EI/VirtualLeaf Changeset - 096de6bb6fab · Centrum Wiskunde & Informatica (CWI)

Changeset - 096de6bb6fab

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0 9 0

Michael Guravage - 15 years ago 2010-04-29 19:03:53
michael.guravage@cwi.nl

Restructured project files for windows build. Compiling with libxml2 yields multiple definition errors.

9 files changed with 90 insertions and 62 deletions:

.hgignore

src/VirtualLeaf.pro

src/VirtualLeaf_d.pro

src/build_models/plugin_auxingrowth.pro

src/build_models/plugin_leaf.pro

src/build_models/plugin_meinhardt.pro

src/build_models/plugin_test.pro

src/cellbase.h

src/libplugin.pro

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.hgignore

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 # use glob syntax.
 syntax: glob
 *~
 *.a
 *.cache
 *.Debug
 *.o
 *.orig
 *.out
 *.Release
 *.so
 *.vars
 *Makefile
 *make.out
 *moc_*.cpp
 *make.out
 *Makefile
 src/parameter.h
 src/parameter.cpp
 src/default.par
 src/pardialog.h
 src/pardialog.cpp
 bin*
 # switch to regexp syntax.
 syntax: regexp
 # finis

src/VirtualLeaf.pro

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@@ @@ -18,92 +18,95 @@ @@
+#
 #  Copyright 2010 Roeland Merks.
+#
 #REACTIONS = reactions_auxin_growth.h
 #REACTIONS = reactions_meinhardt.h
 #REACTIONS = reactions_pce_growth.h
 DEFINES += QTGRAPHICS
 DEFINES += REACTIONS_HEADER=$${REACTIONS}
 DEFINES += REACTIONS_HEADER_STRING=\"$${REACTIONS}\"
 DEFINES += FLEMING
-CONFIG += qt release
 CONFIG += qt release
 PERLDIR = ./perl
 BINDIR = ../bin
 DESTDIR = $$BINDIR
 TARGET = VirtualLeaf
 PARTMPL = $${TARGET}par.tmpl
 MAINSRC = $${TARGET}.cpp
 QT -= network sql xml
 QT += qt3support
 QWTDIR = /usr/local/qwt
 QMAKE_LIBDIR += $$QWTDIR/lib
 win32:QWTDIR = "C:\Qwt-5.0.2"
 unix:LIBS +=  -lxml2 -lz -lm
 win32:LIBS += -L\"c:\Lib\" -L\"c:\Bin\" -lxml2 -lz -lm -lwsock32
 LIBXML2DIR = C:\libxml2
 !win32 {
  GRAPHICS = qt #qwt
+}
 win32 {
  CONFIG += console
  system(DEL parameter.cpp parameter.h)
  GRAPHICS = qt
  RC_FILE = VirtualLeaf.rc
  QMAKE_CXXFLAGS_RELEASE += -fexceptions -IC:\Include
  QMAKE_CXXFLAGS_DEBUG += -fexceptions -IC:\Include
  QMAKE_CXXFLAGS += -fexceptions -I$${LIBXML2DIR}\include
  QMAKE_CXXFLAGS_DEBUG += -DQDEBUG -ggdb3 -O0
  QMAKE_POST_LINK = "\
   C:\Bin\cp release\VirtualLeaf.exe \
   C:\Qt\4.5.3\bin\Qt3Support4.dll \
   C:\Qt\4.5.3\bin\QtGui4.dll \
   C:\Qt\4.5.3\bin\QtSql4.dll \
   C:\Qt\4.5.3\bin\QtXml4.dll \
   C:\Qt\4.5.3\bin\QtCore4.dll \
   C:\Qt\4.5.3\bin\QtNetwork4.dll \
   C:\Qt\4.5.3\bin\QtSvg4.dll \
   C:\bin\iconv.dll \
   C:\bin\libxml2.dll \
   C:\bin\zlib1.dll \
   C:\MinGW\bin\mingwm10.dll \
   $${DESTDIR}"
  LIBS += -lz -lm -lwsock32 -L$${LIBXML2DIR}\lib -lxml2
+}
 # Application icons
 macx {
  ICON = leaficon.icns
  # make sure that the executable can find the libqwt share library
  QMAKE_POST_LINK = "mkdir $${DESTDIR}/$${TARGET}.app/Contents/Frameworks; \
   cp /usr/local/qwt/lib/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/Frameworks/.; \
   #install_name_tool -change libqwt.5.dylib $$QWTDIR/lib/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/MacOS/$${TARGET}; \
   install_name_tool -id @executable_path/../Frameworks/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/Frameworks/libqwt.dylib; \
   install_name_tool -change libqwt.5.dylib @executable_path/../Frameworks/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/MacOS/$${TARGET};\
   cp leaficon.icns $${DESTDIR}/$${TARGET}.app; "
+}
 macx:release {
  LIBS+= -dead_strip
+}
 unix {
  system(rm -f parameter.cpp parameter.h)
  system(perl $$PERLDIR/make_parameter_source.pl $$PARTMPL)
  system(perl $$PERLDIR/make_pardialog_source.pl $$PARTMPL)
  #system(perl $$PERLDIR/make_xmlwritecode.pl -h $$REACTIONS)
  CC = /usr/bin/gcc
  QMAKE_CXXFLAGS_RELEASE += -fexceptions -I/usr/include/libxml2
  QMAKE_CXXFLAGS_DEBUG += -fexceptions -I/usr/include/libxml2 -DQDEBUG -ggdb3 -O0
  QWTDIR = /ufs/guravage/opt/qwt-5.2.1-svn
  QMAKE_LIBDIR += $$QWTDIR/lib
  QMAKE_CXXFLAGS += -fexceptions -I/usr/include/libxml2
  QMAKE_CXXFLAGS_DEBUG += -DQDEBUG -ggdb3 -O0
  QMAKE_LFLAGS += -fPIC
  LIBS += -lxml2 -lz -lm
+}
 system(perl $$PERLDIR/make_parameter_source.pl $$PARTMPL)
 system(perl $$PERLDIR/make_pardialog_source.pl $$PARTMPL)
 #system(perl $$PERLDIR/make_xmlwritecode.pl -h $$REACTIONS)
 # Input
 HEADERS += \
  apoplastitem.h \
  canvas.h \
  cellbase.h \
  cell.h \
  cellitem.h \
  forwardeuler.h \
  infobar.h \
  mainbase.h \
  mainbase.h \
  matrix.h \
@@ @@ -168,48 +171,45 @@ SOURCES += \ @@
  wall.cpp \
  wallitem.cpp \
  warning.cpp \
  xmlwritecode.cpp \
  xmlwrite.cpp \
  $$MAINSRC
 contains( TARGET, leaf_fleming ) {
  DEFINES += FLEMING
+}
 contains(GRAPHICS, qwt) {
  macx:LIBS += -L$$QWTDIR/lib -lqwt
  win32:LIBS += -L$$QWTDIR/lib -lqwt5
  #macx:LIBS += -L$$QWTDIR/lib -lqwt
  #win32:LIBS += -L$$QWTDIR/lib -lqwt5
  #LIBS += -L$$QWTDIR/lib -lqwt
  INCLUDEPATH += $$QWTDIR/include
  DEFINES += HAVE_QWT
  HEADERS += data_plot.h
  SOURCES += data_plot.cpp
+}
 contains( GRAPHICS, qt ) {
  message( "Building Qt executable" )
  QMAKE_CXXFLAGS_RELEASE += -DQTGRAPHICS # -fpermissive
  QMAKE_CXXFLAGS_DEBUG += -DQTGRAPHICS
  QMAKE_CXXFLAGS += -DQTGRAPHICS # -fpermissive
+}
 contains( GRAPHICS, xfig ) {
  message("Building Xfig executable (background runnable).")
  QMAKE_CXXFLAGS_RELEASE += -DXFIGGRAPHICS
  QMAKE_CXXFLAGS_DEBUG += -DXFIGGRAPHICS
  QMAKE_CXXFLAGS += -DXFIGGRAPHICS
+}
 contains( GRAPHICS, x11 ) {
  !unix {
   error("X11 graphics only available on Unix systems.")
+ }
  message("Building X11 executable")
  SOURCES += x11graph.cpp
  HEADERS += x11graph.h
  QMAKE_CXXFLAGS_RELEASE += -DX11GRAPHICS
  QMAKE_CXXFLAGS_DEBUG += -DX11GRAPHICS
  QMAKE_CXXFLAGS += -DX11GRAPHICS
  CONFIG -= qt
  CONFIG += x11
  unix:LIBS += -lpng
+}
 # finis

src/VirtualLeaf_d.pro

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@@ @@ -27,83 +27,86 @@ DEFINES += REACTIONS_HEADER=$${REACTIONS @@
 DEFINES += REACTIONS_HEADER_STRING=\"$${REACTIONS}\"
 DEFINES += FLEMING
 CONFIG += qt debug
 PERLDIR = ./perl
 BINDIR = ../bin
 DESTDIR = $$BINDIR
 TARGET = VirtualLeaf
 PARTMPL = $${TARGET}par.tmpl
 MAINSRC = $${TARGET}.cpp
 QT -= network sql xml
 QT += qt3support
 QWTDIR = /usr/local/qwt
 QMAKE_LIBDIR += $$QWTDIR/lib
 win32:QWTDIR = "C:\Qwt-5.0.2"
 unix:LIBS +=  -lxml2 -lz -lm
 win32:LIBS += -L\"c:\Lib\" -L\"c:\Bin\" -lxml2 -lz -lm -lwsock32
 LIBXML2DIR = C:\libxml2
 !win32 {
  GRAPHICS = qt #qwt
+}
 win32 {
  CONFIG += console
  system(DEL parameter.cpp parameter.h)
  GRAPHICS = qt
  RC_FILE = VirtualLeaf.rc
  QMAKE_CXXFLAGS_RELEASE += -fexceptions -IC:\Include
  QMAKE_CXXFLAGS_DEBUG += -fexceptions -IC:\Include
  QMAKE_CXXFLAGS += -fexceptions -I$${LIBXML2DIR}\include
  QMAKE_CXXFLAGS_DEBUG += -DQDEBUG -ggdb3 -O0
  QMAKE_POST_LINK = "\
   C:\Bin\cp release\VirtualLeaf.exe \
   C:\Qt\4.5.3\bin\Qt3Support4.dll \
   C:\Qt\4.5.3\bin\QtGui4.dll \
   C:\Qt\4.5.3\bin\QtSql4.dll \
   C:\Qt\4.5.3\bin\QtXml4.dll \
   C:\Qt\4.5.3\bin\QtCore4.dll \
   C:\Qt\4.5.3\bin\QtNetwork4.dll \
   C:\Qt\4.5.3\bin\QtSvg4.dll \
   C:\bin\iconv.dll \
   C:\bin\libxml2.dll \
   C:\bin\zlib1.dll \
   C:\MinGW\bin\mingwm10.dll \
   $${DESTDIR}"
  LIBS += -lz -lm -lwsock32 -L$${LIBXML2DIR}\lib -lxml2
+}
 # Application icons
 macx {
  ICON = leaficon.icns
  # make sure that the executable can find the libqwt share library
  QMAKE_POST_LINK = "mkdir $${DESTDIR}/$${TARGET}.app/Contents/Frameworks; \
   cp /usr/local/qwt/lib/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/Frameworks/.; \
   #install_name_tool -change libqwt.5.dylib $$QWTDIR/lib/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/MacOS/$${TARGET}; \
   install_name_tool -id @executable_path/../Frameworks/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/Frameworks/libqwt.dylib; \
   install_name_tool -change libqwt.5.dylib @executable_path/../Frameworks/libqwt.dylib $${DESTDIR}/$${TARGET}.app/Contents/MacOS/$${TARGET};\
   cp leaficon.icns $${DESTDIR}/$${TARGET}.app; "
+}
 macx:release {
  LIBS+= -dead_strip
+}
 unix {
  system(rm -f parameter.cpp parameter.h)
  system(perl $$PERLDIR/make_parameter_source.pl $$PARTMPL)
  system(perl $$PERLDIR/make_pardialog_source.pl $$PARTMPL)
  #system(perl $$PERLDIR/make_xmlwritecode.pl -h $$REACTIONS)
  CC = /usr/bin/gcc
  QMAKE_CXXFLAGS_RELEASE += -fexceptions -I/usr/include/libxml2
  QMAKE_CXXFLAGS_DEBUG += -fexceptions -I/usr/include/libxml2 -DQDEBUG -ggdb3 -O0
  QWTDIR = /ufs/guravage/opt/qwt-5.2.1-svn
  QMAKE_LIBDIR += $$QWTDIR/lib
  QMAKE_CXXFLAGS += -fexceptions -I/usr/include/libxml2
  QMAKE_CXXFLAGS_DEBUG += -DQDEBUG -ggdb3 -O0
  QMAKE_LFLAGS += -fPIC
  LIBS += -lxml2 -lz -lm
+}
 system(perl $$PERLDIR/make_parameter_source.pl $$PARTMPL)
 system(perl $$PERLDIR/make_pardialog_source.pl $$PARTMPL)
 #system(perl $$PERLDIR/make_xmlwritecode.pl -h $$REACTIONS)
 # Input
 HEADERS += \
  apoplastitem.h \
  canvas.h \
  cellbase.h \
  cell.h \
  cellitem.h \
  forwardeuler.h \
  infobar.h \
  mainbase.h \
  mainbase.h \
  matrix.h \
@@ @@ -168,48 +171,45 @@ SOURCES += \ @@
  wall.cpp \
  wallitem.cpp \
  warning.cpp \
  xmlwritecode.cpp \
  xmlwrite.cpp \
  $$MAINSRC
 contains( TARGET, leaf_fleming ) {
  DEFINES += FLEMING
+}
 contains(GRAPHICS, qwt) {
  macx:LIBS += -L$$QWTDIR/lib -lqwt
  win32:LIBS += -L$$QWTDIR/lib -lqwt5
  #macx:LIBS += -L$$QWTDIR/lib -lqwt
  #win32:LIBS += -L$$QWTDIR/lib -lqwt5
  #LIBS += -L$$QWTDIR/lib -lqwt
  INCLUDEPATH += $$QWTDIR/include
  DEFINES += HAVE_QWT
  HEADERS += data_plot.h
  SOURCES += data_plot.cpp
+}
 contains( GRAPHICS, qt ) {
  message( "Building Qt executable" )
  QMAKE_CXXFLAGS_RELEASE += -DQTGRAPHICS # -fpermissive
  QMAKE_CXXFLAGS_DEBUG += -DQTGRAPHICS
  QMAKE_CXXFLAGS += -DQTGRAPHICS # -fpermissive
+}
 contains( GRAPHICS, xfig ) {
  message("Building Xfig executable (background runnable).")
  QMAKE_CXXFLAGS_RELEASE += -DXFIGGRAPHICS
  QMAKE_CXXFLAGS_DEBUG += -DXFIGGRAPHICS
  QMAKE_CXXFLAGS += -DXFIGGRAPHICS
+}
 contains( GRAPHICS, x11 ) {
  !unix {
   error("X11 graphics only available on Unix systems.")
+ }
  message("Building X11 executable")
  SOURCES += x11graph.cpp
  HEADERS += x11graph.h
  QMAKE_CXXFLAGS_RELEASE += -DX11GRAPHICS
  QMAKE_CXXFLAGS_DEBUG += -DX11GRAPHICS
  QMAKE_CXXFLAGS += -DX11GRAPHICS
  CONFIG -= qt
  CONFIG += x11
  unix:LIBS += -lpng
+}
 # finis

src/build_models/plugin_auxingrowth.pro

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@@ @@ -21,25 +21,26 @@ @@
 BINDIR = ../../bin
 CONFIG += plugin release
 DEFINES = QTGRAPHICS # VLEAFPLUGIN
 DESTDIR = $${BINDIR}/models
 TARGET = auxingrowth
 HEADERS = ../simplugin.h $${TARGET}plugin.h
 QMAKE_CXXFLAGS += -I..
 QT += qt3support
 SOURCES = $${TARGET}plugin.cpp
 TEMPLATE = lib
 unix:LIBS += -L"lib" -lvleaf
 win32:LIBS += -L"lib" -lvleaf
 LIBXML2DIR = C:\libxml2
 unix {
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -I/usr/include/libxml2
  QMAKE_LFLAGS += -fPIC
+}
 win32 {
  QMAKE_CXXFLAGS += -fexceptions -IC:\Include
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -IC:\strawberry\c\include -I$${LIBXML2DIR}\include
+}
 # finis

src/build_models/plugin_leaf.pro

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@@ @@ -21,25 +21,26 @@ @@
 BINDIR = ../../bin
 CONFIG += plugin release
 DEFINES = QTGRAPHICS # VLEAFPLUGIN
 DESTDIR = $${BINDIR}/models
 TARGET = leaf
 HEADERS = ../simplugin.h $${TARGET}plugin.h
 QMAKE_CXXFLAGS += -I..
 QT += qt3support
 SOURCES = $${TARGET}plugin.cpp
 TEMPLATE = lib
 unix:LIBS += -L"lib" -lvleaf
 win32:LIBS += -L"lib" -lvleaf
 LIBXML2DIR = C:\libxml2
 unix {
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -fPIC -I/usr/include/libxml2
  QMAKE_LFLAGS += -fPIC
+}
 win32 {
  QMAKE_CXXFLAGS += -fexceptions -IC:\Include
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -IC:\strawberry\c\include -I$${LIBXML2DIR}\include
+}
 # finis

src/build_models/plugin_meinhardt.pro

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@@ @@ -21,26 +21,27 @@ @@
 BINDIR = ../../bin
 CONFIG += plugin release
 DEFINES = QTGRAPHICS # VLEAFPLUGIN
 DESTDIR = $${BINDIR}/models
 TARGET = meinhardt
 HEADERS = simplugin.h $${TARGET}plugin.h
 QMAKE_CXXFLAGS += -I..
 QT += qt3support
 SOURCES = $${TARGET}plugin.cpp
 TEMPLATE = lib
 unix:LIBS += -L"lib" -lvleaf
 win32:LIBS += -L"lib" -lvleaf
 LIBXML2DIR = C:\libxml2
 unix {
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -I/usr/include/libxml2
  QMAKE_LFLAGS += -fPIC
+}
 win32 {
  QMAKE_CXXFLAGS += -fexceptions -IC:\Include
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -IC:\strawberry\c\include -I$${LIBXML2DIR}\include
+}
 # finis

src/build_models/plugin_test.pro

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@@ @@ -22,24 +22,26 @@ @@
 BINDIR = ../../bin
 CONFIG += plugin release
 DEFINES = QTGRAPHICS # VLEAFPLUGIN
 DESTDIR = $${BINDIR}/models
 TARGET = test
 HEADERS = ../simplugin.h $${TARGET}plugin.h
 QMAKE_CXXFLAGS += -I..
 QT += qt3support
 SOURCES = $${TARGET}plugin.cpp
 TEMPLATE = lib
 unix:LIBS += -L"lib" -lvleaf
 win32:LIBS += -L"lib" -lvleaf
 LIBXML2DIR = C:\libxml2
 unix {
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -I/usr/include/libxml2
  QMAKE_LFLAGS += -fPIC
  QMAKE_CXXFLAGS += -fexceptions -I/usr/include/libxml2
+}
 win32 {
  QMAKE_CXXFLAGS += -fexceptions -IC:\Include
  LIBS += -Llib -lvleaf
  QMAKE_CXXFLAGS += -fexceptions -I$${LIBXML2DIR}\include
+}
 # finis

src/cellbase.h

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@@ @@ -21,28 +21,31 @@ @@
+ *
  */
 // CellBase derives from Vector, where Vector is simply used as a Vertex
 #ifndef _CELLBASE_H_
 #define _CELLBASE_H_
 #include <list>
 #include <vector>
 #include <iostream>
 #include <QString>
 #include <QDebug>
 #include "vector.h"
 #include "parameter.h"
 #include "wall.h"
 #include "warning.h"
 #include "assert.h"
 extern Parameter par;
 using namespace std;
 class Mesh;
 class Node;
 class CellBase;
 class NodeSet;
 struct ParentInfo {
 	Vector polarization;
@@ @@ -119,26 +122,38 @@ class CellBase : public QObject, public @@
     void FixNodes(void);
     void UnsetSource(void) {
       source = false;
+    }
 	inline bool Source(void) { return source; }
     enum boundary_type {None, Noflux, SourceSink, SAM};
     static const char * boundary_type_names[4];
     inline const char *BoundaryStr(void) { return boundary_type_names[boundary]; }
     ostream &print(ostream &os) const;
     inline double Chemical(int c) const { // returns the value of chemical c
       return chem[c];
     #ifdef QDEBUG
       qDebug() << endl << "Entering cellbase::chemical(" << c << ")" << endl;
     #endif
       int nchem = NChem();
       #ifdef _undefined_
       if ((c<0) || (c>=nchem))
 	MyWarning::warning("CellBase::Chemical says: index c is: %d, but nchem is: %d. Merely return zero", c, nchem);
       #endif
       return ((c<0) || (c>=nchem)) ? 0 : chem[c];
+    }
     //void print_nblist(void) const;
     boundary_type SetBoundary(boundary_type bound) {
       if (bound!=None) {
 	//area=0.;
 	//length=0.;
+      }
       return boundary=bound;
+    }

src/libplugin.pro

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@@ @@ -19,26 +19,25 @@ @@
 #  Copyright 2010 Roeland Merks.
+#
 CONFIG += staticlib release
 DEFINES = QTGRAPHICS # VLEAFPLUGIN
 DESTDIR = build_models/lib
 PERLDIR = ./perl
 PARTMPL = VirtualLeafpar.tmpl
 QT += qt3support
 TARGET = vleaf
 TEMPLATE = lib
 unix:LIBS +=  -lxml2 -lz -lm
 win32:LIBS += -L\"c:\Lib\" -L\"c:\Bin\" -lxml2 -lz -lm -lwsock32
 LIBXML2DIR = C:\libxml2
 HEADERS = \
  cellbase.h \
  matrix.h \
  output.h \
  parameter.h \
  parse.h \
  random.h \
  simplugin.h \
  UniqueMessage.h \
  vector.h \
  wallbase.h \
@@ @@ -50,23 +49,26 @@ SOURCES = \ @@
  output.cpp \
  parameter.cpp \
  parse.cpp \
  random.cpp \
  simplugin.cpp \
  UniqueMessage.cpp \
  vector.cpp \
  wallbase.cpp \
  warning.cpp
 unix {
  system(rm -f parameter.cpp parameter.h) # this is performed here when qmake is envoked and not in the resulting makefile.
  system(perl $$PERLDIR/make_parameter_source.pl $$PARTMPL)
  system(perl $$PERLDIR/make_pardialog_source.pl $$PARTMPL)
  QMAKE_CXXFLAGS += -fexceptions -fPIC -I/usr/include/libxml2
  QMAKE_LFLAGS += -fPIC
  LIBS += -lxml2 -lz -lm
+}
 win32 {
   QMAKE_CXXFLAGS += -fexceptions -IC:\Include
  system(DEL parameter.cpp parameter.h)
  QMAKE_CXXFLAGS += -fexceptions -I$${LIBXML2DIR}\include
+}
 system(perl $$PERLDIR/make_parameter_source.pl $$PARTMPL)
 system(perl $$PERLDIR/make_pardialog_source.pl $$PARTMPL)
 #system(perl $$PERLDIR/make_xmlwritecode.pl -h $$REACTIONS)
+#

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