DELTA 468214 0 594 SVN*  #shyphyENDREP DELTA SVNvxvv# $FreeBSD$ PORTNAME= hyphy DISTVERSION= 2.3.12 CATEGORIES= biology MAINTAINER= jrm@FreeBSD.org COMMENT= Hypothesis testing using Phylogenies LICENSE= MIT LICENSE_FILE= ${WRKSRC}/LICENSE ONLY_FOR_ARCHS= amd64 i386 LIB_DEPENDS= libcurl.so:ftp/curl USES= compiler:c++14-lang cmake:outsource localbase:ldflags ssl USE_GITHUB= yes GH_ACCOUNT= veg .include ENDREP DELTA SVN,.,,TIMESTAMP = 1525983314 SHA256 (veg-hyphy-2.3.12_GH0.tar.gz) = f78d5e7bcab2ad8405b9da9bdb4c7893ad7cd3290e1eec749855b064c6fc60fd SIZE (veg-hyphy-2.3.12_GH0.tar.gz) = 7901009 ENDREP DELTA SVN!--- src/core/calcnode.cpp.orig 2018-05-10 18:06:35 UTC +++ src/core/calcnode.cpp @@ -5932,7 +5932,7 @@ void _TheTree::TreePSRecurse (nodeis_root() == nil && layout == 1) { + if (!iterator->is_root() && layout == 1) { res << (_String (-iterator->in_object.h) & ' ' & _String (-iterator->in_object.v) & " translate\n"); } } ENDREP DELTA SVN|~||--- src/core/regex.cpp.orig 2018-05-10 18:11:45 UTC +++ src/core/regex.cpp @@ -31,10 +31,6 @@ #pragma alloca #endif -#if !defined REGEX_MALLOC && !defined __MINGW32__ -#include -#endif - #ifndef _GNU_SOURCE #define _GNU_SOURCE #endif ENDREP DELTA SVNdfddHyPhy is an open-source software package for the analysis of genetic sequences using techniques in phylogenetics, molecular evolution, and machine learning. It features a rich scripting language for limitless customization of analyses. Additionally, HyPhy features support for parallel computing environments via message passing interface, MPI and it can be compiled as a shared library and called from other programming environments such as Python and R. WWW: http://www.hyphy.org/ ENDREP DELTA SVN1 11x^][{8_yw'M.16nqG# o`^ŁձTJb%ow_XutLNN뤩o"f9Q/"N:?RX.d54oG<;}EYdQ9I.6< v%[EͰK&@4/Yݮ&H{:X>'0/ɡvS&RǿDWB,e9#5$9ͮi}1roX(W<)rTIDEȳnz ߊ*]&32(s>L׆'jrlHu%<^#ТzYk`jW2~]H[z!Oeop^h= :% q/y<%B'FVm Fp?3 QHN\ H͹ZKq |T' W9_)͌hWF* ;0?e0aנe֥B\ z$uhHxn*-ꅇ`:( ǹ5q:.F:&T_&kZ6m+ HpѹwݻNO$K [Q{hݙ{7‚J BkTgt(~fX("0î\Dr ƛn+8lj p86xp|!bLdjٌF;ſBkgw}w￾RȰB|#!Ѧ:v۱|9 ,nM#r?˱ C#VVW/Ļ`QqN$I(G .q(#qffXcҷvw{E˃-.dRaЄҟLBI@XL\ֲY H ,}Je<*5A2"U4du;u!™ .Kf?;Ti֒ i*Unnp♫5}4t,`/hph+ڌ=Y ЁgJp df{oY1\6|o.r vR9K/7h]rZVk13ۍsF!^(ZHI'XNl&F <flXqeL3 *24mHBYI`bC큁uXDowܲ$\Ii9OWeb [jvIեa*߅qʍHry1!ւsD#4cy<dkVDgw!1t:?mǺ Ϥh1kõ\FVH:ǚm,\8y:JR[>'O0sÖ$~|+ڧ0q {Wߖi1i_#[SQ2zپ¿Ű}7(aKZ*`C W*oe\DZ&!*z1hA3&g0x[א`Mk* z lDG]KnWLKĺ3/?s0~8K YE'Fk!ZAdw-"(QEaV,ZA\!zDx?bytIKHnvgz {#s̘TenaZo#qcbF)M"1)^ T#rɼ<&6K /^?R=j *zvcV=fYv@?F=S2Įgйc x%WlzDX<ԯTT!,0\._wҐFчB74=ͬq~tG }Hħ`t*\x40^6[V$2pfku8pdCHnkW~,q$֚pz'(L:J@1c}hiuI] ˚ó" C/Ya.Ϸ2{x } {Uf5 rqG-)jc}%#