[ncl-install] Install issues on OS X

Tue Nov 7 07:08:13 MST 2017

Thanks so much Kwesi!

It does indeed seem to work, even with OS X 10.13.1 (High Sierra). Even
"idt" works.

Cheers

On Mon, Nov 6, 2017 at 5:21 PM, Kwesi Akumenyi Quagraine <
starskykwesi at gmail.com> wrote:

> Hello Mary, Hello Johnson,
>
> I had the same problem as Johnson, this is how I got around it on Mac OS X
> High Sierra with GNU v7.2.0.
>
> I realised from Mary’s earlier post that gsl version was an issue so I
> decided to force the ncl installation with the gsl package version 2.2.1
> and also on the error you are getting, it seems gdal version installed by
> default is not compatible the libkea default.
>
> conda create -n ncl_stable -c conda-forge ncl=6.4.0 gsl=2.2.1 libgdal=2.2.2
>
> Everything works fine now after testing the installation with;
>
> ng4ex xy05n -clean -W png
>
> Hope it helps!
> Cheers!
>
> Kwesi
> --------
> Try not to become a man of success but rather a man of value-Albert
> Einstein
>
> Kwesi A. Quagraine
> Department of Physics,
> School of Physical Sciences,
> College of Agriculture and Natural Sciences
> University of Cape Coast
> Cape Coast, Ghana
>
> Alt. Email: kwesi at csag.uct.ac.za
> Web: http://www.recycleupghana.org/
> office: +27 21 650 3164 <+27%2021%20650%203164>
> skype: quagraine_cwasi
>
>
> On 02 Nov 2017, at 8:49 PM, Mary Haley <haley at ucar.edu> wrote:
>
> 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/nc
>> l_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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-- 
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
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