[ncl-install] Install issues on OS X

Thu Nov 2 14:49:22 MDT 2017

Hi Henry,

Sorry for the delay in response.  We are having issues with the conda-forge
release of NCL. The administrators changed some of the packages that NCL
depends on, and now they are broken.

For now, we are going to recommend that people NOT use conda to install
NCL, but rather the ESG binaries.

As for the ESG version of NCL, if you google this error message:

Internal Error: get_unit(): Bad internal unit KIND

You will see some threads that refer to GNU V7.1 being the issue, which is
the version you have installed.  We built NCL with V6.
1
.0 and V5.4.0, so would you be able to install GNU
 V6.x and try this instead?

Thanks,

--Mary

On Wed, Nov 1, 2017 at 9:03 AM, Johnson, Henry <henry_johnson at brown.edu>
wrote:

> Hi,
>
> I provide support for our group, and we have seem to have a problem with
> getting NCL running on either OS X 10.12 or 10.13 (Sierra and High Sierra)
>
> Using "conda" I can get a functional NCL 6.3.0 install working. However,
> the present conda images (or whatever you call them, environments?) for
> 6.4.0 have a whole slew of unmet dependencies. I managed to update GSL,
> only to be then bit by a libkea version mismatch.
>
> Anyway, leaving conda behind (at least we can run 6.3.0, but not NCAR
> Graphics), here's a run down on some of my initial troubleshooting with
> installation of 6.4.0 on the latest OS X (10.13.1) box. I've installed gcc
> and am using that instead of the Xcode stuff. The same stuff happens with
> OS X 10.12.
>
> Using gcc-7.1-bin.tar, gfortran-7.1-bin.tar and
> ncl_ncarg-6.4.0-MacOS_10.12_64bit_gnu530.tar.gz
>
> IBES4iMac:Desktop hj11$ which ncl
>
> /usr/local/ncl-6.4.0/bin/ncl
>
> IBES4iMac:Desktop hj11$ ncl -V
>
> 6.4.0
>
> IBES4iMac:Desktop hj11$ otool -L `which ncl`
>
> /usr/local/ncl-6.4.0/bin/ncl:
>
> /usr/lib/libcurl.4.dylib (compatibility version 7.0.0, current version
> 9.0.0)
>
> /usr/lib/libssl.0.9.8.dylib (compatibility version 0.9.8, current version
> 0.9.8)
>
> /usr/lib/libcrypto.0.9.8.dylib (compatibility version 0.9.8, current
> version 0.9.8)
>
> /System/Library/Frameworks/LDAP.framework/Versions/A/LDAP (compatibility
> version 1.0.0, current version 2.4.0)
>
> /usr/lib/libiconv.2.dylib (compatibility version 7.0.0, current version
> 7.0.0)
>
> /opt/X11/lib/libfontconfig.1.dylib (compatibility version 11.0.0, current
> version 11.2.0)
>
> /opt/X11/lib/libXrender.1.dylib (compatibility version 5.0.0, current
> version 5.0.0)
>
> /usr/lib/libbz2.1.0.dylib (compatibility version 1.0.0, current version
> 1.0.5)
>
> /opt/X11/lib/libXpm.4.dylib (compatibility version 16.0.0, current version
> 16.0.0)
>
> /opt/X11/lib/libX11.6.dylib (compatibility version 10.0.0, current version
> 10.0.0)
>
> /opt/X11/lib/libXext.6.dylib (compatibility version 11.0.0, current
> version 11.0.0)
>
> /usr/local/lib/libgfortran.3.dylib (compatibility version 4.0.0, current
> version 4.0.0)
>
> /usr/local/lib/libquadmath.0.dylib (compatibility version 1.0.0, current
> version 1.0.0)
>
> /usr/local/lib/libstdc++.6.dylib (compatibility version 7.0.0, current
> version 7.21.0)
>
> /usr/local/lib/libgomp.1.dylib (compatibility version 2.0.0, current
> version 2.0.0)
>
> /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version
> 1238.0.0)
>
> /usr/local/lib/libgcc_s.1.dylib (compatibility version 1.0.0, current
> version 1.0.0)
>
> IBES4iMac:Desktop hj11$ env | grep NCARG
>
> NCARG_ROOT=/usr/local/ncl-6.4.0
>
> IBES4iMac:Desktop hj11$ which gcc
>
> /usr/local//bin/gcc
>
> IBES4iMac:Desktop hj11$ which gfortran
>
> /usr/local//bin/gfortran
>
> IBES4iMac:Desktop hj11$ gfortran --version
>
> GNU Fortran (GCC) 7.1.0
>
> Copyright (C) 2017 Free Software Foundation, Inc.
>
> This is free software; see the source for copying conditions.  There is NO
>
> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>
> IBES4iMac:Desktop hj11$ gcc --version
>
> gcc (GCC) 7.1.0
>
> Copyright (C) 2017 Free Software Foundation, Inc.
>
> This is free software; see the source for copying conditions.  There is NO
>
> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>
> But to get "ncl -V" to work, which it didn't with either the 10.12 or
> 10.13 OS X installs,  I did:
>
> IBES4iMac:Desktop hj11$ ncl -V
>
> dyld: Library not loaded: /usr/local/lib/libgfortran.3.dylib
>
>   Referenced from: /usr/local/ncl-6.4.0/bin/ncl
>
>   Reason: image not found
>
> Abort trap: 6
>
> IBES4iMac:Desktop hj11$ sudo bash
>
> bash-3.2# cd /usr/local/lib
>
> bash-3.2# ln libgfortran.3.dylib libgfortran.dylib
>
> ln: libgfortran.3.dylib: No such file or directory
>
> bash-3.2# ln libgfortran.dylib libgfortran.3.dylib
>
> bash-3.2# exit
>
> exit
>
> IBES4iMac:Desktop hj11$ ncl -V
>
> 6.4.0
>
> IBES4iMac:Desktop hj11$ ng4ex xy02n -clean
>
>
> NCAR Graphics NCL Example <xy02n>
>
>
>   Copying xy02n.ncl
>
>   Copying xy02.res
>
>
> Running NCL...
>
>  Copyright (C) 1995-2017 - All Rights Reserved
>
>  University Corporation for Atmospheric Research
>
>  NCAR Command Language Version 6.4.0
>
>  The use of this software is governed by a License Agreement.
>
>  See http://www.ncl.ucar.edu/ for more details.
>
> At line 382 of file ngseti.f
>
> Internal Error: get_unit(): Bad internal unit KIND
>
>
> ncl failed.
>
> I get the Internal Error thing with gcc and the Xcode version of gcc.
>
> And if I use conda (after I've updated gsl) I get this:
>
> IBES4iMac:Desktop hj11$ source activate ncl_stable
> (ncl_stable) IBES4iMac:Desktop hj11$ ncl -V
> dyld: Library not loaded: @rpath/libkea.1.4.7.dylib
>   Referenced from: /Users/hj11/miniconda3/envs/ncl_stable/lib/libgdal.20.
> dylib
>   Reason: Incompatible library version: libgdal.20.dylib requires version
> 1.4.7 or later, but libkea.1.4.7.dylib provides version 1.4.0
> Abort trap: 6
>
> Cheers
>
> --
> Henry Johnson, Ph.D
> Systems Manager
> Institute at Brown for Environment and Society
> <http://www.brown.edu/academics/institute-environment-society/>
> IBES RM 258
> 401 863 5431 <(401)%20863-5431>
>
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