[ncl-install] gfortran error? installing NCL on Mac OS X Lion

[Yoichi Takayama]

Please improve this page:

http://www.ncl.ucar.edu/Download/macosx.shtml

The instructions are confusing and probably not clear or contradicting.

My system set up is:
Mac OS X 1.7
Xcode 4.3.2
ncl_ncarg-6.0.0.MacOS_10.6_64bit_gcc421.tar.gz (It is mentioned that this should work with OSx 10.7)
gfortran 4.6.2

Environment (.bash_profile)
export NCARG_ROOT=/usr/local
export PATH=$NCARG_ROOT/bin:$PATH
export DISPLAY=:0.0

Created .hluresfile in $HOME


(1) Which gfortran?

The page tells me to do first:
	sudo port install gcc45 +gfortran
Then, later it tells me to do this:

	fink install gfortran

Also, within the same section, it tells me that you got it from:

	http://gcc.gnu.org/wiki/GFortranBinaries#MacOS

All installs different versions of gfortran and probably it is not necessary to do all these 3.

Also, later in the part close to the end, it says that the fortran version that the NCL binary is built against it should be installed.

I have installed ncl_ncarg-6.0.0.MacOS_10.6_64bit_gcc421.tar.gz, but it is not clear what version of gfortran is used (Is it the same as GCC version, which is 4.2.1?).

Also, when I installed Xcode 4.3.2, gcc and gfortran were installed already.

Also, fink install gfortran did not work, but this may be the one to use:

	fink install gfortran-shlibs [virtual library]

This installs gcc47-shlibs-4.7.0-100. Not sure what gfortran version it is, but I presume that gfortran is just a part of GCC and probably has the same version number???

By any rate, you also mentions that you have used gfortran from http://gcc.gnu.org/wiki/GFortranBinaries#MacOS.

This provides only gfortran-4.6.2-x86_64-Lion.dmg for download.

This is the gfortran package installed last on this system.

$ gfortran --version
GNU Fortran (GCC) 4.6.2 20111019 (prerelease)
Copyright (C) 2011 Free Software Foundation, Inc.



(2) Xcode 4.3.2

After installing Xcode 4.3.2, I have "downloaded" command line tools previously (before installing the gfortran).

Then ran sudo port install gcc45 +gfortran.

However, this causes warnings to run: 

	sudo xcode-select -switch /Applications/Xcode.app

Please add this information to the note, since this had better be done before issuing the port install command.


(3) limit command

I have put limit stacksize unlimited into .bash_profile but:

	-bash: limit: command not found

It does not seem to be installed or not in the PATH. Where could it be?


(4) How to install the donwloaded NCL binary

There should be a link (or a correct order to do installation) or consolidated note about how to install NCL from the downloaded binary.

Typical users will go to this page but will see the link to Mac OS X installation note "Running NCL under MacOSX" and would not find a cohesive installation instruction there or will not think to combine the instructions with this link:

	http://www.ncl.ucar.edu/Download/install.shtml

By the way, this page says it would require csh or tcsh, but Mac requires only bash.

Please correct it to include Mac OS X, or include the similar instruction (step-by-step of how to install and test/run) in the "Running NCL under MacOSX".


(5) Testing

After installing all these and setting below: (by the way default shell is bash, please correct this in your pages, too)

	export DYLD_LIBRARY_PATH=/usr/local/lib

I had to hunt for information on how to install the NCL binary and set up its environment as (4).

For how to test and use, there should be a link to: (or the same should be included on the Mac OS Note page)

	http://www.ncl.ucar.edu/get_started.shtm

From install.shml page, these two commands worked:

	ng4ex gsun01n
	ncl gsun01n.ncl

However, this did not:
$ ncargex cpex08 -clean

NCAR Graphics Fortran  Example <cpex08>

  Copying cpex08.f

  Copying cpexcc.f

Compiling and linking...
gfortran -fPIC -fno-range-check -m64 -O -o cpex08 cpexcc.f cpex08.f -L/usr/local/lib -L/usr/X11R6/lib -lncarg -lncarg_gks -lncarg_c -lXpm -lX11 -lXext
Undefined symbols for architecture x86_64:
  "__gfortran_transfer_character_write", referenced from:
      _capsap_ in ccUEA5Vc.o
  "__gfortran_transfer_integer_write", referenced from:
      _capsap_ in ccUEA5Vc.o
  "__gfortran_set_options", referenced from:
      _main in ccryWR2Q.o
  "__gfortran_os_error", referenced from:
      _mdlnam_ in libncarg.a(mdlnam.o)
      _mdlndr_ in libncarg.a(mdlndr.o)
      _dpgetc_ in libncarg.a(dpgetc.o)
      _dpgetr_ in libncarg.a(dpgetr.o)
      _dpsetc_ in libncarg.a(dpsetc.o)
      _dpsetr_ in libncarg.a(dpsetr.o)
      _icfell_ in libncarg.a(icfell.o)
      ...
ld: symbol(s) not found for architecture x86_64
collect2: ld returned 1 exit status

The compile and link failed.

Is this to do with the gfortran version used, or something else is missing (such as header files)?


Thanks,
Yoichi

--------------------------------------------------
Yoichi Takayama, PhD
Research Officer
Climate Change Research Centre
Level 4 Mathews Building
University of New South Wales
Sydney, Australia, 2052
Phone (CCRC): +61 2 9385 8963 
Fax (CCRC): +61 2 9385 8969
--------------------------------------------------
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--------------------------------------------------
Yoichi Takayama, PhD
Research Officer
Climate Change Research Centre
Level 4 Mathews Building
University of New South Wales
Sydney, Australia, 2052
Phone (CCRC): +61 2 9385 8963 
Fax (CCRC): +61 2 9385 8969
--------------------------------------------------
UNSW  ABN 57 195 873 179, CRICOS Provider 00098G
IMPORTANT: This email and any attachment(s) transmitted with it are intended solely for the use of the addressee(s) and may contain information that is confidential or subject to legal privilege. If you receive this email in error, please disregard the contents of the email and attachment(s), delete them and notify the sender immediately. Please note that any copying, distribution or use of this email is prohibited. Any views expressed in this message are those of the individual sender, except where the sender expressly, and with authority, states them to be the view of The University of New South Wales. Before opening any attachments, please check for viruses.

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