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NOTICE: This version of the NSF Unidata web site (archive.unidata.ucar.edu) is no longer being updated.
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To learn about what's going on, see About the Archive Site.
Ashwin, That sounds entirely too painful. Given that, I'd say miniconda (using the conda-forge channel as necessary for additional packages) is probably your best bet. Personally, I'd much rather be focused on using Python rather than figuring out a compiler. Ryan On Wed, Jun 15, 2016 at 8:47 PM, ashwinD12 <winash12@xxxxxxxxx> wrote: > Ryan, > I do have the hd5 installed yes. It is under /usr/local/lib > and /usr/local/include. When I installed WRF two years ago these are > required libraries. What I saw in this URL is > > > http://bryanwweber.com/writing/personal/2014/01/11/installing-numpy-scipy-on-ubuntu-12.04.3-from-scratch-source-with-intel-compilers/ > > I need to make changes to the intelcompiler.py file so that it reflects my > environment. How I do not know yet. > > > > Regards, > Ashwin. > > On Wed, Jun 15, 2016 at 8:45 PM, Ryan May <rmay@xxxxxxxx> wrote: > >> Ashwin, >> >> I echo that conda is a good solution in general, but I want to clarify >> something. Your original problem was missing the C HDF5 library--your >> installing h5py does nothing to solve this. Instead, you should install the >> hdf5 libs on Ubuntu (not using pip, but apt-get). >> >> Ryan >> >> On Tue, Jun 14, 2016 at 11:21 PM, ashwinD12 <winash12@xxxxxxxxx> wrote: >> >>> Hello, >>> I am trying to install netcdf4 package on Ubuntu 14.04 using >>> the following command >>> >>> pip3 install netcdf4. This did install successfully but when I try to >>> execute a script which had import netCDF4 I get the following error - >>> >>> >>> My python is compiled with icc and not gcc ! >>> >>> Traceback (most recent call last): >>> File "display.py", line 5, in <module> >>> from netCDF4 import Dataset # http://code.google.com/p/netcdf4-python/ >>> File "/usr/local/lib/python3.4/dist-packages/netCDF4/__init__.py", line 3, >>> in <module> from ._netCDF4 import * >>> File "netCDF4/_netCDF4.pyx", line 942, in init netCDF4._netCDF4 >>> (netCDF4/_netCDF4.c:76006) >>> File "/usr/local/lib/python3.4/dist-packages/netcdftime/__init__.py", line >>> 1, in <module> >>> from .netcdftime import utime, JulianDayFromDate, DateFromJulianDay >>> File "/usr/local/lib/python3.4/dist-packages/netcdftime/netcdftime.py", >>> line 14, in <module> >>> from ._datetime import datetime >>> ImportError: >>> /usr/local/lib/python3.4/dist-packages/netcdftime/_datetime.cpython-34m.so: >>> undefined symbol: __intel_sse2_strchr >>> >>> >>> So it looks like this has a dependency on cython and hdf5. >>> >>> So I did install cython and that did install successfully. >>> >>> When I do a pip3 install h5py I get the following errors - >>> >>> Traceback (most recent call last): >>> >>> File "<string>", line 1, in <module> >>> >>> File "/tmp/pip_build_root/h5py/setup.py", line 149, in <module> >>> >>> cmdclass = CMDCLASS, >>> >>> File "/usr/lib/python3.4/distutils/core.py", line 148, in setup >>> >>> dist.run_commands() >>> >>> File "/usr/lib/python3.4/distutils/dist.py", line 955, in run_commands >>> >>> self.run_command(cmd) >>> >>> File "/usr/lib/python3.4/distutils/dist.py", line 974, in run_command >>> >>> cmd_obj.run() >>> >>> File "/usr/lib/python3/dist-packages/setuptools/command/install.py", >>> line 53, in run >>> >>> return _install.run(self) >>> >>> File "/usr/lib/python3.4/distutils/command/install.py", line 583, in >>> run >>> >>> self.run_command('build') >>> >>> File "/usr/lib/python3.4/distutils/cmd.py", line 313, in run_command >>> >>> self.distribution.run_command(command) >>> >>> File "/usr/lib/python3.4/distutils/dist.py", line 974, in run_command >>> >>> cmd_obj.run() >>> >>> File "/usr/lib/python3.4/distutils/command/build.py", line 126, in run >>> >>> self.run_command(cmd_name) >>> >>> File "/usr/lib/python3.4/distutils/cmd.py", line 313, in run_command >>> >>> self.distribution.run_command(command) >>> >>> File "/usr/lib/python3.4/distutils/dist.py", line 974, in run_command >>> >>> cmd_obj.run() >>> >>> File "/tmp/pip_build_root/h5py/setup_build.py", line 147, in run >>> >>> from Cython.Build import cythonize >>> >>> File "/usr/local/lib/python3.4/dist-packages/Cython/Build/__init__.py", >>> line 1, in <module> >>> >>> from .Dependencies import cythonize >>> >>> File >>> "/usr/local/lib/python3.4/dist-packages/Cython/Build/Dependencies.py", >>> line 50, in <module> >>> >>> from ..Compiler.Main import Context, CompilationOptions, >>> default_options >>> >>> File "/usr/local/lib/python3.4/dist-packages/Cython/Compiler/Main.py", >>> line 28, in <module> >>> >>> from .Scanning import PyrexScanner, FileSourceDescriptor >>> >>> ImportError: /usr/local/lib/python3.4/dist-packages/Cython/Compiler/ >>> Scanning.cpython-34m.so <http://scanning.cpython-34m.so/>: undefined >>> symbol: __intel_sse2_strchr >>> >> >> >> >> -- >> Ryan May, Ph.D. >> Software Engineer >> UCAR/Unidata >> Boulder, CO >> > > -- Ryan May, Ph.D. Software Engineer UCAR/Unidata Boulder, CO
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