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howto:compiling_python_2_7_3 [2012/09/17 15:16]
adymond [Scipy, minimal install] 		howto:compiling_python_2_7_3 [2021/12/09 16:42] (current)
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        Processing LAPACK Testing output found in the TESTING  direcory        Processing LAPACK Testing output found in the TESTING  direcory
   SUMMARY        nb test run numerical error other error     SUMMARY        nb test run numerical error other error  
-  REAL   1077227 0 (0.000%) 0   (0.000%) +  REAL         1077227 0 (0.000%) 0   (0.000%)
   DOUBLE PRECISION 1078039 0 (0.000%) 0   (0.000%)    DOUBLE PRECISION 1078039 0 (0.000%) 0   (0.000%)
-  COMPLEX 522814 0 (0.000%) 0   (0.000%) +  COMPLEX                 522814 0 (0.000%) 0   (0.000%)
   COMPLEX16 552410 0 (0.000%) 0   (0.000%)    COMPLEX16 552410 0 (0.000%) 0   (0.000%)
   --> ALL PRECISIONS 3230490 0 (0.000%) 0   (0.000%)   --> ALL PRECISIONS 3230490 0 (0.000%) 0   (0.000%)
Line 281: Line 281:
 if all went well if all went well
   $ cp -iv lib* $HOME/local/lib64   $ cp -iv lib* $HOME/local/lib64
 +  
 +To convert the built static libraries to dynamic libraries, the following bash
 +loop is used
 +  $ for LIB in *.a ; do
 +      DIR=${LIB}_contents
 +      SOLIB=${LIB%.*}.so
 +      echo $SOLIB
 +      mkdir $DIR
 +      cd $DIR
 +      ar -x ../$LIB
 +      cd -
 +      gfortran -shared -Wl,-soname=$SOLIB -o $SOLIB ${DIR}/*.o
 +    done;
 +  $ ln -snf librefblas.so libblas.so
 +
 +Copy the shared object or dynamic libraries to your library folder
 +  $ cp -iv lib*.so $HOME/local/lib64
 +[warning dynamic libaries not fully tested]
      
 === Numpy building, testing and installation === === Numpy building, testing and installation ===
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   $ tar -xf numpy-1.6.2.tar.gz   $ tar -xf numpy-1.6.2.tar.gz
   $ cd numpy-1.6.2   $ cd numpy-1.6.2
-  + 
 +== build using shared object libraries == 
 +  $ echo "[DEFAULT]" > site.cfg 
 +  $ echo "library_dirs = $HOME/local/lib64" >> site.cfg 
 +  $ echo "include_dirs = $HOME/local/include"  >> site.cfg 
 +  $ python setup.py build --fcompiler=gnu95 
 +  $ python setup.py install 
 + 
 + 
 +== build using static lapack and blas libraries (for interests sake only) == 
 Set blas and lapack paths Set blas and lapack paths
   $ export ATLAS=None   $ export ATLAS=None
   $ export BLAS=$HOME/local/lib64/librefblas.a   $ export BLAS=$HOME/local/lib64/librefblas.a
   $ export LAPACK=$HOME/local/lib64/liblapack.a   $ export LAPACK=$HOME/local/lib64/liblapack.a
- 
 Build and install Build and install
   $ python setup.py build --fcompiler=gnu95   $ python setup.py build --fcompiler=gnu95
-  $ python setup.py install 
  
-Then test it (note this requires nose) +NB to build without lapack and blas libraries, do the following 
-  $ cd ~+  $ export ATLAS=None 
 +  $ export BLAS=None 
 +  $ export LAPACK=None 
 +then build 
 + 
 +speed difference: using LAPACK and BLAS libraries numpy testing takes between 
 +10 and 12s, without the libraries numpy.test() takes exactly the same amount 
 +of time? 
 + 
 +== testing == 
 +  $ mkdir -p /tmp/$USER/numpy-1.6.2_testing 
 +  $ python setup.py install --prefix=/tmp/$USER/numpy-1.6.2_testing
   $ ipython   $ ipython
-  $ import numpy +    $ import os, sys 
-  $ numpy.test() +    $ sys.path.insert(0,'/tmp/%s/numpy-1.6.2_testing/lib/python2.7/site-packages'  % os.environ['USER']) 
-   +    $ import numpy 
- +    $ numpy.test() 
 +If all the test were passed, rm the testing directory and install numpy 
 +  $ rm -r /tmp/$USER/numpy-1.6.2_testing 
 +  $ python setup.py install 
 + 
 === Scipy, minimal install === === Scipy, minimal install ===
  
   $ cd ~/scratch   $ cd ~/scratch
   $ wget http://tenet.dl.sourceforge.net/project/scipy/scipy/0.10.1/scipy-0.10.1.tar.gz   $ wget http://tenet.dl.sourceforge.net/project/scipy/scipy/0.10.1/scipy-0.10.1.tar.gz
-  $ tar -xf scipy-0.10.1.tar.gz +  $ tar -xf scipy-0.10.1.tar.gz
   $ cd scipy-0.10.1/   $ cd scipy-0.10.1/
-Set blas and lapack paths +  $ python setup.py build #takes about 10 minutes to build
-  $ export ATLAS=None +
-  $ export BLAS=$HOME/local/lib64/librefblas.a +
-  $ export LAPACK=$HOME/local/lib64/liblapack.a +
-Build it, which takes a while +
-  $ python setup.py build +
-Install it +
-  $ python setup.py install +
  
- +testing, 
-Once the build has been successfully completed, its time to install and test +  $ mkdir -p /tmp/$USER/scipy-0.10.1 
-scipy +  $ python setup.py install --prefix=/tmp/$USER/scipy-0.10.1_testing
-  $ python setup.py install +
-  $ cd ~+
   $ ipython   $ ipython
-  $ import scipy +    $ import os, sys 
-  $ scipy.test() +    $ sys.path.insert(0,'/tmp/%s/scipy-0.10.1_testing/lib/python2.7/site-packages'  % os.environ['USER']) 
 +    $ import scipy 
 +    $ scipy.test()
 which did not work 100 % :( which did not work 100 % :(
   FAILED (KNOWNFAIL=13, SKIP=41, failures=1)   FAILED (KNOWNFAIL=13, SKIP=41, failures=1)
   Out[2]: <nose.result.TextTestResult run=5101 errors=0 failures=1>   Out[2]: <nose.result.TextTestResult run=5101 errors=0 failures=1>
  
 +If testing satisfactory, rm the testing directory and install scipy
 +  $ rm -r /tmp/$USER/scipy-0.10.1_testing
 +  $ python setup.py install
 ==== matplotlib / pylab ==== ==== matplotlib / pylab ====
  
/app/dokuwiki/data/attic/howto/compiling_python_2_7_3.1347887811.txt.gz · Last modified: 2021/12/09 16:42 (external edit)

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