Problem to install a shapely python module

[wzzheng90]

I got a problem when I set the environment variables for CCPP-SCM on Hera with icc/ifort as follows:

% source scm/etc/Hera_setup_intel.csh

"Hera_setup_intel.csh" needs to install a shapely python module:

  pip install --index-url http://anaconda.rdhpcs.noaa.gov/simple --trusted-host [anaconda.rdhpcs.noaa.gov](http://anaconda.rdhpcs.noaa.gov/) shapely --user

The error message shows: Retrying (Retry(total=4, connect=None, read=None, redirect=None)) after connection broken by 'ConnectTimeoutError(<pip._vendor.requests.packages.urllib3.connection.HTTPConnection object at 0x7f8d26951828>, 'Connection to anaconda.rdhpcs.noaa.gov timed out. (connect timeout=15)')': /simple/shapely/

How to fix this problem? Thanks!!

Weizhong

[wzzheng90]

The RDHPCS Helpdesk informed me that this issue is related to RDHPCS mirror. Recently Hera has opened up access to the Anaconda repository so it is no longer necessary to use the mirror. The link for additional information: https://rdhpcs-common-docs.rdhpcs.noaa.gov/wiki/index.php/Anaconda#Introduction

How to modify the script (Hera_setup_intel.csh) after this update?
Thanks,

Weizhong

[grantfirl]

Hi Weizhong, I'll look into it and make any changes to the Hera setup script as necessary.

[wzzheng90]

@grantfirl : Really appreciate!!

[grantfirl]

@wzzheng90 Take a look at #299. Would you try to modify your Hera_setup_intel.csh file and see if this solution works for you?

[wzzheng90]

@grantfirl : Try this command: source scm/etc/Hera_setup_intel.csh and the message shows as follows:

Setting environment variables for CCPP-SCM on Hera with icc/ifort Loading intel and netcdf modules... Setting CC/CXX/FC environment variables Setting NCEPLIBS environment variables Loading cmake Loading the SCM python environment .: Permission denied. conda: Command not found.

[wzzheng90]

All right. I just saw you changed it again "source /scratch1/BMC/gmtb/SCM_anaconda/etc/profile.d/conda.csh". Now type: source scm/etc/Hera_setup_intel.csh and no error message appears:

Setting environment variables for CCPP-SCM on Hera with icc/ifort Loading intel and netcdf modules... Setting CC/CXX/FC environment variables Setting NCEPLIBS environment variables Loading cmake Loading the SCM python environment

=======
However, when I compile the code, error messages show as follows:

~/ccpp-scm/ccpp/physics/physics/cires_tauamf_data.F90(1): error #7001: Error in creating the compiled module file. [CIRES_TAUAMF_DATA] module cires_tauamf_data compilation aborted for ~/ccpp-scm/ccpp/physics/physics/cires_tauamf_data.F90 (code 1) make[2]: [ccpp/physics/CMakeFiles/ccpp_physics.dir/physics/cires_tauamf_data.F90.o] Error 1 make[1]: [ccpp/physics/CMakeFiles/ccpp_physics.dir/all] Error 2 make: *** [all] Error 2

[grantfirl]

After running the Hera_setup_intel.csh script, does your command prompt change to something with (pyccpp) in front of it?

[grantfirl]

The compilation error is really strange because nothing in the actual code changed and the compiler and NCEPLIBS setup stayed the same too.

[wzzheng90]

I try it again (source scm/etc/Hera_setup_intel.csh ) and now more lines show as follows:

Setting environment variables for CCPP-SCM on Hera with icc/ifort Loading intel and netcdf modules... Setting CC/CXX/FC environment variables Setting NCEPLIBS environment variables Loading cmake Loading the SCM python environment usage: conda [-h] [-V] command ...

conda is a tool for managing and deploying applications, environments and packages.

Options: ......

Then, I compile the code and it is working !!
Also, I try a couple of cases, all work fine. Thanks a lot !!!