numpy+scipy+scikit-learn SR

software/dream/software.cfg

@@ -78,7 +78,7 @@ output = ${buildout:directory}/environment.sh
 input = inline:
   unset PYTHONPATH
   export PATH="${r-language:location}/bin:${gcc-fortran:location}/bin:$PATH"
-  export LD_LIBRARY_PATH="`${r-language:location}/bin/R RHOME`/lib:$LD_LIBRARY_PATH"
+  export LD_LIBRARY_PATH="`${r-language:location}/bin/R RHOME`/lib"
   export LD_PRELOAD="${gcc-fortran:location}/lib64/libgfortran.so.3 ${libblas:location}/libf77blas.so.3"
   export ATLAS=${libatlas:location}/lib/libsatlas.so
   export BLAS=${libblas:location}/lib/libfblas.a

software/numpy/software.cfg

+[buildout]
+
+extends = 
+  ../../stack/slapos.cfg
+  ../../component/git/buildout.cfg
+  ../../component/gcc/buildout.cfg
+  ../../component/libatlas/buildout.cfg
+  ../../component/libblas/buildout.cfg
+  ../../component/r-language/buildout.cfg
+
+
+parts =
+  python2.7-virtualenv
+  eggs
+  gcc-fortran
+  libatlas
+  libblas
+  r-language
+  sh-build-environment
+  build-venv
+  numpy-eggs
+
+#  dream-venv
+#  scipy-eggs
+
+
+
+
+
+
+
+[build-venv]
+recipe = cp.recipe.cmd
+location = ${buildout:parts-directory}/${:_buildout_section_name_}
+install_cmd =
+  mkdir -p ${:location}
+  cd ${:location}
+  unset PYTHONPATH
+  export PATH="${r-language:location}/bin:${gcc-fortran:location}/bin:$PATH"
+  export LD_LIBRARY_PATH="`${r-language:location}/bin/R RHOME`/lib"
+  export LD_PRELOAD="${gcc-fortran:location}/lib64/libgfortran.so.3 ${libblas:location}/libf77blas.so.3"
+  export ATLAS=${libatlas:location}/lib/libsatlas.so
+  export BLAS=${libblas:location}/lib/libfblas.a
+  export LAPACK=${libatlas:location}/lib/liblapack.a
+  ${python2.7-virtualenv:executable} ${:location}
+  . ${:location}/bin/activate
+  #pip install -U setuptools
+  #pip install -U pip
+  pip install numpy
+  pip install Tempita
+  export PYTHONPATH=/opt/slapgrid/72198f37425e64dd3f28648ea523da1d/eggs/numpy-1.8.1-py2.7-linux-x86_64.egg
+  git clone https://github.com/mmariani/scipy.git -b hardcoded-numpy-location
+  cd scipy
+  python setupegg.py bdist_egg
+  cd ..
+  git clone https://github.com/scikit-learn/scikit-learn.git
+  cd scikit-learn
+  python setup.py bdist_egg
+#update_cmd = ${:install_cmd}
+
+
+#[dream-venv]
+#recipe = cp.recipe.cmd
+#location = ${buildout:parts-directory}/${:_buildout_section_name_}
+#install_cmd =
+#  mkdir -p ${:location}
+#  cd ${:location}
+#  unset PYTHONPATH
+#  export PATH="${r-language:location}/bin:${gcc-fortran:location}/bin:$PATH"
+#  export LD_LIBRARY_PATH="`${r-language:location}/bin/R RHOME`/lib"
+#  export LD_PRELOAD="${gcc-fortran:location}/lib64/libgfortran.so.3 ${libblas:location}/libf77blas.so.3"
+#  export ATLAS=${libatlas:location}/lib/libsatlas.so
+#  export BLAS=${libblas:location}/lib/libfblas.a
+#  export LAPACK=${libatlas:location}/lib/liblapack.a
+#  ${python2.7-virtualenv:executable} ${:location}
+#  . ${:location}/bin/activate
+#  #pip install -U setuptools
+#  #pip install -U pip
+#  pip install numpy
+#  pip install simpy==2.3
+#  pip install scipy==0.13.3
+#  pip install scikit-learn
+#  pip install xlrd
+#  pip install xlwt
+#  pip install flask
+#  pip install pyparsing==1.5.7
+#  pip install pydot
+#  # export LDFLAGS="-lncurses"
+#  export PATH=${r-language:location}/bin:$PATH
+#  # pip install rpy2
+#  # clone repo for:
+#  #   bug fix - https://bitbucket.org/lgautier/rpy2/issue/183
+#  # (may switch to released egg later)
+#  pip install mercurial
+#  hg clone -b version_2.4.x_noreadline https://marco.mariani@bitbucket.org/marco.mariani/rpy2
+#  cd rpy2
+#  python setup.py install
+#  cd ..
+#  ${git:location}/bin/git clone http://git.erp5.org/repos/dream.git -b marco
+#  cd dream
+#  python setup.py install
+#update_cmd = ${:install_cmd}
+
+
+
+
+
+
+[eggs]
+recipe = zc.recipe.egg
+eggs =
+  ${lxml-python:egg}
+  slapos.cookbook
+  collective.recipe.template
+
+
+
+
+[numpy-eggs]
+recipe = zc.recipe.egg
+find-links =
+    ${buildout:parts-directory}/build-venv/scipy/dist
+    ${buildout:parts-directory}/build-venv/scikit-learn/dist
+eggs =
+  xlrd
+  xlwt
+  flask
+  pyparsing
+  pydot
+  numpy
+  scipy
+  scikit-learn
+interpreter = python-numpy
+
+
+
+#[scipy-eggs]
+#recipe = zc.recipe.egg:custom
+#eggs =
+#  scipy
+#environment = build-environment
+
+
+#[base-environment]
+#recipe = collective.recipe.environment
+
+
+#[build-environment]
+#PYTHONPATH=
+#PATH="${r-language:location}/bin:${gcc-fortran:location}/bin:${base-environment:PATH}"
+#LD_LIBRARY_PATH="`${r-language:location}/bin/R RHOME`/lib"
+#LD_PRELOAD="${gcc-fortran:location}/lib64/libgfortran.so.3 ${libblas:location}/libf77blas.so.3"
+#ATLAS="${libatlas:location}/lib/libsatlas.so"
+#BLAS="${libblas:location}/lib/libfblas.a"
+#LAPACK="${libatlas:location}/lib/liblapack.a"
+
+
+[sh-build-environment]
+# environment needed for running/debugging the applications, exported to a shell script to be sourced.
+recipe = collective.recipe.template
+output = ${buildout:directory}/environment.sh
+input = inline:
+  unset PYTHONPATH
+  export PATH="${r-language:location}/bin:${gcc-fortran:location}/bin:$PATH"
+  export LD_LIBRARY_PATH="`${r-language:location}/bin/R RHOME`/lib"
+  export LD_PRELOAD="${gcc-fortran:location}/lib64/libgfortran.so.3 ${libblas:location}/libf77blas.so.3"
+  export ATLAS=${libatlas:location}/lib/libsatlas.so
+  export BLAS=${libblas:location}/lib/libfblas.a
+  export LAPACK=${libatlas:location}/lib/liblapack.a
+
+
+
+[versions]
+cp.recipe.cmd = 0.5nxd001
+scipy = 0.13.3001
+scikit-learn = 0.15-git