git: affc6502d525 - main - biology/metaeuk: New port: Gene discovery and annotation for large-scale eukaryotic metagenomics

The branch main has been updated by yuri:

URL: https://cgit.FreeBSD.org/ports/commit/?id=affc6502d525205e07e5770118a8dc8577bb7d1d

commit affc6502d525205e07e5770118a8dc8577bb7d1d
Author:     Yuri Victorovich <yuri@FreeBSD.org>
AuthorDate: 2022-11-26 01:46:14 +0000
Commit:     Yuri Victorovich <yuri@FreeBSD.org>
CommitDate: 2022-11-26 11:04:46 +0000

    biology/metaeuk: New port: Gene discovery and annotation for large-scale eukaryotic metagenomics
---
 biology/Makefile          |  1 +
 biology/metaeuk/Makefile  | 31 +++++++++++++++++++++++++++++++
 biology/metaeuk/distinfo  |  7 +++++++
 biology/metaeuk/pkg-descr |  8 ++++++++
 4 files changed, 47 insertions(+)

diff --git a/biology/Makefile b/biology/Makefile
index fc30f158d16a..98b1f2663190 100644
--- a/biology/Makefile
+++ b/biology/Makefile
@@ -93,6 +93,7 @@
     SUBDIR += mafft
     SUBDIR += mapm3
     SUBDIR += megahit
+    SUBDIR += metaeuk
     SUBDIR += migrate
     SUBDIR += minimap2
     SUBDIR += mmseqs2
diff --git a/biology/metaeuk/Makefile b/biology/metaeuk/Makefile
new file mode 100644
index 000000000000..dd7010c29c00
--- /dev/null
+++ b/biology/metaeuk/Makefile
@@ -0,0 +1,31 @@
+PORTNAME=	metaeuk
+DISTVERSION=	6
+DISTVERSIONSUFFIX=	-a5d39d9
+CATEGORIES=	biology
+
+MAINTAINER=	yuri@FreeBSD.org
+COMMENT=	Gene discovery and annotation for large-scale eukaryotic metagenomics
+WWW=		https://github.com/soedinglab/metaeuk
+
+LICENSE=	GPLv3
+LICENSE_FILE=	${WRKSRC}/LICENCE.md
+
+BUILD_DEPENDS=	xxd:editors/vim
+TEST_DEPENDS=	bash:shells/bash
+
+USES=		cmake perl5 shebangfix
+USE_PERL5=	build
+
+USE_GITHUB=	yes
+GH_ACCOUNT=	soedinglab
+GH_TUPLE=	soedinglab:metaeuk-regression:6404519:metaeuk_regression/tests \
+		soedinglab:MMseqs2-Regression:f69b185:MMseqs2_Regression/lib/mmseqs/util/regression
+
+SHEBANG_GLOB=	*.sh
+
+PLIST_FILES=	bin/metaeuk
+
+do-test:
+	@cd ${WRKSRC}/tests && ./run.sh ${STAGEDIR}${PREFIX}/bin/metaeuk
+
+.include <bsd.port.mk>
diff --git a/biology/metaeuk/distinfo b/biology/metaeuk/distinfo
new file mode 100644
index 000000000000..cb642b65977d
--- /dev/null
+++ b/biology/metaeuk/distinfo
@@ -0,0 +1,7 @@
+TIMESTAMP = 1669423980
+SHA256 (soedinglab-metaeuk-6-a5d39d9_GH0.tar.gz) = be19c26f5bdb7dcdd7bc48172105afecf19e5a2e5555edb3ba0c4aa0e4aac126
+SIZE (soedinglab-metaeuk-6-a5d39d9_GH0.tar.gz) = 13145257
+SHA256 (soedinglab-metaeuk-regression-6404519_GH0.tar.gz) = 5ac6c7438dc23374de5304564020e13ee7a6af99e60495083d74a5a272719b4d
+SIZE (soedinglab-metaeuk-regression-6404519_GH0.tar.gz) = 6719192
+SHA256 (soedinglab-MMseqs2-Regression-f69b185_GH0.tar.gz) = 3774e16182cf8ce33d83c8c5170a57ebcec1ba137318d4762a89fd25c2890e78
+SIZE (soedinglab-MMseqs2-Regression-f69b185_GH0.tar.gz) = 27714150
diff --git a/biology/metaeuk/pkg-descr b/biology/metaeuk/pkg-descr
new file mode 100644
index 000000000000..2ab6502d6c02
--- /dev/null
+++ b/biology/metaeuk/pkg-descr
@@ -0,0 +1,8 @@
+MetaEuk is a modular toolkit designed for large-scale gene discovery and
+annotation in eukaryotic metagenomic contigs. MetaEuk combines the fast and
+sensitive homology search capabilities of MMseqs2 with a dynamic programming
+procedure to recover optimal exons sets. It reduces redundancies in multiple
+discoveries of the same gene and resolves conflicting gene predictions on the
+same strand. MetaEuk is GPLv3-licensed open source software that is implemented
+in C++ and available for Linux and macOS. The software is designed to run
+efficiently on multiple cores.