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Thu, 30 Jan 2025 07:36:05 GMT (envelope-from git) Date: Thu, 30 Jan 2025 07:36:05 GMT Message-Id: <202501300736.50U7a5bu086737@gitrepo.freebsd.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org From: Fernando =?utf-8?Q?Apestegu=C3=ADa?= Subject: git: 8e8bb4267860 - main - =?utf-8?Q?biology/infernal: update 1.1.4 =E2=86=92 1.1.5?= List-Id: Commits to the main branch of the FreeBSD ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-main List-Help: List-Post: List-Subscribe: List-Unsubscribe: X-BeenThere: dev-commits-ports-main@freebsd.org Sender: owner-dev-commits-ports-main@FreeBSD.org MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Git-Committer: fernape X-Git-Repository: ports X-Git-Refname: refs/heads/main X-Git-Reftype: branch X-Git-Commit: 8e8bb42678606d55936e7602672c7a5a1deb1498 Auto-Submitted: auto-generated The branch main has been updated by fernape: URL: https://cgit.FreeBSD.org/ports/commit/?id=8e8bb42678606d55936e7602672c7a5a1deb1498 commit 8e8bb42678606d55936e7602672c7a5a1deb1498 Author: Älven AuthorDate: 2025-01-29 10:56:37 +0000 Commit: Fernando Apesteguía CommitDate: 2025-01-30 07:35:31 +0000 biology/infernal: update 1.1.4 → 1.1.5 ChangeLog: https://github.com/EddyRivasLab/infernal/blob/master/release-notes/RELEASE-1.1.5.md PR: 283483 Reported by: alster@vinterdalen.se Approved by: mzaki@e-mail.ne.jp (maintainer, timeout > 2 weeks) --- biology/infernal/Makefile | 22 +++++++++++----------- biology/infernal/distinfo | 6 +++--- biology/infernal/pkg-plist | 3 +++ 3 files changed, 17 insertions(+), 14 deletions(-) diff --git a/biology/infernal/Makefile b/biology/infernal/Makefile index 74ed79a152b0..4e3e096bf7f6 100644 --- a/biology/infernal/Makefile +++ b/biology/infernal/Makefile @@ -1,12 +1,12 @@ PORTNAME= infernal -PORTVERSION= 1.1.4 -PORTREVISION= 1 +DISTVERSION= 1.1.5 CATEGORIES= biology MASTER_SITES= http://eddylab.org/infernal/ MAINTAINER= mzaki@e-mail.ne.jp COMMENT= Search sequence databases for structural RNA homologs -WWW= http://eddylab.org/infernal/ +WWW= http://eddylab.org/infernal/ \ + https://github.com/EddyRivasLab/infernal/ LICENSE= BSD3CLAUSE LICENSE_FILE= ${WRKSRC}/LICENSE @@ -16,28 +16,28 @@ ONLY_FOR_ARCHS_REASON= requires SSE2 or AltiVec instructions USES= compiler:c11 gmake perl5 python:test shebangfix USE_PERL5= test + SHEBANG_FILES= easel/devkit/* SHEBANG_GLOB= *.pl *.py GNU_CONFIGURE= yes -GNU_CONFIGURE_MANPREFIX=${PREFIX}/share -MAKE_ARGS= V=1 +MAKE_ARGS= V=1 TEST_TARGET= check OPTIONS_DEFINE= DOCS EXAMPLES TEST +TEST_BUILD_DEPENDS= ${PYTHON_VERSION}:lang/python${PYTHON_SUFFIX} +TEST_VARS= use_perl5=build + DOCFILES= Userguide.pdf EXAMPLES= 5S_rRNA.c.cm 5S_rRNA.sto \ - Cobalamin.c.cm Cobalamin.fa Cobalamin.sto \ + Cobalamin.c.cm Cobalamin.fa Cobalamin.sto Rfam.14.9.clanin \ metag-example.fa minifam-metag.out minifam.cm \ minifam.cm.i1f minifam.cm.i1i minifam.cm.i1m minifam.cm.i1p \ mrum-genome.fa mrum-tRNAs10.fa mrum-tRNAs10.out \ - tRNA5-hand.c.cm tRNA5-hand.sto tRNA5-mrum.out \ - tRNA5-noss.sto tRNA5.c.cm tRNA5.sto - -TEST_BUILD_DEPENDS= ${PYTHON_VERSION}:lang/python${PYTHON_SUFFIX} -TEST_VARS= use_perl5=build + tRNA5-hand.c.cm tRNA5-hand.frag.sto tRNA5-hand.fraggiven.sto \ + tRNA5-hand.sto tRNA5-mrum.out tRNA5-noss.sto tRNA5.c.cm tRNA5.sto post-build-TEST-on: pre-test do-test diff --git a/biology/infernal/distinfo b/biology/infernal/distinfo index 80865c942e66..71b26908f86e 100644 --- a/biology/infernal/distinfo +++ b/biology/infernal/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1665487539 -SHA256 (infernal-1.1.4.tar.gz) = f9493c7dee9fbf25f6405706818883d24b9f5e455121a0662c96c8f0307f95fc -SIZE (infernal-1.1.4.tar.gz) = 29499238 +TIMESTAMP = 1734834453 +SHA256 (infernal-1.1.5.tar.gz) = ad4ddae02f924ca7c85bc8c4a79c9f875af8df96aeb726702fa985cbe752497f +SIZE (infernal-1.1.5.tar.gz) = 31300142 diff --git a/biology/infernal/pkg-plist b/biology/infernal/pkg-plist index 9282b4f46c55..9df5582a1c80 100644 --- a/biology/infernal/pkg-plist +++ b/biology/infernal/pkg-plist @@ -25,6 +25,7 @@ share/man/man1/infernal.1.gz %%PORTEXAMPLES%%%%EXAMPLESDIR%%/Cobalamin.c.cm %%PORTEXAMPLES%%%%EXAMPLESDIR%%/Cobalamin.fa %%PORTEXAMPLES%%%%EXAMPLESDIR%%/Cobalamin.sto +%%PORTEXAMPLES%%%%EXAMPLESDIR%%/Rfam.14.9.clanin %%PORTEXAMPLES%%%%EXAMPLESDIR%%/metag-example.fa %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam-metag.out %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam.cm @@ -36,6 +37,8 @@ share/man/man1/infernal.1.gz %%PORTEXAMPLES%%%%EXAMPLESDIR%%/mrum-tRNAs10.fa %%PORTEXAMPLES%%%%EXAMPLESDIR%%/mrum-tRNAs10.out %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.c.cm +%%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.frag.sto +%%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.fraggiven.sto %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.sto %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-mrum.out %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-noss.sto