488fd1255a
errors with libc++ 3.8.0:
In file included from src/QScoreAdapter.cpp:1:
In file included from src/QScoreAdapter.h:4:
In file included from ../../include/U2Core/MAlignment.h:1:
In file included from ../../include/U2Core/../../corelibs/U2Core/src/datatype/MAlignment.h:25:
In file included from ../../include/U2Core/../../corelibs/U2Core/src/datatype/MAlignmentInfo.h:25:
In file included from /usr/local/include/qt5/QtCore/QString:1:
In file included from /usr/local/include/qt5/QtCore/qstring.h:41:
In file included from /usr/local/include/qt5/QtCore/qchar.h:37:
In file included from /usr/local/include/qt5/QtCore/qglobal.h:39:
/usr/include/c++/v1/cstddef:43:15: fatal error: 'stddef.h' file not found
#include_next <stddef.h>
^
This is because the port tries to add /usr/include as a system include
directory, using -isystem, and this screws up the order of include
directories. Fix it by patching up a number of .pri files to avoid
using the -isystem flag.
Approved by: h2+fbsdports@fsfe.org (maintainer)
PR: 209366
MFH: 2016Q2
78 lines
2.2 KiB
Makefile
78 lines
2.2 KiB
Makefile
# Created by: Hannes Hauswedell <h2+fbsdports@fsfe.org>
|
|
# $FreeBSD$
|
|
|
|
PORTNAME= ugene
|
|
DISTVERSION= 1.22.0
|
|
PORTREVISION= 1
|
|
CATEGORIES= biology science
|
|
MASTER_SITES= http://ugene.unipro.ru/downloads/
|
|
DISTFILES= ${DISTNAME}${EXTRACT_SUFX} QueryDesigner_UserManual.pdf \
|
|
UniproUGENE_UserManual.pdf WorkflowDesigner_UserManual.pdf
|
|
DIST_SUBDIR= ${PORTNAME}
|
|
EXTRACT_ONLY= ${DISTNAME}${EXTRACT_SUFX}
|
|
|
|
MAINTAINER= h2+fbsdports@fsfe.org
|
|
COMMENT= Free, open-source, cross-platform bioinformatics toolkit
|
|
|
|
LICENSE= GPLv2
|
|
|
|
RUN_DEPENDS= bash:shells/bash
|
|
|
|
USES= desktop-file-utils execinfo qmake
|
|
USE_GL= glu
|
|
USE_QT5= buildtools_build linguisttools_build scripttools_build \
|
|
gui network printsupport script sql svg webkit widgets xml \
|
|
imageformats_run
|
|
|
|
QMAKE_ARGS= INSTALL_PREFIX="${PREFIX}" UGENE_INSTALL_DATA="${DATADIR}" \
|
|
INSTALL_MANDIR="${MAN1PREFIX}/man" LRELEASE="${LRELEASE}" \
|
|
LUPDATE="${LUPDATE}"
|
|
ALL_TARGET= release
|
|
|
|
DOCSDIR= ${DATADIR}/manuals
|
|
|
|
OPTIONS_DEFINE= DOCS
|
|
DOCS_DESC= Install official UGENE documentation (PDF)
|
|
|
|
.include <bsd.port.pre.mk>
|
|
|
|
# Required for Google Test code
|
|
.if ${OSVERSION} > 1000054
|
|
CXXFLAGS+= -std=c++11
|
|
.endif
|
|
|
|
.if ${ARCH} == amd64
|
|
# XXX: need to manually tell the build we are on x64
|
|
QMAKE_ARGS+= CONFIG+=x64
|
|
PLIST_SUB+= NOX64="@comment "
|
|
.else
|
|
PLIST_SUB+= NOX64=""
|
|
.endif
|
|
|
|
.if ${MACHINE_CPU:Msse2}
|
|
QMAKE_ARGS+= UGENE_SSE2_DETECTED=1
|
|
PLIST_SUB+= SSE2=""
|
|
.else
|
|
PLIST_SUB+= SSE2="@comment "
|
|
.endif
|
|
|
|
post-extract:
|
|
@${MKDIR} ${WRKSRC}/data/manuals
|
|
${CP} -p ${_DISTDIR}/*.pdf ${WRKSRC}/data/manuals
|
|
|
|
post-patch:
|
|
# yes, bash is required, stuff will not execute with sh
|
|
@${REINPLACE_CMD} -e 's|/bin/bash|/usr/bin/env bash|' \
|
|
${WRKSRC}/src/gen_bin_script.cmd \
|
|
${WRKSRC}/installer/_common_data/ugene
|
|
@${REINPLACE_CMD} -e 's|-bit version|& for ${OPSYS}/${ARCH}|' \
|
|
${WRKSRC}/src/ugeneui/src/main_window/AboutDialogController.cpp
|
|
@${REINPLACE_CMD} -e '/unix_not_mac/,+11d' \
|
|
${WRKSRC}/src/corelibs/U2Core/U2Core.pri
|
|
@${REINPLACE_CMD} 's, -lbreakpad,,' \
|
|
${WRKSRC}/src/corelibs/U2Private/U2Private.pri \
|
|
${WRKSRC}/src/plugins_checker/plugins_checker.pri \
|
|
${WRKSRC}/src/ugenecl/ugenecl.pri \
|
|
${WRKSRC}/src/ugeneui/ugeneui.pri
|
|
|
|
.include <bsd.port.post.mk>
|