ce39e9c6d341fd5c8a0d4aa0830b -SIZE (smarco-WFA2-lib-v2.3.2_GH0.tar.gz) = 4150874 +TIMESTAMP = 1695995337 +SHA256 (smarco-WFA2-lib-v2.3.4_GH0.tar.gz) = 3a02d19b45c7efcdcabdd956421b1e449e771fca0b0f072e02d7aa65ebb29f23 +SIZE (smarco-WFA2-lib-v2.3.4_GH0.tar.gz) = 4224505 diff --git a/biology/wfa2-lib/files/patch-CMakeLists.txt b/biology/wfa2-lib/files/patch-CMakeLists.txt index 8b71ad656f0a..5be0031f15f4 100644 --- a/biology/wfa2-lib/files/patch-CMakeLists.txt +++ b/biology/wfa2-lib/files/patch-CMakeLists.txt @@ -1,4 +1,4 @@ ---- CMakeLists.txt.orig 2023-01-31 15:02:27 UTC +--- CMakeLists.txt.orig 2023-09-29 13:47:52 UTC +++ CMakeLists.txt @@ -55,7 +55,7 @@ if(NOT CMAKE_BUILD_TYPE) endif() diff --git a/biology/wfa2-lib/files/patch-wavefront_wavefront__extend__kernels.c b/biology/wfa2-lib/files/patch-wavefront_wavefront__extend__kernels.c new file mode 100644 index 000000000000..c46271b7a21e --- /dev/null +++ b/biology/wfa2-lib/files/patch-wavefront_wavefront__extend__kernels.c @@ -0,0 +1,11 @@ +--- wavefront/wavefront_extend_kernels.c.orig 2023-09-29 17:25:17 UTC ++++ wavefront/wavefront_extend_kernels.c +@@ -29,7 +29,7 @@ + * DESCRIPTION: WFA module for the "extension" of exact matches + */ + +-#include <endian.h> ++#include <sys/endian.h> + + #include "wavefront_extend_kernels.h" + #include "wavefront_termination.h" diff --git a/biology/wfa2-lib/pkg-plist b/biology/wfa2-lib/pkg-plist index 235ff54015ca..2fa4ac482adc 100644 --- a/biology/wfa2-lib/pkg-plist +++ b/biology/wfa2-lib/pkg-plist @@ -3,6 +3,7 @@ include/wfa2lib/alignment/affine_penalties.h include/wfa2lib/alignment/cigar.h include/wfa2lib/alignment/linear_penalties.h include/wfa2lib/alignment/score_matrix.h +include/wfa2lib/bindings/cpp/WFAligner.hpp include/wfa2lib/system/mm_allocator.h include/wfa2lib/system/mm_stack.h include/wfa2lib/system/profiler_counter.h @@ -12,7 +13,6 @@ include/wfa2lib/utils/commons.h include/wfa2lib/utils/dna_text.h include/wfa2lib/utils/heatmap.h include/wfa2lib/utils/sequence_buffer.h -include/wfa2lib/utils/string_padded.h include/wfa2lib/utils/vector.h include/wfa2lib/wavefront/wavefront.h include/wfa2lib/wavefront/wavefront_align.h @@ -32,15 +32,22 @@ include/wfa2lib/wavefront/wavefront_compute_linear.h include/wfa2lib/wavefront/wavefront_debug.h include/wfa2lib/wavefront/wavefront_display.h include/wfa2lib/wavefront/wavefront_extend.h +include/wfa2lib/wavefront/wavefront_extend_kernels.h +include/wfa2lib/wavefront/wavefront_extend_kernels_avx.h include/wfa2lib/wavefront/wavefront_heuristic.h include/wfa2lib/wavefront/wavefront_offset.h include/wfa2lib/wavefront/wavefront_pcigar.h include/wfa2lib/wavefront/wavefront_penalties.h include/wfa2lib/wavefront/wavefront_plot.h +include/wfa2lib/wavefront/wavefront_sequences.h include/wfa2lib/wavefront/wavefront_slab.h +include/wfa2lib/wavefront/wavefront_termination.h include/wfa2lib/wavefront/wavefront_unialign.h include/wfa2lib/wavefront/wfa.h include/wfa2lib/wavefront/wfa.hpp lib/libwfa2.a lib/libwfa2.so lib/libwfa2.so.0 +lib/libwfa2cpp.a +lib/libwfa2cpp.so +lib/libwfa2cpp.so.0 |