Bumped up the version number to 1.0.1

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user: Michael Guravage <michael.guravage@cwi.nl>
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Corrected citation text. Resolves issue #4.

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Use the wallnumber (wn) to discern which cell a wallitem belongs to.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed src/ChangeLog
changed src/transporterdialog.cpp
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Compile leaficon_small.xpm directly into canvas.cpp and revert changes that added a separate icon directory.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
added src/leaficon_small.xpm
changed src/ChangeLog
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removed icons/leaficon.png
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Added a small virtual icon to the About message box.

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added icons/leaficon.png
added icons/leaficon_small.png
changed src/ChangeLog
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Rework Transporters dialog and About message. See ChangeLog for more details.

user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed src/ChangeLog
changed src/canvas.cpp
changed src/transporterdialog.cpp
changed src/wallitem.cpp

Forgot to add asterisk before our own pdf format.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
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Preface each image format extension with an asterisk so files with those
extensions to appear in the file dialogue.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed src/ChangeLog
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Install imageformats folder alongside Windows executable.
Solicit supported image formats for file dialogue filter.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed src/ChangeLog
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Render PNGs instead of JPGs. See ChangeLogs for details.

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changed src/ChangeLog
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Added/replaced several macosx installation files. In modelcatalogue.cpp: move from "bin" directory to root application folder.

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user: Michael Guravage <michael.guravage@cwi.nl>
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Translate image fname to native format. Let QImage guess the format
from the filename's suffix. Put uninstaller in root install directory.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
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Removed erroneous qmake -makefile option. MACOSX, look for gpl3.txt in ../doc directory.

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Replaced getIterations() with getTime().

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Synchronise leaf movie frame and cell export data timestep references.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
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Tweaked Windows installation directories. Turned debugging off in
VirtualLeaf profile - all profiles must be consistent.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
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Enquire first before overwriting an exported cell data file.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
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A few last updates before submitting the revised Plant Phys. paper. Corrected the invocation of TransporterDialog and added parameter 'yield_threshold'

user: Roeland Merks <roeland.merks@cwi.nl>
branch 'default'
changed src/ChangeLog
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Merged ChangeLog

Enter commit message. Lines beginning with 'HG:' are removed.
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user: Roeland Merks <roeland.merks@cwi.nl>
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Corrected Compactness algorithm. Added algorithms to calculate circumference of convex hull and of the whole morph/

user: Roeland Merks <roeland.merks@cwi.nl>
branch 'default'

Use iteration number instead of time stamp to tag exported cell data files. Added default LeafML files to tutorials 3-5. See respective ChangeLogs for details.

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user: Michael Guravage <michael.guravage@cwi.nl>
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Export Cell Data at interval specified in the leafML file or explicitly via the file menu.
Added new parameters to VirtualLeafpar.tmpl
Added GPL boilerplate to make_{parameter,pardialog}_source.pl files.
Added new parameters to auxin_growth.xml. See respective ChangeLog files for details.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
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Added a Q3FileDialog in canvas.cpp:Main::exportCellData() inquire
where to write the exportCellData.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
added doc/Makefile
added doc/stylesheet.json
added doc/v1.html
added doc/v1.pdf
added doc/v1.rst
added src/leaficon.png
changed src/ChangeLog
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Look for gpl3.txt in either an ancestor doc directory (Linux) or a
decedent doc directory (Windows, via the binary installer).

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed src/ChangeLog
changed src/canvas.cpp

Grab gpl3.txt from doc directory.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
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Moved gpl3.txt back to the doc directory, and included the doc directory in the binary distribution. Included new MAC installation data.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
added doc/gpl3.txt
added src/VirtualLeaf-install-macosx/01virtualleaf-contents.xml
added src/VirtualLeaf-install-macosx/01virtualleaf.xml
added src/VirtualLeaf-install-macosx/02models-contents.xml
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added src/VirtualLeaf-install-macosx/03leaves-contents.xml
added src/VirtualLeaf-install-macosx/03leaves.xml
added src/VirtualLeaf-install-macosx/index.xml
changed .hgignore
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removed ChangeLog
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Added missing libxml2 and libz bin directories; caused by my overzealous .hgignore file.

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changed src/ChangeLog
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Made changes to conform to the version submitted with the Plant Physiology paper. See the individual ChangeLogs for details.

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added lib/libiconv/bin/iconv.exe
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removed doc/gpl3.txt

Use Correct library path in various project files.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed src/ChangeLog
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In DrawCell class (VirtualLeaf.cpp) - iterate over NChem to construct info_string. Additional cleanup.

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branch 'default'
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changed src/canvas.cpp
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Reverted NULL assignments to obviate compilation warnings.

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changed src/ChangeLog
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Corrected windows library path problem. Added -f Makefile to every make invocation.

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branch 'default'
added src/TutorialCode/ChangeLog
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Cleaned up leaves directory. Disabled console mode, Updated nsi script.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
added data/leaves/ChangeLog
added data/leaves/tutorial3_init.xml
added data/leaves/tutorial4_init.xml
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changed data/leaves/auxin.xml
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changed src/VirtualLeaf.pro
removed data/leaves/bend.xml
removed data/leaves/circ.xml
removed data/leaves/explant.xml
removed data/leaves/init.xml
removed data/leaves/one_acc_point_van3.xml
removed data/leaves/one_acc_point_van3_growth.xml
removed data/leaves/one_acc_point_van3_growth2.xml
removed data/leaves/tissue.xml

Corrected several small problems with qDebug. See ChangeLogs for details.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed doc/installation.pdf
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changed src/wall.cpp

Renamed tutorial examples and added makefile, etc.

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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
added doc/gpl3.txt
added doc/installation.pdf
added doc/installation.rst
added src/TutorialCode/Makefile
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Display the GPL license in a QMessageBox.

Enter commit message. Lines beginning with 'HG:' are removed.
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user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
changed doc/GPL
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Moved the Windows LIBXML2, LIBICONV and LIBZ libraries into the
destribtion, and changed the various project files accordingly.

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added lib/libxml2/include/libxml/SAX.h
added lib/libxml2/include/libxml/SAX2.h
added lib/libxml2/include/libxml/c14n.h
added lib/libxml2/include/libxml/catalog.h
added lib/libxml2/include/libxml/chvalid.h
added lib/libxml2/include/libxml/debugXML.h
added lib/libxml2/include/libxml/dict.h
added lib/libxml2/include/libxml/encoding.h
added lib/libxml2/include/libxml/entities.h
added lib/libxml2/include/libxml/globals.h
added lib/libxml2/include/libxml/hash.h
added lib/libxml2/include/libxml/list.h
added lib/libxml2/include/libxml/nanoftp.h
added lib/libxml2/include/libxml/nanohttp.h
added lib/libxml2/include/libxml/parser.h
added lib/libxml2/include/libxml/parserInternals.h
added lib/libxml2/include/libxml/pattern.h
added lib/libxml2/include/libxml/relaxng.h
added lib/libxml2/include/libxml/schemasInternals.h
added lib/libxml2/include/libxml/schematron.h
added lib/libxml2/include/libxml/threads.h
added lib/libxml2/include/libxml/tree.h
added lib/libxml2/include/libxml/uri.h
added lib/libxml2/include/libxml/valid.h
added lib/libxml2/include/libxml/xinclude.h
added lib/libxml2/include/libxml/xlink.h
added lib/libxml2/include/libxml/xmlIO.h
added lib/libxml2/include/libxml/xmlautomata.h
added lib/libxml2/include/libxml/xmlerror.h
added lib/libxml2/include/libxml/xmlexports.h
added lib/libxml2/include/libxml/xmlmemory.h
added lib/libxml2/include/libxml/xmlmodule.h
added lib/libxml2/include/libxml/xmlreader.h
added lib/libxml2/include/libxml/xmlregexp.h
added lib/libxml2/include/libxml/xmlsave.h
added lib/libxml2/include/libxml/xmlschemas.h
added lib/libxml2/include/libxml/xmlschemastypes.h
added lib/libxml2/include/libxml/xmlstring.h
added lib/libxml2/include/libxml/xmlunicode.h
added lib/libxml2/include/libxml/xmlversion.h
added lib/libxml2/include/libxml/xmlwin32version.h
added lib/libxml2/include/libxml/xmlwriter.h
added lib/libxml2/include/libxml/xpath.h
added lib/libxml2/include/libxml/xpathInternals.h
added lib/libxml2/include/libxml/xpointer.h
added lib/libxml2/lib/libxml2.dll
added lib/libxml2/lib/libxml2.lib
added lib/libz/include/zconf.h
added lib/libz/include/zlib.h
changed src/ChangeLog
changed src/Makefile
changed src/VirtualLeaf.pro
changed src/build_models/ChangeLog
changed src/build_models/Makefile
changed src/build_models/plugin_auxingrowth.pro
changed src/build_models/plugin_meinhardt.pro
changed src/build_models/plugin_test.pro
changed src/libplugin.pro

Removed any reference to perl from the project files.

--
user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'

changed src/ChangeLog
changed src/VirtualLeaf.pro
changed src/libplugin.pro

Removed references to XMLWriteLeafSourceCode and XMLWriteReactionsCode.

--
user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'

changed src/ChangeLog
changed src/VirtualLeaf.pro
changed src/xmlwrite.cpp
changed src/xmlwrite.h
removed src/xmlwritecode.cpp

Removed most compilation warnings; see ChangeLogs for details.

--
user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'

changed .hgignore
changed src/ChangeLog
changed src/VirtualLeaf.cpp
changed src/apoplastitem.cpp
changed src/build_models/ChangeLog
changed src/build_models/auxingrowthplugin.cpp
changed src/build_models/meinhardtplugin.cpp
changed src/build_models/testplugin.cpp
changed src/canvas.cpp
changed src/cell.cpp
changed src/cellbase.h
changed src/forwardeuler.cpp
changed src/mainbase.h
changed src/mesh.cpp
changed src/nodeitem.cpp
changed src/output.cpp
changed src/qcanvasarrow.h
changed src/simitembase.cpp
changed src/xmlwrite.cpp

Wrapped diagnostic messages in QDEBUG blocks. Information messages still go to stderr.

--
user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'

changed src/ChangeLog
changed src/VirtualLeaf.cpp
changed src/build_models/Makefile
changed src/canvas.cpp
changed src/cell.cpp
changed src/cellbase.h
changed src/data_plot.cpp
changed src/forwardeuler.cpp
changed src/mesh.cpp
changed src/mesh.h
changed src/random.cpp
changed src/wall.cpp
changed src/wallbase.cpp
changed src/wallitem.cpp

Removed from VirtualLeaf and libplugin project files their explicit perl invocation to regerenerate parameter files.

--
user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'

changed src/ChangeLog
changed src/Makefile
changed src/VirtualLeaf.pro
changed src/build_models/Makefile
changed src/libplugin.pro

Tweaked project files to delete/regenerate parameter and pardialog files only if perl is installed. Added new top-level Makefiles. See ChangeLogs for more details.

--
user: Michael Guravage <michael.guravage@cwi.nl>
branch 'default'
added src/Makefile
added src/build_models/Makefile
added src/parameter.cpp
added src/parameter.h
added src/pardialog.cpp
added src/pardialog.h
changed .hgignore
changed src/ChangeLog
changed src/VirtualLeaf.pro
changed src/build_models/ChangeLog
changed src/libplugin.pro