Hi Julien,
Thanks for your prompt response. I can go ahead with
installing conda but I have two follow up concerns
1) size of the download seems fairly large - 3g and I got a slow network.
Hope it won't be a problem
2) I already have an existing netcdf fortran and c installation as ell as
hdf5 installation. I won't this wont interfere with that.
Regards,
Ashwin.
On Wed, Jun 15, 2016 at 11:06 AM, Julien Chastang <chastang@xxxxxxxx> wrote:
> Hi Ashwin,
>
> Installing netCDF4-python via pip will not yield good results because of
> the dependency problems you describe.
>
> Instead, most or all users on this list will probably recommend you
> install the conda package and environment management system which is
> available for Linux.
>
> To learn more about conda and how to install it see:
> https://docs.continuum.io/anaconda/index
>
> Once you have installed conda, you can run the following command on your
> Linux system:
>
> conda install netcdf4
>
> Verify it is properly installed: python -c "import netCDF4"
>
> As you become more familiar with conda, you'll also want to learn about
> environments: http://conda.pydata.org/docs/using/envs.html.
>
> -Julien
>
> On Tue, Jun 14, 2016 at 10:21 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
>>
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>
>
>
> --
> Julien Chastang
> Scientific Software Developer
> Unidata-UCAR
>
