commit: 227e281f30db2fd020beda0f962166b4783c5d95 Author: Martin Mokrejs <mmokrejs <AT> gmail <DOT> com> AuthorDate: Tue Nov 30 12:41:07 2021 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Tue Nov 30 12:41:07 2021 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=227e281f
sci-biology/minimap2: install more files, document incompleteness I added notes on supported CPU instructions and additional python bindings. Note the static library is linked into the minimap2 binary by default but I think it may be handy to install the library and header file too. Package-Manager: Portage-3.0.28, Repoman-3.0.3 Signed-off-by: Martin Mokrejs <mmokrejs <AT> gmail.com> sci-biology/minimap2/minimap2-2.23.ebuild | 36 +++++++++++++++++++++++++++++-- 1 file changed, 34 insertions(+), 2 deletions(-) diff --git a/sci-biology/minimap2/minimap2-2.23.ebuild b/sci-biology/minimap2/minimap2-2.23.ebuild index 9f335e99c..ed458b91d 100644 --- a/sci-biology/minimap2/minimap2-2.23.ebuild +++ b/sci-biology/minimap2/minimap2-2.23.ebuild @@ -5,7 +5,7 @@ EAPI=7 inherit toolchain-funcs -DESCRIPTION="splice-aware sequence aligner" +DESCRIPTION="splice-aware sequence aligner with SSE2 and SSE4.1" HOMEPAGE="https://github.com/lh3/minimap2"; SRC_URI="https://github.com/lh3/${PN}/releases/download/v${PV}/${P}.tar.bz2"; @@ -13,7 +13,9 @@ LICENSE="MIT" SLOT="0" KEYWORDS="~amd64 ~x86" -DEPEND="" +IUSE="+static" + +DEPEND="sys-libs/zlib" RDEPEND="${DEPEND}" BDEPEND="" @@ -22,6 +24,36 @@ src_prepare(){ eapply_user } +# Minimap2 requires SSE2 instructions on x86 CPUs or NEON on ARM CPUs. It is +# possible to add non-SIMD support, but it would make minimap2 slower by +# several times. +# +# If you see compilation errors, try `make sse2only=1` +# to disable SSE4 code, which will make minimap2 slightly slower. +# +# Minimap2 also works with ARM CPUs supporting the NEON instruction sets. To +# compile for 32 bit ARM architectures (such as ARMv7), use `make arm_neon=1`. To +# compile for for 64 bit ARM architectures (such as ARMv8), use `make arm_neon=1 +# aarch64=1`. +# +# Minimap2 can use [SIMD Everywhere (SIMDe)][simde] library for porting +# implementation to the different SIMD instruction sets. To compile using SIMDe, +# use `make -f Makefile.simde`. To compile for ARM CPUs, use `Makefile.simde` +# with the ARM related command lines given above. + +# This repository also provides Python bindings to a subset of C APIs. File +# [python/README.rst](python/README.rst) gives the full documentation; +# [python/minimap2.py](python/minimap2.py) shows an example. This Python +# extension, mappy, is also [available from PyPI][mappypypi] via `pip install +# mappy` or [from BioConda][mappyconda] via `conda install -c bioconda mappy`. + src_install(){ dobin "${PN}" + insinto /usr/include + doins minimap.h mmpriv.h + dolib.a libminimap2.a + insinto /usr/share/"${PN}"/examples + doins example.c + doman minimap2.1 + dodoc README.md NEWS.md FAQ.md }
