Date: Thu, 5 Jan 2023 23:21:38 GMT From: "Jason W. Bacon" <jwb@FreeBSD.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org Subject: git: 09c70c748898 - main - biology/bio-mocha: Update to 1.16 Message-ID: <202301052321.305NLcBJ004688@gitrepo.freebsd.org>
next in thread | raw e-mail | index | archive | help
The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=09c70c7488989b1a37f4da6a447871c5bea06ee0 commit 09c70c7488989b1a37f4da6a447871c5bea06ee0 Author: Jason W. Bacon <jwb@FreeBSD.org> AuthorDate: 2023-01-05 23:21:03 +0000 Commit: Jason W. Bacon <jwb@FreeBSD.org> CommitDate: 2023-01-05 23:21:03 +0000 biology/bio-mocha: Update to 1.16 New release to sync with bcftools Changes: https://github.com/freeseek/mocha/commits/master --- biology/bio-mocha/Makefile | 10 ++++------ biology/bio-mocha/distinfo | 10 +++++----- biology/bio-mocha/pkg-plist | 2 -- 3 files changed, 9 insertions(+), 13 deletions(-) diff --git a/biology/bio-mocha/Makefile b/biology/bio-mocha/Makefile index fb552c0676e7..33147346e72d 100644 --- a/biology/bio-mocha/Makefile +++ b/biology/bio-mocha/Makefile @@ -1,9 +1,8 @@ PORTNAME= bio-mocha -DISTVERSION= 1.14 -PORTREVISION= 1 +DISTVERSION= 1.16 CATEGORIES= biology MASTER_SITES= https://software.broadinstitute.org/software/mocha/ -DISTFILES+= ${PORTNAME}_${DISTVERSION}-20220112.tar.gz +DISTFILES+= ${PORTNAME}_${DISTVERSION}-20221221.tar.gz MAINTAINER= jwb@FreeBSD.org COMMENT= Bcftools plugin for mosaic chromosomal alteration analysis @@ -21,7 +20,7 @@ USE_PERL5= test GH_ACCOUNT= samtools GH_PROJECT= bcftools -GH_TAGNAME= 1.15 +GH_TAGNAME= 1.16 GNU_CONFIGURE= yes SHEBANG_FILES= misc/* test/test.pl @@ -34,6 +33,7 @@ pre-configure: @${REINPLACE_CMD} -e 's|@PORTVERSION@|${PORTVERSION}|g' \ ${WRKSRC}/configure.ac +# One .so for each .c in the mocha distfile do-install: ${MKDIR} ${STAGEDIR}${PREFIX}/libexec/bcftools ${INSTALL_PROGRAM} ${WRKSRC}/plugins/extendFMT.so \ @@ -42,8 +42,6 @@ do-install: ${STAGEDIR}${PREFIX}/libexec/bcftools ${INSTALL_PROGRAM} ${WRKSRC}/plugins/mochatools.so \ ${STAGEDIR}${PREFIX}/libexec/bcftools - ${INSTALL_PROGRAM} ${WRKSRC}/plugins/score.so \ - ${STAGEDIR}${PREFIX}/libexec/bcftools ${INSTALL_PROGRAM} ${WRKSRC}/plugins/trio-phase.so \ ${STAGEDIR}${PREFIX}/libexec/bcftools (cd ${WRKSRC}/MoCha && ${COPYTREE_SHARE} . ${STAGEDIR}${DATADIR}) diff --git a/biology/bio-mocha/distinfo b/biology/bio-mocha/distinfo index 6f18a06e9fb5..c5a05127a3d6 100644 --- a/biology/bio-mocha/distinfo +++ b/biology/bio-mocha/distinfo @@ -1,5 +1,5 @@ -TIMESTAMP = 1645832006 -SHA256 (bio-mocha_1.14-20220112.tar.gz) = 189a522418f12cbb04e6c5ccae130dbae1682907808f4cb594af4ff386651068 -SIZE (bio-mocha_1.14-20220112.tar.gz) = 75910 -SHA256 (samtools-bcftools-1.14-1.15_GH0.tar.gz) = 6b263270c62b156d2604150ca7e64b06a80282e049759b2668de24cbce1b1946 -SIZE (samtools-bcftools-1.14-1.15_GH0.tar.gz) = 3347901 +TIMESTAMP = 1672095342 +SHA256 (bio-mocha_1.16-20221221.tar.gz) = 576cbdda53760f353fc8fd989751716b1d4f8c5e1921f838c263476282cced86 +SIZE (bio-mocha_1.16-20221221.tar.gz) = 68625 +SHA256 (samtools-bcftools-1.16_GH0.tar.gz) = c44c85a04e058e1f1eceeb712106031100bbd700b8ff3f623f7ff872469a4ba3 +SIZE (samtools-bcftools-1.16_GH0.tar.gz) = 3432435 diff --git a/biology/bio-mocha/pkg-plist b/biology/bio-mocha/pkg-plist index 4604936e8e0f..a56018707fc6 100644 --- a/biology/bio-mocha/pkg-plist +++ b/biology/bio-mocha/pkg-plist @@ -1,9 +1,7 @@ libexec/bcftools/extendFMT.so libexec/bcftools/mocha.so libexec/bcftools/mochatools.so -libexec/bcftools/score.so libexec/bcftools/trio-phase.so -%%DATADIR%%/assoc_plot.R %%DATADIR%%/mocha_plot.R %%DATADIR%%/pileup_plot.R %%DATADIR%%/summary_plot.R
Want to link to this message? Use this URL: <https://mail-archive.FreeBSD.org/cgi/mid.cgi?202301052321.305NLcBJ004688>