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Published 20 hours ago • verified publisher icon bgruening

Installed, missing tool dependencies

Open mictadlo opened this issue 9 years ago • 7 comments

Hi, I tried to install DeepTools :

  • Revision: 5693283f4de2
  • Owner: bgruening

but it failed because of many Installed, missing tool dependencies as shown below:

Imgur

How is it possible to fix it?

Best wishes,

Mic

mictadlo avatar May 16 '16 00:05 mictadlo

Is this in a Docker container?

bgruening avatar May 16 '16 08:05 bgruening

No, It is not. What kind of additional information do you need?

mictadlo avatar May 16 '16 12:05 mictadlo

Can you give me some kind of error? :)

bgruening avatar May 17 '16 20:05 bgruening

No problem, here are the errors:

package_python_2_7_numpy_1_9

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
ATLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib; export ATLAS_LIB_DIR
ATLAS_INCLUDE_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/include; export ATLAS_INCLUDE_DIR
ATLAS_BLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas; export ATLAS_BLAS_LIB_DIR
ATLAS_LAPACK_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas; export ATLAS_LAPACK_LIB_DIR
ATLAS=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae; export ATLAS
ATLAS_ROOT_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae; export ATLAS_ROOT_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84 --script-dir /mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin numpy_1.9p1_src_all.tar.gz

STDOUT

#############################################

PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
ATLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib; export ATLAS_LIB_DIR
ATLAS_INCLUDE_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/include; export ATLAS_INCLUDE_DIR
ATLAS_BLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas; export ATLAS_BLAS_LIB_DIR
ATLAS_LAPACK_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas; export ATLAS_LAPACK_LIB_DIR
ATLAS=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae; export ATLAS
ATLAS_ROOT_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae; export ATLAS_ROOT_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84 --script-dir /mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin numpy_1.9p1_src_all.tar.gz

STDERR
usage: easy_install [options] requirement_or_url ...
   or: easy_install --help

error: invalid command 'easy_install'
#############################################

package_python_2_7_10_pybigwig_0_2_7

############################################
PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/bin:$PATH; export PATH
PKG_CONFIG_DIR=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/lib/pkgconfig:$PKG_CONFIG_DIR; export PKG_CONFIG_DIR
PKG_CONFIG_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LIBCURL_ROOT_DIR=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c; export LIBCURL_ROOT_DIR
C_INCLUDE_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/include:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/include:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/pybigwig/0.2.7/iuc/package_python_2_7_10_pybigwig_0_2_7/c11cc6035492;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/pybigwig/0.2.7/iuc/package_python_2_7_10_pybigwig_0_2_7/c11cc6035492 --script-dir /mnt/galaxy/tools/pybigwig/0.2.7/iuc/package_python_2_7_10_pybigwig_0_2_7/c11cc6035492/bin pyBigWig-0.2.7.tar.gz

STDOUT

#############################################

#############################################
PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/bin:$PATH; export PATH
PKG_CONFIG_DIR=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/lib/pkgconfig:$PKG_CONFIG_DIR; export PKG_CONFIG_DIR
PKG_CONFIG_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LIBCURL_ROOT_DIR=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c; export LIBCURL_ROOT_DIR
C_INCLUDE_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/include:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/libcurl/7.35/iuc/package_libcurl_7_35/0d934b13250c/include:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/pybigwig/0.2.7/iuc/package_python_2_7_10_pybigwig_0_2_7/c11cc6035492;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/pybigwig/0.2.7/iuc/package_python_2_7_10_pybigwig_0_2_7/c11cc6035492 --script-dir /mnt/galaxy/tools/pybigwig/0.2.7/iuc/package_python_2_7_10_pybigwig_0_2_7/c11cc6035492/bin pyBigWig-0.2.7.tar.gz

STDERR
usage: easy_install [options] requirement_or_url ...
   or: easy_install --help

error: invalid command 'easy_install'
#############################################

package_python_2_7_matplotlib_1_4

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
ZLIB_ROOT_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2; export ZLIB_ROOT_PATH
PKG_CONFIG_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LIBRARY_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/lib:$LIBRARY_PATH; export LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/include:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/include:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PYTHONPATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84:$PYTHONPATH; export PYTHONPATH
PATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin:$PATH; export PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export PYTHONPATH_NUMPY
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin; export PATH_NUMPY
NUMPY_ROOT_DIR=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export NUMPY_ROOT_DIR
PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/bin:$PATH; export PATH
LIBPNG_ROOT=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32; export LIBPNG_ROOT
LIBPNG_LIB_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/lib; export LIBPNG_LIB_PATH
LIBPNG_INCLUDE_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/include; export LIBPNG_INCLUDE_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PKG_CONFIG_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/matplotlib/1.4/iuc/package_python_2_7_matplotlib_1_4/f7424e1cf115;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/matplotlib/1.4/iuc/package_python_2_7_matplotlib_1_4/f7424e1cf115 --script-dir /mnt/galaxy/tools/matplotlib/1.4/iuc/package_python_2_7_matplotlib_1_4/f7424e1cf115/bin six-1.9.0.tar.gz

STDOUT

#############################################

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
ZLIB_ROOT_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2; export ZLIB_ROOT_PATH
PKG_CONFIG_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LIBRARY_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/lib:$LIBRARY_PATH; export LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/include:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/zlib/1.2.8/iuc/package_zlib_1_2_8/63a4a902cda2/include:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PYTHONPATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84:$PYTHONPATH; export PYTHONPATH
PATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin:$PATH; export PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export PYTHONPATH_NUMPY
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin; export PATH_NUMPY
NUMPY_ROOT_DIR=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export NUMPY_ROOT_DIR
PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/bin:$PATH; export PATH
LIBPNG_ROOT=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32; export LIBPNG_ROOT
LIBPNG_LIB_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/lib; export LIBPNG_LIB_PATH
LIBPNG_INCLUDE_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/include; export LIBPNG_INCLUDE_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PKG_CONFIG_PATH=/mnt/galaxy/tools/libpng/1.6.7/iuc/package_libpng_1_6_7/588666932a32/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/matplotlib/1.4/iuc/package_python_2_7_matplotlib_1_4/f7424e1cf115;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/matplotlib/1.4/iuc/package_python_2_7_matplotlib_1_4/f7424e1cf115 --script-dir /mnt/galaxy/tools/matplotlib/1.4/iuc/package_python_2_7_matplotlib_1_4/f7424e1cf115/bin six-1.9.0.tar.gz

STDERR
usage: easy_install [options] requirement_or_url ...
   or: easy_install --help

error: invalid command 'easy_install'
#############################################

package_python_2_7_scipy_0_14

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
ATLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib; export ATLAS_LIB_DIR
ATLAS_INCLUDE_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/include; export ATLAS_INCLUDE_DIR
ATLAS_BLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib/atlas; export ATLAS_BLAS_LIB_DIR
ATLAS_LAPACK_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib/atlas; export ATLAS_LAPACK_LIB_DIR
ATLAS_ROOT_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119; export ATLAS_ROOT_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84:$PYTHONPATH; export PYTHONPATH
PATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin:$PATH; export PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export PYTHONPATH_NUMPY
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin; export PATH_NUMPY
NUMPY_ROOT_DIR=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export NUMPY_ROOT_DIR
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/scipy/0.14/iuc/package_python_2_7_scipy_0_14/7fddd308117d;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/scipy/0.14/iuc/package_python_2_7_scipy_0_14/7fddd308117d --script-dir /mnt/galaxy/tools/scipy/0.14/iuc/package_python_2_7_scipy_0_14/7fddd308117d/bin scipy-0.14.1.tar.gz

STDOUT

#############################################

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
ATLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib; export ATLAS_LIB_DIR
ATLAS_INCLUDE_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/include; export ATLAS_INCLUDE_DIR
ATLAS_BLAS_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib/atlas; export ATLAS_BLAS_LIB_DIR
ATLAS_LAPACK_LIB_DIR=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib/atlas; export ATLAS_LAPACK_LIB_DIR
ATLAS_ROOT_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119; export ATLAS_ROOT_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/0538fd672119/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84:$PYTHONPATH; export PYTHONPATH
PATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin:$PATH; export PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export PYTHONPATH_NUMPY
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin; export PATH_NUMPY
NUMPY_ROOT_DIR=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export NUMPY_ROOT_DIR
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/scipy/0.14/iuc/package_python_2_7_scipy_0_14/7fddd308117d;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/scipy/0.14/iuc/package_python_2_7_scipy_0_14/7fddd308117d --script-dir /mnt/galaxy/tools/scipy/0.14/iuc/package_python_2_7_scipy_0_14/7fddd308117d/bin scipy-0.14.1.tar.gz

STDERR
usage: easy_install [options] requirement_or_url ...
   or: easy_install --help

error: invalid command 'easy_install'
#############################################

package_python_2_7_pysam_0_8_3

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/pysam/0.8.3/iuc/package_python_2_7_pysam_0_8_3/08db58be052a;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/pysam/0.8.3/iuc/package_python_2_7_pysam_0_8_3/08db58be052a --script-dir /mnt/galaxy/tools/pysam/0.8.3/iuc/package_python_2_7_pysam_0_8_3/08db58be052a/bin pysam-0.8.3.tar.gz

STDOUT

#############################################

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/pysam/0.8.3/iuc/package_python_2_7_pysam_0_8_3/08db58be052a;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/pysam/0.8.3/iuc/package_python_2_7_pysam_0_8_3/08db58be052a --script-dir /mnt/galaxy/tools/pysam/0.8.3/iuc/package_python_2_7_pysam_0_8_3/08db58be052a/bin pysam-0.8.3.tar.gz

STDERR
usage: easy_install [options] requirement_or_url ...
   or: easy_install --help

error: invalid command 'easy_install'
#############################################

package_python_2_7_bx_python_0_7

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PYTHONPATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84:$PYTHONPATH; export PYTHONPATH
PATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin:$PATH; export PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export PYTHONPATH_NUMPY
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin; export PATH_NUMPY
NUMPY_ROOT_DIR=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export NUMPY_ROOT_DIR
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/bx-python/0.7.2/iuc/package_python_2_7_bx_python_0_7/836bb9ad054a;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/bx-python/0.7.2/iuc/package_python_2_7_bx_python_0_7/836bb9ad054a --script-dir /mnt/galaxy/tools/bx-python/0.7.2/iuc/package_python_2_7_bx_python_0_7/836bb9ad054a/bin bx-python-0.7.2.tar.gz

STDOUT

#############################################

#############################################
PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/bin:$PATH; export PATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7:$PYTHONPATH; export PYTHONPATH
PYTHONPATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/python2.7/site-packages:$PYTHONPATH; export PYTHONPATH
PYTHONHOME=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b; export PYTHONHOME
PKG_CONFIG_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib/pkgconfig:$PKG_CONFIG_PATH; export PKG_CONFIG_PATH
PYTHON_ROOT_DIR=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b:$PYTHON_ROOT_DIR; export PYTHON_ROOT_DIR
LD_LIBRARY_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
C_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$C_INCLUDE_PATH; export C_INCLUDE_PATH
CPLUS_INCLUDE_PATH=/mnt/galaxy/tools/python/2.7.10/iuc/package_python_2_7_10/0339c4a9b87b/include/python2.7:$CPLUS_INCLUDE_PATH; export CPLUS_INCLUDE_PATH
PYTHONPATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84:$PYTHONPATH; export PYTHONPATH
PATH=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin:$PATH; export PATH
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PYTHONPATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export PYTHONPATH_NUMPY
LD_LIBRARY_PATH=/mnt/galaxy/tools/atlas/3.10.2/iuc/package_atlas_3_10/f27d2f8761ae/lib/atlas:$LD_LIBRARY_PATH; export LD_LIBRARY_PATH
PATH_NUMPY=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84/bin; export PATH_NUMPY
NUMPY_ROOT_DIR=/mnt/galaxy/tools/numpy/1.9/iuc/package_python_2_7_numpy_1_9/57b37f63cb84; export NUMPY_ROOT_DIR
PATH=$PATH:$PYTHONHOME/bin; export PATH;
                                export PYTHONPATH=$PYTHONPATH:/mnt/galaxy/tools/bx-python/0.7.2/iuc/package_python_2_7_bx_python_0_7/836bb9ad054a;
                                easy_install --no-deps --install-dir /mnt/galaxy/tools/bx-python/0.7.2/iuc/package_python_2_7_bx_python_0_7/836bb9ad054a --script-dir /mnt/galaxy/tools/bx-python/0.7.2/iuc/package_python_2_7_bx_python_0_7/836bb9ad054a/bin bx-python-0.7.2.tar.gz

STDERR
usage: easy_install [options] requirement_or_url ...
   or: easy_install --help

error: invalid command 'easy_install'
#############################################

mictadlo avatar May 19 '16 04:05 mictadlo

What version of Galaxy are you using?

dpryan79 avatar May 28 '16 17:05 dpryan79

It is 15.07

mictadlo avatar May 31 '16 03:05 mictadlo

I suspect you need a more recent version. Many of the package_python_2_7* packages from the IUC need that. I recently updated our public Galaxy instance for that reason.

Sent from my iPhone

On 31 May 2016, at 05:52, Michał T. Lorenc [email protected] wrote:

It is 15.07

— You are receiving this because you commented. Reply to this email directly, view it on GitHub, or mute the thread.

dpryan79 avatar May 31 '16 06:05 dpryan79