/[escript]/trunk/doc/install/srcmac.tex
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revision 2548 by jfenwick, Mon Jul 20 06:20:06 2009 UTC revision 2568 by jfenwick, Fri Jul 31 05:37:41 2009 UTC
# Line 36  These instructions will produce the foll Line 36  These instructions will produce the foll
36  \begin{itemize}  \begin{itemize}
37   \item[] \filename{stand}: \begin{itemize}   \item[] \filename{stand}: \begin{itemize}
38    \item[] \filename{escript.d}    \item[] \filename{escript.d}
39    \item[] \filename{packages}    \item[] \filename{pkg}
40    \item[] \filename{package_src}    \item[] \filename{pkg_src}
41    \item[] \filename{build}    \item[] \filename{build}
42    \item[] \filename{doc}    \item[] \filename{doc}
43   \end{itemize}   \end{itemize}
# Line 51  Open a terminal~\footnote{If you do not Line 51  Open a terminal~\footnote{If you do not
51  \begin{shellCode}  \begin{shellCode}
52  mkdir stand  mkdir stand
53  cd stand  cd stand
54  export PKG_ROOT=`pwd`/packages  export PKG_ROOT=`pwd`/pkg
55  \end{shellCode}  \end{shellCode}
56    
57  Copy compressed source bundles into \filename{stand/package_src}.  Copy compressed source bundles into \filename{stand/package_src}.
# Line 61  Copy documentation files into \filename{ Line 61  Copy documentation files into \filename{
61  mkdir packages  mkdir packages
62  mkdir build  mkdir build
63  cd build  cd build
64  tar -jxf ../package_src/Python-2.6.1.tar.bz2  tar -jxf ../pkg_src/Python-2.6.2.tar.bz2
65  tar -jxf ../package_src/boost_1_38_0.tar.bz2  tar -jxf ../pkg_src/boost_1_39_0.tar.bz2
66  tar -jxf ../package_src/MesaLib-7.2.tar.bz2  tar -zxf ../pkg_src/scons-1.2.0.tar.gz
67  tar -zxf ../package_src/netcdf-4.0.tar.gz  tar -zxf ../pkg_src/numpy-1.3.0.tar.gz
68  tar -zxf ../package_src/vtk-5.2.1.tar.gz  tar -zxf ../pkg_src/netcdf-4.0.tar.gz
69  tar -zxf ../package_src/vtkdata-5.2.1.tar.gz  tar -zxf ../pkg_src/matplotlib-0.98.5.3.tar.gz
 tar -zxf ../package_src/numarray-1.5.2.tar.gz  
 tar -zxf ../package_src/cmake-2.6.3.tar.gz  
 tar -zxf ../package_src/scons-1.2.0.tar.gz  
70  \end{shellCode}  \end{shellCode}
71    
72  \begin{itemize}  \begin{itemize}
# Line 77  tar -zxf ../package_src/scons-1.2.0.tar. Line 74  tar -zxf ../package_src/scons-1.2.0.tar.
74  \item Build python:  \item Build python:
75  \begin{shellCode}  \begin{shellCode}
76  cd Python*  cd Python*
77    ./configure --prefix=$PKG_ROOT/python-2.6.2 --enable-shared 2>&1 \
78  ./configure --prefix=$PKG_ROOT/python-2.6.1 \    | tee tt.configure.out
79    --exec-prefix=$PKG_ROOT/python-2.6.1 --enable-shared \  make
   --enable-framework=$PKG_ROOT/python-2.6.1 2>&1 | tee tt.configure.out  
     
 make -j2  
   
80  make install 2>&1 | tee tt.make.out  make install 2>&1 | tee tt.make.out
81    
 cp ../../packages/python-2.6.1/Python.framework/Versions/2.6/Python \  
      ../../packages/python-2.6.1/lib/libpython2.6.dylib  
   
 cp ../../packages/python-2.6.1/Python.framework/Versions/2.6/Python \  
       ../../packages/python-2.6.1/lib/libpython.dylib  
   
 cp ../../packages/python-2.6.1/include/python2.6/pyconfig.h \  
      ../../packages/python-2.6.1/Python.framework/Headers/  
   
82  cd ..  cd ..
83    
84  export PATH=$PKG_ROOT/python/bin:$PATH  export PATH=$PKG_ROOT/python/bin:$PATH
85  export PYTHONHOME=$PKG_ROOT/python  export PYTHONHOME=$PKG_ROOT/python
86  export LD_LIBRARY_PATH=$PKG_ROOT/python/lib:$LD_LIBRARY_PATH  export LD_LIBRARY_PATH=$PKG_ROOT/python/lib:$LD_LIBRARY_PATH
87    
88  pushd ../packages  pushd ../pkg
89  ln -s python-2.6.1/ python  ln -s python-2.6.2/ python
90  popd  popd
91  \end{shellCode}  \end{shellCode}
92    
93  Run python to make sure it works (check the version number).  Run the new python executable to make sure it works.
   
 \item Now build numarray:  
94    
95    \item Now build NumPy:
96  \begin{shellCode}  \begin{shellCode}
97  cd numarray-1.5.2  cd numpy-1.3.0
98    python setup.py build
99  python setup.py install \  python setup.py install --prefix $PKG_ROOT/numpy-1.3.0
  --gencode --install-lib=$PKG_ROOT/numarray-1.5.2/lib \  
  --install-headers=$PKG_ROOT=$PKG_ROOT/numarray-1.5.2/include/numarray \  
    2>&1 | tee tt.install.out  
   
   
 export PYTHONPATH=$PKG_ROOT/numarray/lib:$PYTHONPATH  
100  cd ..  cd ..
101  pushd ../packages  pushd ../pkg
102  ln -s numarray-1.5.2 numarray  ln -s numpy-1.3.0 numpy
103  popd  popd
104    export PYTHONPATH=$PKG_ROOT/numpy/lib/python2.6/site-packages:$PYTHONPATH
105  \end{shellCode}  \end{shellCode}
106    
107  Now we build scons.  \item Next build scons:
108  \begin{shellCode}  \begin{shellCode}
109  cd scons-1.2.0  cd scons-1.2.0
110  python setup.py install --prefix=$PKG_ROOT/scons-1.2.0  python setup.py install --prefix=$PKG_ROOT/scons-1.2.0
111    
112  export PATH=$PKG_ROOT/scons/bin:$PATH  export PATH=$PKG_ROOT/scons/bin:$PATH
113  cd ..  cd ..
114  pushd ../packages  pushd ../pkg
115  ln -s scons-1.2.0 scons  ln -s scons-1.2.0 scons
116  popd  popd
117  \end{shellCode}  \end{shellCode}
118    
119  \item The Boost libraries...:  \item The Boost libraries...:
120  \begin{shellCode}  \begin{shellCode}
121  cd boost_1_38_0  pushd ../pkg
122    mkdir boost_1_39_0
123  ./configure --prefix=$PKG_ROOT/boost_1_38_0 --with-python-root=$PKG_ROOT/python \  ln -s boost_1_39_0 boost
124    --with-python-version=2.6 --with-libraries=python  popd
125    cd boost_1_39_0
126  make -j2  ./bootstrap.sh --with-libraries=python --prefix=$PKG_ROOT/boost
127  make install  ./bjam
128  ln -s $PKG_ROOT/boost_1_38_0 $PKG_ROOT/boost  ./bjam install --prefix=$PKG_ROOT/boost --libdir=$PKG_ROOT/boost/lib
129  export LD_LIBRARY_PATH=$PKG_ROOT/boost/lib:$LD_LIBRARY_PATH  export LD_LIBRARY_PATH=$PKG_ROOT/boost/lib:$LD_LIBRARY_PATH
130  cd ..  cd ..
131  pushd ../packages  pushd ../pkg/boost/lib/
132  ln -s boost_1_38_0 boost  ln -s libboost_python*-1_39.dylib libboost_python.dylib
133  popd  popd
134  \end{shellCode}  \end{shellCode}
135    
136  \item ...and NetCDF:  \item ...and NetCDF:
137  \begin{shellCode}  \begin{shellCode}
138  cd netcdf-4.0  cd netcdf-4.0
139  CFLAGS="-O2 fPIC -Df2cFortran" CXXFLAGS="-O2 fPIC -Df2cFortran" \  CFLAGS="-O2 -fPIC -Df2cFortran" CXXFLAGS="-O2 -fPIC -Df2cFortran" \
140  FFLAGS="-O2 fPIC -Df2cFortran" FCFLAGS="-O2 fPIC -Df2cFortran" \  FFLAGS="-O2 -fPIC -Df2cFortran" FCFLAGS="-O2 -fPIC -Df2cFortran" \
141  ./configure --prefix=$PKG_ROOT/netcdf-4.0  ./configure --prefix=$PKG_ROOT/netcdf-4.0
142    
143  make -j2  make
144  make install  make install
145    
146  export LD_LIBRARY_PATH=$PKG_ROOT/netcdf/lib:$LD_LIBRARY_PATH  export LD_LIBRARY_PATH=$PKG_ROOT/netcdf/lib:$LD_LIBRARY_PATH
147  cd ..  cd ..
148  pushd ../packages  pushd ../pkg
149  ln -s netcdf-4.0 netcdf  ln -s netcdf-4.0 netcdf
150  popd  popd
151  \end{shellCode}  \end{shellCode}
152    
153  \item CMake is required to build VTK:  \item Finally matplotlib:
154  \begin{shellCode}  \begin{shellCode}
155  cd cmake-2.6.3  cd matplotlib-0.98.5.3
156  ./configure --prefix=$PKG_ROOT/cmake-2.6.3 2>&1 | tee tt.configure  python setup.py build
157  make -j 4  python setup.py install --prefix=$PKG_ROOT/matplotlib-0.98.5.3
 make install  
   
 export PATH=$PKG_ROOT/cmake/bin:$PATH  
158  cd ..  cd ..
159  pushd ../packages  pushd ../pkg
160  ln -s cmake-2.6.3 cmake  ln -s matplotlib-0.98.5.3 matplotlib
161  popd  popd
 \end{shellCode}  
   
 \item VTK also requires Mesa:  
 \begin{shellCode}  
 cd Mesa-7.2  
 ./configure --prefix=$PKG_ROOT/mesa-7.2 --enable-gl-osmesa  
   
 make -j 4  
 make install  
   
 export LD_LIBRARY_PATH=$PKG_ROOT/mesa:$LD_LIBRARY_PATH  
162  cd ..  cd ..
 pushd ../packages  
 ln -s mesa-7.2 mesa  
 popd  
163  \end{shellCode}  \end{shellCode}
164    \end{itemize}
165    
166  These instructions do not compile MesaDemos or GLUT.  \subsection{Compiling escript}\label{sec:compileescriptmac}
 If you need to check if Mesa compiled correctly, then the demos are a good test.  
   
 \item Now build VTK:  
 \begin{shellCode}  
 cd VTK  
 cmake .  
   
 #Edit the CMakeCache and make the following changes:  
 #(Please replace .... with an absolute path to the stand directory)  
   
 #-----------------  
   
 BUILD_EXAMPLES should be OFF  
 BUILD_SHARED_LIBS should be ON  
   
 CMAKE_INSTALL_PREFIX    ..../stand/packages/vtk-5.2.1  
 CMAKE_VERBOSE_MAKEFILE  TRUE  
   
 #check PYTHON_EXECUTABLE is correct.  
 #but it seems to be when I went through these steps  
   
 VTK_OPENGL_HAS_OSMESA   TRUE  
 VTK_USE_64BIT_IDS   ON  
 # That last one is marked as "May cause some bugs" in the original instructions  
   
 VTK_WRAP_PYTHON ON  
 VTK_USE_MANGLED_MESA    OFF  
   
 #--------------------  
   
 cmake .  
 #It won't work but it will put some variables in that you need.  
   
 #Edit CMakeCache again and make the following changes  
   
 #----------------  
   
 VTK_USE_TK  OFF  
   
 OSMESA_INCLUDE_DIR  ..../stand/packages/mesa/include  
   
 OSMESA_LIBRARY  ..../stand/packages/mesa/lib/libOSMesa.dylib  
   
 PYTHON_INCLUDE_PATH ..../stand/packages/python/include/python2.6  
   
 PYTHON_LIBRARY  ..../stand/packages/python/lib/libpython2.6.dylib  
   
 OPENGL_INCLUDE_DIR  ..../stand/packages/mesa/include  
   
 OPENGL_gl_LIBRARY   ..../stand/packages/mesa/lib/libGL.dylib  
   
 #----------------  
167    
168  cmake .  Change to the directory containing your escript source (\filename{stand/escript.d}), then:
 make  
 make install  
169    
170    \begin{shellCode}
171    cd escript.d/scons
172    cp mac_standalone_options_example.py YourMachineName_options.py
173    
174  cd ../../packages  echo $PKG_ROOT
 ln -s vtk-5.2.1 vtk  
 cd ..  
175  \end{shellCode}  \end{shellCode}
176    
177  \item Finally, build escript:\\  Edit the options file and put the value of PKG_ROOT between the quotes in the PKG_ROOT= line.
178  Copy the \esfinley source into an \filename{escript.d} directory in \filename{stand}.  For example:
   
179  \begin{shellCode}  \begin{shellCode}
180  cd scons  PKG_ROOT="/home/bob/stand/pkg"
181  cp mac_options_example.py YourMachineName_options.py  \end{shellCode}
   
 #edit the options file and make the following changes:  
 #-----------------------------------------------------------------  
 declare a PKG_ROOT variable at the top of the file eg:  
 PKG_ROOT='/Users/artak/stand/packages'  
   
 python_path     = PKG_ROOT+'python/include/python2.6'  
 python_lib_path     = PKG_ROOT+'python/lib'  
 python_libs     = 'python2.6'  
   
 boost_path      = PKG_ROOT+'boost/include/boost-1_38'  
 boost_lib_path      = PKG_ROOT+'boost/lib'  
 boost_libs      = ['boost_python-gcc43-mt']  
 # You could simlink the boost python library to give a shorter  
 # name but it's not worth it  
   
 usevtk      = 'yes'  
 #-------------------------------------------------------------------  
   
 ln -s $PKG_ROOT/vtk-5.2.1 $PKG_ROOT/vtk  
182    
183  Modify /scripts/finley_wrapper_template  \begin{shellCode}
184    cd ../bin
185    \end{shellCode}
186    
187    Modify the STANDALONE line of \filename{escript} to read:
188    
189  STANDALONE=1  STANDALONE=1
190    
191  #Check to make sure the paths in the if [ $STANDALONE == 1 ]  Start a new terminal and go to the \filename{stand} directory.
 # Section are correct  
192    
193  #-----------------------------------------------------------------  \begin{shellCode}
194    export PATH=$(pwd)/pkg/scons/bin:$PATH
 scons bin/escript  
   
 #start a new terminal  
 cd stand  
 export PATH=`pwd`/packages/scons/bin:$PATH  
195  cd escript.d  cd escript.d
196  eval `bin/escript -e`  eval $(bin/escript -e)
197  scons  scons
198  \end{shellCode}  \end{shellCode}
199    
 \end{itemize}  
   
200  If you wish to test your build, then you can do the following.  If you wish to test your build, then you can do the following.
201  Note this may take a while if you have a slow processor and/or less than 1GB of RAM.  Note this may take a while if you have a slow processor and/or less than 1GB of RAM.
202  \begin{shellCode}  \begin{shellCode}
# Line 338  Hidden files can be removed with Line 222  Hidden files can be removed with
222  find . -name .?* | xargs rm -rf  find . -name .?* | xargs rm -rf
223  \end{shellCode}  \end{shellCode}
224    
225  \section{Installing from source for \macosx using Macports}  %Mac ports removed until Artak has a chance to update it
 \label{sec:srcmacports}  
   
 As we mentioned in \Sec{sec:srcmac}, before you start installing from source you will need \macosx development tools installed on your Mac.  
 If you do not have Macports already, please install Macports from \url{www.macports.org}. You can also install porticus (GUI for Macports).  
   
 Once you have Macports working install boost using porticus or from the terminal  
 \begin{shellCode}  
 sudo port install boost@1.35.0_2+complete  
 \end{shellCode}  
 Sometimes this fails due to unknown reasons, but to overcome this problem you need to run  
 \begin{shellCode}  
 sudo port clean boost@1.35.0_2+complete  
   
 sudo port install boost@1.35.0_2+complete  
  \end{shellCode}  
     
 Download scons source scons-0.98.5.tar.gz from \url{www.scons.org}.  
 \begin{shellCode}  
 tar xfz scons-0.98.5.tar.gz  
 cd scons-0.98.5  
 python setup.py install  
 \end{shellCode}  
   
 Note: Do not try to install scons using porticus or \texttt{sudo port install scons}, because it automatically installs another python version and you are likely run into problems with different python versions.    
   
 Download numarray-1.5.2.tar.gz from \\  
 \url{http://www.stsci.edu/resources/software_hardware/numarray/numarray.html}.  
 \begin{shellCode}  
 tar xfz numarray-1.5.2.tar.gz  
 cd numarray-1.5.2  
 python setup.py install --gencode  2>&1 | tee tt.install.out  
 \end{shellCode}  
226    
227  You can run a test to check the numarray installation by  % \section{Installing from source for \macosx using Macports}
228  \begin{shellCode}  % \label{sec:srcmacports}
229  python  %
230  import numarray.testall as testall  % As we mentioned in \Sec{sec:srcmac}, before you start installing from source you will need \macosx development tools installed on your Mac.
231  testall.test()  % If you do not have Macports already, please install Macports from \url{www.macports.org}. You can also install porticus (GUI for Macports).
232  \end{shellCode}  %  
233    % Once you have Macports working install boost using porticus or from the terminal
234  Install netcdf, gsl and fltk using Macports  % \begin{shellCode}
235  \begin{shellCode}  % sudo port install boost@1.35.0_2+complete
236  sudo port install netcdf  % \end{shellCode}
237  sudo port install gsl  % Sometimes this fails due to unknown reasons, but to overcome this problem you need to run
238  sudo port intall fltk  % \begin{shellCode}
239  \end{shellCode}  % sudo port clean boost@1.35.0_2+complete
240  Note: If this fails, download and install from sources.  %
241    % sudo port install boost@1.35.0_2+complete
242  Downlaod gmsh-2.2.3-source.tar and install from sources.  %  \end{shellCode}
243  \begin{shellCode}  %  
244  ./configure --with-gsl-prefix=/opt/local/  --with-fltk    --prefix=/usr/local/  % Download scons source scons-0.98.5.tar.gz from \url{www.scons.org}.
245  \end{shellCode}  % \begin{shellCode}
246  Note: if you install using porticus or sudo port  it automaticall installs in \filename{/opt/local/}, but if you install from sources it installs in /usr/local. So, make sure these paths are right.  % tar xfz scons-0.98.5.tar.gz
247  \begin{shellCode}  % cd scons-0.98.5
248  sudo make -j2  % python setup.py install
249  sudo make install  % \end{shellCode}
250  \end{shellCode}  %
251    % Note: Do not try to install scons using porticus or \texttt{sudo port install scons}, because it automatically installs another python version and you are likely run into problems with different python versions.  
252  Download and install Mesa-7.0.3 (required for VTK) from sources  %  
253  \begin{shellCode}  % Download numarray-1.5.2.tar.gz from \\
254  tar xjf MesaDemos-7.0.3.tar.bz2  % \url{http://www.stsci.edu/resources/software_hardware/numarray/numarray.html}.
255  tar xjf MesaGLUT-7.0.3.tar.bz2  % \begin{shellCode}
256  tar xjf MesaLib-7.0.3.tar.bz2  % tar xfz numarray-1.5.2.tar.gz
257  cd Mesa-7.0.3  % cd numarray-1.5.2
258    % python setup.py install --gencode  2>&1 | tee tt.install.out
259  sudo make -j 2  % \end{shellCode}
260  make install  %
261  \end{shellCode}  % You can run a test to check the numarray installation by
262    % \begin{shellCode}
263  Install vtk-5.0.4 from source. If you install from ports it won't configure to use shared libraries.  % python
264  Once you untar it you will have (assume user is john) /Users/john/Downloads/VTK folder, then run the following:  % import numarray.testall as testall
265    % testall.test()
266  \begin{shellCode}  % \end{shellCode}
267  sudo mkdir /usr/local/VTKBuild/  %  
268  cd /usr/local/VTKBuild/  % Install netcdf, gsl and fltk using Macports
269  sudo ccmake /Users/john/Downloads/VTK/  % \begin{shellCode}
270  # It will create CMakeCache.txt. Make sure  you use the following configurations.  % sudo port install netcdf
271    % sudo port install gsl
272  #       Advanced options            ON  % sudo port intall fltk
273  #       BUILD_EXAMPLES              ON  % \end{shellCode}
274  #       BUILD_SHARED_LIBS           ON  % Note: If this fails, download and install from sources.
275  #       VTK_WRAP_PYTHON             ON  %  
276  #       CMAKE_VERBOSE_MAKEFILE          TRUE  % Downlaod gmsh-2.2.3-source.tar and install from sources.
277  #       VTK_OPENGL_HAS_OSMESA           ON  % \begin{shellCode}
278  #       VTK_USE_MANGLED_MESA            OFF  % ./configure --with-gsl-prefix=/opt/local/  --with-fltk    --prefix=/usr/local/
279  #       VTK_USE_OFFSCREEN           OFF  % \end{shellCode}
280    % Note: if you install using porticus or sudo port  it automaticall installs in \filename{/opt/local/}, but if you install from sources it installs in /usr/local. So, make sure these paths are right.
281  sudo make -j2  % \begin{shellCode}
282  sudo make install  % sudo make -j2
283  \end{shellCode}  % sudo make install
284    % \end{shellCode}
285  Note: you need to set the following ENV variables in your \filename{/Users/john/.profile} for VTK to work:  %  
286  \begin{shellCode}  % Download and install Mesa-7.0.3 (required for VTK) from sources
287  export LD_LIBRARY_PATH = /usr/local/VTKBuild/bin: \  % \begin{shellCode}
288               /usr/local/VTKBuild/bin:${LD_LIBRARY_PATH}  % tar xjf MesaDemos-7.0.3.tar.bz2
289  export PYTHONPATH = /usr/local/VTKBuild/Wrapping/Python:\  % tar xjf MesaGLUT-7.0.3.tar.bz2
290              /usr/local/VTKBuild/bin:${PYTHONPATH}  % tar xjf MesaLib-7.0.3.tar.bz2
291        % cd Mesa-7.0.3
292  #     For testing you can run:  %  
293  python  % sudo make -j 2
294  import vtk  % make install
295  \end{shellCode}  % \end{shellCode}
296    %  
297  All that's left to install is triangle and netpbm (required for ppmtompeg) using Macports:  % % Install vtk-5.0.4 from source. If you install from ports it won't configure to use shared libraries.
298  \begin{shellCode}  % % Once you untar it you will have (assume user is john) /Users/john/Downloads/VTK folder, then run the following:
299  sudo port install triangle  % %  
300  sudo port install netpbm  % % \begin{shellCode}
301  \end{shellCode}  % % sudo mkdir /usr/local/VTKBuild/
302    % % cd /usr/local/VTKBuild/
303    % % sudo ccmake /Users/john/Downloads/VTK/
304    % % # It will create CMakeCache.txt. Make sure  you use the following configurations.
305    % %  
306    % % #       Advanced options            ON
307    % % #       BUILD_EXAMPLES              ON
308    % % #       BUILD_SHARED_LIBS           ON
309    % % #       VTK_WRAP_PYTHON             ON
310    % % #       CMAKE_VERBOSE_MAKEFILE          TRUE
311    % % #       VTK_OPENGL_HAS_OSMESA           ON
312    % % #       VTK_USE_MANGLED_MESA            OFF
313    % % #       VTK_USE_OFFSCREEN           OFF
314    % %  
315    % % sudo make -j2
316    % % sudo make install
317    % % \end{shellCode}
318    % %  
319    % % Note: you need to set the following ENV variables in your \filename{/Users/john/.profile} for VTK to work:
320    % % \begin{shellCode}
321    % % export LD_LIBRARY_PATH = /usr/local/VTKBuild/bin: \
322    % %              /usr/local/VTKBuild/bin:${LD_LIBRARY_PATH}
323    % % export PYTHONPATH = /usr/local/VTKBuild/Wrapping/Python:\
324    % %             /usr/local/VTKBuild/bin:${PYTHONPATH}
325    % %      
326    % % #     For testing you can run:
327    % % python
328    % % import vtk
329    % % \end{shellCode}
330    %  
331    % All that's left to install is triangle and netpbm (required for ppmtompeg) using Macports:
332    % \begin{shellCode}
333    % sudo port install triangle
334    % sudo port install netpbm
335    % \end{shellCode}
336    

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