diff --git a/biology/ngs-sdk/Makefile b/biology/ngs-sdk/Makefile index 8ac3c93758ab..2a6e174bbf5f 100644 --- a/biology/ngs-sdk/Makefile +++ b/biology/ngs-sdk/Makefile @@ -1,43 +1,43 @@ PORTNAME= ngs -DISTVERSION= 2.11.1 +DISTVERSION= 2.11.2 CATEGORIES= biology PKGNAMESUFFIX= -sdk MAINTAINER= yuri@FreeBSD.org COMMENT= Tools and libraries for using data in the INSDC Sequence Read Archives LICENSE= PD LICENSE_FILE= ${WRKSRC}/LICENSE BROKEN_aarch64= fails to configure: unsupported architecture 'FreeBSD' BROKEN_riscv64= fails to configure: unsupported architecture 'FreeBSD' NOT_FOR_ARCHS= powerpc64 NOT_FOR_ARCHS_REASON= os-arch.prl needs to be taught about powerpc64 USES= compiler:c++11-lang gmake perl5 USE_PERL5= build USE_LDCONFIG= yes USE_GITHUB= yes GH_ACCOUNT= ncbi HAS_CONFIGURE= yes CONFIGURE_ARGS= --prefix="${STAGEDIR}${PREFIX}" --build-prefix="${WRKSRC}/build" ALL_TARGET= ngs-sdk post-extract: @cd ${WRKSRC}/ngs-sdk/ngs/unix && ${LN} -s x86_64 amd64 do-install: # install target from the project breaks: https://github.com/ncbi/ngs/issues/34 # install headers cd ${WRKSRC}/ngs-sdk && ${COPYTREE_SHARE} ngs ${STAGEDIR}${PREFIX}/include ${RM} -r ${STAGEDIR}${PREFIX}/include/ngs/win # install libraries cd ${WRKSRC}/build/ngs-sdk/FreeBSD/clang/${ARCH}/rel/lib && ${COPYTREE_SHARE} . ${STAGEDIR}${PREFIX}/lib # The above command installs broken-looking static libs with symlinks. # This is intentional, see comments https://github.com/ncbi/ncbi-vdb/issues/36#issuecomment-817990790 This may change in future versions. # strip ${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/libngs-sdk.so.${DISTVERSION} .include diff --git a/biology/ngs-sdk/distinfo b/biology/ngs-sdk/distinfo index 2ce5d901ca91..922f4ad62f65 100644 --- a/biology/ngs-sdk/distinfo +++ b/biology/ngs-sdk/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1629303705 -SHA256 (ncbi-ngs-2.11.1_GH0.tar.gz) = f39c56bbfdb0bdacdd5e86b5d3b65c448df17e419f3f533b1a0168e99f532553 -SIZE (ncbi-ngs-2.11.1_GH0.tar.gz) = 1101141 +TIMESTAMP = 1643246050 +SHA256 (ncbi-ngs-2.11.2_GH0.tar.gz) = 7555ab7c2f04bd81160859f6c85c65376dc7f7b891804fad9e7636a7788e39c2 +SIZE (ncbi-ngs-2.11.2_GH0.tar.gz) = 1101119 diff --git a/biology/ngs-sdk/pkg-plist b/biology/ngs-sdk/pkg-plist index 4b46d04f486c..958bceed7edc 100644 --- a/biology/ngs-sdk/pkg-plist +++ b/biology/ngs-sdk/pkg-plist @@ -1,100 +1,100 @@ include/ngs/Alignment.hpp include/ngs/AlignmentIterator.hpp include/ngs/ErrorMsg.hpp include/ngs/Fragment.hpp include/ngs/FragmentIterator.hpp include/ngs/Package.hpp include/ngs/Pileup.hpp include/ngs/PileupEvent.hpp include/ngs/PileupEventIterator.hpp include/ngs/PileupIterator.hpp include/ngs/Read.hpp include/ngs/ReadCollection.hpp include/ngs/ReadGroup.hpp include/ngs/ReadGroupIterator.hpp include/ngs/ReadIterator.hpp include/ngs/Reference.hpp include/ngs/ReferenceIterator.hpp include/ngs/ReferenceSequence.hpp include/ngs/Statistics.hpp include/ngs/StringRef.hpp include/ngs/adapter/AlignmentItf.hpp include/ngs/adapter/ErrorMsg.hpp include/ngs/adapter/FragmentItf.hpp include/ngs/adapter/PileupEventItf.hpp include/ngs/adapter/PileupItf.hpp include/ngs/adapter/ReadCollectionItf.hpp include/ngs/adapter/ReadGroupItf.hpp include/ngs/adapter/ReadItf.hpp include/ngs/adapter/Refcount.hpp include/ngs/adapter/ReferenceItf.hpp include/ngs/adapter/ReferenceSequenceItf.hpp include/ngs/adapter/StatisticsItf.hpp include/ngs/adapter/StringItf.hpp include/ngs/adapter/defs.h include/ngs/inl/Alignment.hpp include/ngs/inl/AlignmentIterator.hpp include/ngs/inl/Fragment.hpp include/ngs/inl/FragmentIterator.hpp include/ngs/inl/Package.hpp include/ngs/inl/Pileup.hpp include/ngs/inl/PileupEvent.hpp include/ngs/inl/PileupEventIterator.hpp include/ngs/inl/PileupIterator.hpp include/ngs/inl/Read.hpp include/ngs/inl/ReadCollection.hpp include/ngs/inl/ReadGroup.hpp include/ngs/inl/ReadGroupIterator.hpp include/ngs/inl/ReadIterator.hpp include/ngs/inl/Reference.hpp include/ngs/inl/ReferenceIterator.hpp include/ngs/inl/ReferenceSequence.hpp include/ngs/inl/Statistics.hpp include/ngs/inl/StringRef.hpp include/ngs/itf/AlignmentItf.h include/ngs/itf/AlignmentItf.hpp include/ngs/itf/ErrBlock.h include/ngs/itf/ErrBlock.hpp include/ngs/itf/ErrorMsg.hpp include/ngs/itf/FragmentItf.h include/ngs/itf/FragmentItf.hpp include/ngs/itf/PackageItf.hpp include/ngs/itf/PileupEventItf.h include/ngs/itf/PileupEventItf.hpp include/ngs/itf/PileupItf.h include/ngs/itf/PileupItf.hpp include/ngs/itf/ReadCollectionItf.h include/ngs/itf/ReadCollectionItf.hpp include/ngs/itf/ReadGroupItf.h include/ngs/itf/ReadGroupItf.hpp include/ngs/itf/ReadItf.h include/ngs/itf/ReadItf.hpp include/ngs/itf/Refcount.h include/ngs/itf/Refcount.hpp include/ngs/itf/ReferenceItf.h include/ngs/itf/ReferenceItf.hpp include/ngs/itf/ReferenceSequenceItf.h include/ngs/itf/ReferenceSequenceItf.hpp include/ngs/itf/StatisticsItf.h include/ngs/itf/StatisticsItf.hpp include/ngs/itf/StringItf.h include/ngs/itf/StringItf.hpp include/ngs/itf/VTable.h include/ngs/itf/VTable.hpp include/ngs/itf/defs.h include/ngs/unix/amd64 include/ngs/unix/arm64/atomic32.h include/ngs/unix/fat86/atomic32.h include/ngs/unix/i386/atomic32.h include/ngs/unix/x86_64/atomic32.h lib/libngs-adapt-c++-static.a lib/libngs-adapt-c++.a lib/libngs-adapt-c++.a.2 -lib/libngs-adapt-c++.a.2.11.1 +lib/libngs-adapt-c++.a.2.11.2 lib/libngs-c++-static.a lib/libngs-c++.a lib/libngs-c++.a.2 -lib/libngs-c++.a.2.11.1 +lib/libngs-c++.a.2.11.2 lib/libngs-sdk.so lib/libngs-sdk.so.2 -lib/libngs-sdk.so.2.11.1 +lib/libngs-sdk.so.2.11.2