Date: Sat, 20 Oct 2018 12:21:15 +0000 (UTC) From: Joseph Mingrone <jrm@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r482495 - head/biology/hyphy Message-ID: <201810201221.w9KCLF1W040329@repo.freebsd.org>
next in thread | raw e-mail | index | archive | help
Author: jrm Date: Sat Oct 20 12:21:15 2018 New Revision: 482495 URL: https://svnweb.freebsd.org/changeset/ports/482495 Log: biology/hyphy: Update to version 2.3.14.16 This pulls in fixes after the 2.3.14 release. Upstream changes for version 2.3.14: https://github.com/veg/hyphy/releases/tag/2.3.14 Subsequent fixes: https://github.com/veg/hyphy/commit/1ecac31 https://github.com/veg/hyphy/commit/bec6833 https://github.com/veg/hyphy/commit/9847438 https://github.com/veg/hyphy/commit/02dcedd https://github.com/veg/hyphy/commit/8f44d3c https://github.com/veg/hyphy/commit/5297c30 https://github.com/veg/hyphy/commit/3d88d3e Modified: head/biology/hyphy/Makefile (contents, props changed) head/biology/hyphy/distinfo (contents, props changed) head/biology/hyphy/pkg-plist (contents, props changed) Modified: head/biology/hyphy/Makefile ============================================================================== --- head/biology/hyphy/Makefile Sat Oct 20 12:14:02 2018 (r482494) +++ head/biology/hyphy/Makefile Sat Oct 20 12:21:15 2018 (r482495) @@ -1,7 +1,8 @@ # $FreeBSD$ PORTNAME= hyphy -DISTVERSION= 2.3.13 +DISTVERSION= 2.3.14-16 +DISTVERSIONSUFFIX= -g3d88d3e6 CATEGORIES= biology MAINTAINER= jrm@FreeBSD.org @@ -17,5 +18,7 @@ LIB_DEPENDS= libcurl.so:ftp/curl USES= compiler:c++14-lang cmake:outsource localbase:ldflags ssl USE_GITHUB= yes GH_ACCOUNT= veg + +CMAKE_ON= NOAVX .include <bsd.port.mk> Modified: head/biology/hyphy/distinfo ============================================================================== --- head/biology/hyphy/distinfo Sat Oct 20 12:14:02 2018 (r482494) +++ head/biology/hyphy/distinfo Sat Oct 20 12:21:15 2018 (r482495) @@ -1,3 +1,3 @@ -TIMESTAMP = 1527024059 -SHA256 (veg-hyphy-2.3.13_GH0.tar.gz) = 29b72574302c98d38a92d5316b9283caa80a54c3e74c5e278c5bc9ae3d3df499 -SIZE (veg-hyphy-2.3.13_GH0.tar.gz) = 7910770 +TIMESTAMP = 1540036335 +SHA256 (veg-hyphy-2.3.14-16-g3d88d3e6_GH0.tar.gz) = 459cd0a261ae5f31dc230847acbd294a4dc1e17fa69ef0c3db173c2b8808c826 +SIZE (veg-hyphy-2.3.14-16-g3d88d3e6_GH0.tar.gz) = 8041349 Modified: head/biology/hyphy/pkg-plist ============================================================================== --- head/biology/hyphy/pkg-plist Sat Oct 20 12:14:02 2018 (r482494) +++ head/biology/hyphy/pkg-plist Sat Oct 20 12:21:15 2018 (r482495) @@ -237,7 +237,7 @@ lib/hyphy/TemplateBatchFiles/PositiveSelectionLI.bf lib/hyphy/TemplateBatchFiles/ProteinAnalyses/README_relative_prot_rates.md lib/hyphy/TemplateBatchFiles/ProteinAnalyses/relative_prot_rates.bf lib/hyphy/TemplateBatchFiles/QuickSelectionDetection-MEME-internal.bf -lib/hyphy/TemplateBatchFiles/QuickSelectionDetection.bf +lib/hyphy/TemplateBatchFiles/Deprecated/QuickSelectionDetection.bf lib/hyphy/TemplateBatchFiles/QuickSelectionDetectionMF.bf lib/hyphy/TemplateBatchFiles/RateClassCounter.bf lib/hyphy/TemplateBatchFiles/ReduceDataSetMatrix.bf @@ -267,6 +267,8 @@ lib/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX-S lib/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX.bf lib/hyphy/TemplateBatchFiles/SelectionAnalyses/SLAC.bf lib/hyphy/TemplateBatchFiles/SelectionAnalyses/Simulators/BUSTED.bf +lib/hyphy/TemplateBatchFiles/SelectionAnalyses/Simulators/FADE.bf +lib/hyphy/TemplateBatchFiles/SelectionAnalyses/aBSREL-NS.bf lib/hyphy/TemplateBatchFiles/SelectionAnalyses/aBSREL.bf lib/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/grid_compute.ibf lib/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/io_functions.ibf @@ -504,6 +506,7 @@ lib/hyphy/TemplateBatchFiles/libv3/models/rate_variati lib/hyphy/TemplateBatchFiles/libv3/stats.bf lib/hyphy/TemplateBatchFiles/libv3/tasks/alignments.bf lib/hyphy/TemplateBatchFiles/libv3/tasks/ancestral.bf +lib/hyphy/TemplateBatchFiles/libv3/tasks/bayesgraph.ibf lib/hyphy/TemplateBatchFiles/libv3/tasks/estimators.bf lib/hyphy/TemplateBatchFiles/libv3/tasks/genetic_code.bf lib/hyphy/TemplateBatchFiles/libv3/tasks/mpi.bf
Want to link to this message? Use this URL: <https://mail-archive.FreeBSD.org/cgi/mid.cgi?201810201221.w9KCLF1W040329>