commit: e921b5b7276f852c76550e534a9b5ee240becf7b Author: David Seifert <soap <AT> gentoo <DOT> org> AuthorDate: Sat Nov 29 13:40:18 2025 +0000 Commit: David Seifert <soap <AT> gentoo <DOT> org> CommitDate: Sat Nov 29 13:40:18 2025 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e921b5b7
sci-libs/htslib: bring back 1.21 for pysam Signed-off-by: David Seifert <soap <AT> gentoo.org> sci-libs/htslib/Manifest | 1 + sci-libs/htslib/htslib-1.21.ebuild | 52 ++++++++++++++++++++++++++++++++++++++ 2 files changed, 53 insertions(+) diff --git a/sci-libs/htslib/Manifest b/sci-libs/htslib/Manifest index a5175e30cd11..3c673f405e82 100644 --- a/sci-libs/htslib/Manifest +++ b/sci-libs/htslib/Manifest @@ -1,3 +1,4 @@ DIST htslib-1.20.tar.bz2 4779028 BLAKE2B def7a135f37a4c7a167ada554b92b0e0107ab3dcbdab69abdea387035159f40fb183477275c137b0d786fdfc7264303898f98c54acb1714f9b7cb21e22612143 SHA512 a156f5c895fdae77f976f463a2d4d1111dc056893ef45b7e9cf62e9115898bc8cb47465bb1779e534c26943df478892385d44646e97bd0fa67fceb83ef7a649b +DIST htslib-1.21.tar.bz2 4781943 BLAKE2B 7bbf62021a48503922a459ee18280d1e4af03247f31ef7de204f26a9f5526e8f49253301d6546149985bec93ca262ab8668e73f6b4b6f3c84e70665a66cb59bb SHA512 4989d9fd3702893d2b275e6de593a2109a0ebd10c0329ddca82cd3d53893a93197b9ca9f3756c480c88dc345e14527b1a540810089a480d839814e018a736bee DIST htslib-1.22.1.tar.bz2 4840271 BLAKE2B 6d4f5726f23a0d0c4c8b34055ec22610e3ffb647449cb0066487866a6c5f50282ee4cf9c3681e57fab58f712dd13f16094a3b10f35c32c9919a200fe036c1f3e SHA512 f4d67ad6b32df270f25c9dcdab334c9a0fde4cc266bb2c45191728ee10a648c70589666943c9d7a7cc647406b540c84de9f3eb3c11c8f16d416f25f3387cd147 DIST htslib-1.22.tar.bz2 4830206 BLAKE2B d37cad1d2c1d764fb98af7aae6f3b40c6e0458b1a89d3430dc28e9084497f949d7eca632fda45ef12655488fbeffefdce6975b3dced935703981acc4f0a902e7 SHA512 6721a398c285cdb14d879c00f13da425c1d84f75e8a3a5fb04db4f3f875b60122317651d54634c62f302b397026c98c2b4e190c1ae3ebcc2f0ecde8307223375 diff --git a/sci-libs/htslib/htslib-1.21.ebuild b/sci-libs/htslib/htslib-1.21.ebuild new file mode 100644 index 000000000000..9e0c78a7c17d --- /dev/null +++ b/sci-libs/htslib/htslib-1.21.ebuild @@ -0,0 +1,52 @@ +# Copyright 1999-2025 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +inherit toolchain-funcs + +DESCRIPTION="C library for high-throughput sequencing data formats" +HOMEPAGE="http://www.htslib.org/"; +SRC_URI="https://github.com/samtools/${PN}/releases/download/${PV}/${P}.tar.bz2"; + +LICENSE="MIT" +SLOT="0/3" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" +IUSE="+bzip2 curl +lzma" + +RDEPEND=" + virtual/zlib:= + bzip2? ( app-arch/bzip2 ) + curl? ( net-misc/curl ) + lzma? ( app-arch/xz-utils )" +DEPEND="${RDEPEND}" + +src_prepare() { + default + + # upstream injects LDFLAGS into the .pc file, + # which is a big nono for QA + sed -e '/^\(static_l\|Libs.private\|Requires.private\)/d' \ + -i htslib.pc.in || die +} + +src_configure() { + econf \ + --disable-gcs \ + --disable-plugins \ + --disable-s3 \ + $(use_enable bzip2 bz2) \ + $(use_enable curl libcurl) \ + $(use_enable lzma) +} + +src_compile() { + emake AR="$(tc-getAR)" +} + +src_install() { + default + + # doesn't use libtool, can't disable static libraries + find "${ED}" -name '*.a' -delete || die +}
