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[netCDF #XPO-276613]: compiling f90 and including netcdf

Subject: [netCDF #XPO-276613]: compiling f90 and including netcdf
Date: Thu, 28 Jul 2011 13:07:27 -0600
You can give it a try, although I am not sure why they didn't get installed in 
the first place. The output from `make check` shows that the tests passed just 
fine with the libnetcdff lib, so you should be in good shape to copy them to 
/usr/local/lib.

Let me know how that goes,

Sean

> Yes.  Should I just copy them over manually?
> 
> Francis
> 
> On 2011-07-28, at 3:01 PM, Unidata netCDF Support wrote:
> 
> > Interesting. What libnetcdf* files do you have in /usr/local/lib? Do you 
> > see libnetcdff within your netcdf build directory 
> > (<build-dir>/fortran/.libs/)?
> >
> >> Hello,
> >>
> >> I decided to do the make install and it seemed to work.
> >>
> >> The serial code still works.  So I haven't lost that.
> >>
> >
> >
> >> My make file has the line that you suggested.  However, when I try and 
> >> make all I get that each file compiles ok (better than before) but it 
> >> cannot find -lnetcdff.  Indeed, it's not in my /usr/local/lib.
> >>
> >> ld: library not found for -lnetcdff
> >> collect2: ld returned 1 exit status
> >> make: *** [rsw] Error 1
> >>
> >> When I configured netcdfi I told it to use a fortran compiler and it seems 
> >> to know that.  Any ideas why it didn't build the library?
> >>
> >> Francis
> >>
> >> On 2011-07-28, at 2:19 PM, Unidata netCDF Support wrote:
> >>
> >>> Greetings Francis,
> >>>
> >>> I looked through your logs and everything looks ok. You could always do a 
> >>> `make clean` and start from the beginning, but this time set the 
> >>> --prefix=/where/ever/you/want when running netcdf config to install the 
> >>> libs in a different directory. Just be sure to update
> >>>
> >>> NETCDF = -L/usr/local/lib -lnetcdff -lnetcdf -L/sw/lib -lcurl
> >>>
> >>> to point to the custom install directory rather than /usr/local/lib.
> >>>
> >>> Let me know how it goes,
> >>>
> >>> Sean
> >>>
> >>>
> >>>> Hello Sean,
> >>>>
> >>>> I am a bit hesitate to make install the netcdf for fear that it won't 
> >>>> work serially anymore.  I thought I could compile some netcdf code using 
> >>>> these libraries but 1) I'm not sure where they are and 2) because I'm 
> >>>> using fftw3 that is in /usr/local/lib, there's the old netcdf that is 
> >>>> also there and I'm not sure how to tell it to use one or the other.
> >>>>
> >>>> Any advice?
> >>>>
> >>>> Francis
> >>>>
> >>>> On 2011-07-27, at 2:41 PM, Unidata netCDF Support wrote:
> >>>>
> >>>>> Francis,
> >>>>>
> >>>>> Try re-running config, but add lt_cv_ld_force_load=no like this:
> >>>>>
> >>>>> lt_cv_ld_force_load=no ./configure <whatever options you added>
> >>>>>
> >>>>> To log make and make check, do the following:
> >>>>>
> >>>>> make >& make.out&
> >>>>>
> >>>>> Then, to watch things progress, you can do:
> >>>>>
> >>>>> tail -f make.out
> >>>>>
> >>>>> You can do the exact same thing for make check (just be sure to rename 
> >>>>> make.out to make_check.out or something like that).
> >>>>>
> >>>>> Make sure to do a `make clean` before trying the above steps.
> >>>>>
> >>>>> Cheers!
> >>>>>
> >>>>> Sean
> >>>>>
> >>>>>
> >>>>>> Hello Sean,
> >>>>>>
> >>>>>> Here is a copy of my config.log.  I don't see where the make and make 
> >>>>>> check were stored.  If you tell me I'll send them.  Otherwise, I'll 
> >>>>>> redo the make and make check and send you the output.
> >>>>>>
> >>>>>> Thanks,
> >>>>>> Francis
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>>> On 2011-07-27, at 1:15 PM, Unidata netCDF Support wrote:
> >>>>>>
> >>>>>>> Francis,
> >>>>>>>
> >>>>>>> Would you mind sending me the configure, make, and make check logs 
> >>>>>>> from your desktop build?
> >>>>>>>
> >>>>>>> Thanks!
> >>>>>>>
> >>>>>>> Sean
> >>>>>>>
> >>>>>>>> Hello Sean,
> >>>>>>>>
> >>>>>>>> Thanks for the advice.  I'm testing this out on a MacPro and  
> >>>>>>>> MacBook Pro.
> >>>>>>>>
> >>>>>>>> On my laptop it compiles fine, thanks!   The nc-config didn't say 
> >>>>>>>> that but now I know better.
> >>>>>>>>
> >>>>>>>> On my desktop it no longer complains about not finding netcdf.mod 
> >>>>>>>> (that's progress) but now it doesn't find netcdff.  When I look in 
> >>>>>>>> usr/local/lib I see netcdf and netcdf_c++ but no netcdff.  Maybe I 
> >>>>>>>> needed to do something to include it when I built netcdf 4.1.1?
> >>>>>>>>
> >>>>>>>> Cheers,
> >>>>>>>> Francis
> >>>>>>>>
> >>>>>>>> On 2011-07-27, at 11:48 AM, Unidata netCDF Support wrote:
> >>>>>>>>
> >>>>>>>>> Greetings Francis!
> >>>>>>>>>
> >>>>>>>>> You seem to be missing the netcdf fortran library (-lnetcdff) in 
> >>>>>>>>> your NETCDF variable. It should be something like:
> >>>>>>>>>
> >>>>>>>>> NETCDF = -L/usr/local/lib -lnetcdff -lnetcdf -L/sw/lib -lcurl
> >>>>>>>>>
> >>>>>>>>> If you need to see what lib flags you should use, check out the 
> >>>>>>>>> program nc-config:
> >>>>>>>>>
> >>>>>>>>> nc-config --flibs
> >>>>>>>>>
> >>>>>>>>> There are all kinds of goodies that can be found using 
> >>>>>>>>> nc-config...check out
> >>>>>>>>>
> >>>>>>>>> nc-config --help
> >>>>>>>>>
> >>>>>>>>> for more info.
> >>>>>>>>>
> >>>>>>>>> Please let me know if adding -lnetcdff works for you.
> >>>>>>>>>
> >>>>>>>>> Cheers!
> >>>>>>>>>
> >>>>>>>>> Sean
> >>>>>>>>>
> >>>>>>>>>> Hello,
> >>>>>>>>>>
> >>>>>>>>>> Since my first email I've made some progress, but I'm still having 
> >>>>>>>>>> some difficulty.
> >>>>>>>>>>
> >>>>>>>>>> Since last I wrote I have figured out that netcdf does seem to be 
> >>>>>>>>>> installed correctly because I can run some f90 programs that call 
> >>>>>>>>>> netcdf.  At least in serial.
> >>>>>>>>>>
> >>>>>>>>>> For my serial problem my makefile looks like
> >>>>>>>>>>
> >>>>>>>>>> FC      = /sw/bin/gfortran
> >>>>>>>>>> FFLAGS  = -g -O2 -I/usr/local/include
> >>>>>>>>>> MATH    = -lm
> >>>>>>>>>> NETCDF  = -L/usr/local/lib -lnetcdf -L/sw/lib -lcurl
> >>>>>>>>>> FFT     = -L/usr/local/lib -lfftw3
> >>>>>>>>>>
> >>>>>>>>>> all:rsw
> >>>>>>>>>>
> >>>>>>>>>> %.o: %.f90
> >>>>>>>>>> $(FC) $(FFLAGS) -c $<
> >>>>>>>>>>
> >>>>>>>>>> rsw: $(OBJ)
> >>>>>>>>>> $(FC) $(FFLAGS) -o rsw_nl.out $(OBJ) $(MATH) $(FFT) $(NETCDF)
> >>>>>>>>>>
> >>>>>>>>>>
> >>>>>>>>>> My MPI version is very similar and looks like this,
> >>>>>>>>>>
> >>>>>>>>>> FC      = /usr/local/bin/mpif90
> >>>>>>>>>> FFLAGS  = -g -O2 -I/usr/local/include
> >>>>>>>>>> MATH    = -lm
> >>>>>>>>>> NETCDF  = -L/usr/local/lib -lnetcdf -L/sw/lib -lcurl
> >>>>>>>>>> FFT     = -L/usr/local/lib -lfftw3
> >>>>>>>>>> MPI     = -L/usr/local/lib -lmpi
> >>>>>>>>>>
> >>>>>>>>>> all:rsw
> >>>>>>>>>>
> >>>>>>>>>> %.o: %.f90
> >>>>>>>>>> $(FC) $(FFLAGS) $(NETCDF) -c $<
> >>>>>>>>>>
> >>>>>>>>>> rsw: $(OBJ)
> >>>>>>>>>> $(FC) $(FFLAGS) -o rsw_nl.out $(OBJ) $(MATH) $(FFT) $(MPI) 
> >>>>>>>>>> $(NETCDF)
> >>>>>>>>>>
> >>>>>>>>>>
> >>>>>>>>>> Unfortunately in this case it cannot find netcdf.mod
> >>>>>>>>>>
> >>>>>>>>>> /usr/local/bin/mpif90 -g -O2 -I/usr/local/include -L/usr/local/lib 
> >>>>>>>>>> -lnetcdf -L/sw/lib -lcurl -c save_fields.f90
> >>>>>>>>>> save_fields.f90:6.12:
> >>>>>>>>>>
> >>>>>>>>>> USE netcdf
> >>>>>>>>>> 1
> >>>>>>>>>> Fatal Error: Wrong module version '0' (expected '6') for file 
> >>>>>>>>>> 'netcdf.mod' opened at (1)
> >>>>>>>>>> make: *** [save_fields.o] Error 1
> >>>>>>>>>>
> >>>>>>>>>> even though there is a local copy of it in the directory,
> >>>>>>>>>>
> >>>>>>>>>> Do you have any ideas why I can use netcdf in serial but not in 
> >>>>>>>>>> parallel? I've tried restructuring my makefile but to no avail.
> >>>>>>>>>>
> >>>>>>>>>> Thanks,
> >>>>>>>>>> Francis
> >>>>>>>>>>
> >>>>>>>>>>
> >>>>>>>>>> On 2011-07-20, at 10:54 AM, Unidata netCDF Support wrote:
> >>>>>>>>>>
> >>>>>>>>>>>
> >>>>>>>>>>> Francis Poulin,
> >>>>>>>>>>>
> >>>>>>>>>>> Your Ticket has been received, and a Unidata staff member will 
> >>>>>>>>>>> review it and reply accordingly. Listed below are details of this 
> >>>>>>>>>>> new Ticket. Please make sure the Ticket ID remains in the 
> >>>>>>>>>>> Subject: line on all correspondence related to this Ticket.
> >>>>>>>>>>>
> >>>>>>>>>>> Ticket ID: XPO-276613
> >>>>>>>>>>> Subject: compiling f90 and including netcdf
> >>>>>>>>>>> Department: Support netCDF
> >>>>>>>>>>> Priority: Normal
> >>>>>>>>>>> Status: Open
> >>>>>>>>>>>
> >>>>>>>>>>>
> >>>>>>>>>>>
> >>>>>>>>>>> The NetCDF libraries are developed at the Unidata Program 
> >>>>>>>>>>> Center/UCAR,
> >>>>>>>>>>> in Boulder, Colorado; we are funded primarily by the U.S. National
> >>>>>>>>>>> Science Foundation.
> >>>>>>>>>>>
> >>>>>>>>>>> All support requests are handled by the development team; no
> >>>>>>>>>>> dedicated support staff are funded at this time. For this reason
> >>>>>>>>>>> we cannot guarantee response times, nor can we resolve every 
> >>>>>>>>>>> support
> >>>>>>>>>>> issue, although we do our best to respond within 72 hours.
> >>>>>>>>>>>
> >>>>>>>>>>> It is in the nature of support requests that the same question is
> >>>>>>>>>>> asked many times. We urge you to search the support archives for
> >>>>>>>>>>> material relating to your support inquiry:
> >>>>>>>>>>>
> >>>>>>>>>>> http://www.unidata.ucar.edu/search.jsp?support&netcdf
> >>>>>>>>>>>
> >>>>>>>>>>> If you are having trouble building netCDF, please take a look at 
> >>>>>>>>>>> the
> >>>>>>>>>>> "Build Troubleshooter" section of the netCDF home page:
> >>>>>>>>>>>
> >>>>>>>>>>> http://www.unidata.ucar.edu/software/netcdf/
> >>>>>>>>>>>
> >>>>>>>>>>> Windows users should see the FAQ list:
> >>>>>>>>>>>
> >>>>>>>>>>> http://www.unidata.ucar.edu/software/netcdf/docs/faq.html#windows_netcdf4
> >>>>>>>>>>>
> >>>>>>>>>>> Complete documentation (including a tutorial, and sample programs 
> >>>>>>>>>>> in
> >>>>>>>>>>> C, Fortran, Java, and other programming languages) can be found 
> >>>>>>>>>>> on the
> >>>>>>>>>>> netCDF Documentation page:
> >>>>>>>>>>>
> >>>>>>>>>>> http://www.unidata.ucar.edu/software/netcdf/docs/
> >>>>>>>>>>>
> >>>>>>>>>>> If you resolve your issue through one of these methods, please 
> >>>>>>>>>>> send a
> >>>>>>>>>>> reply to this email letting us know that you no longer require
> >>>>>>>>>>> assistance. This will help us spend more time on netCDF 
> >>>>>>>>>>> development.
> >>>>>>>>>>>
> >>>>>>>>>>> Best regards,
> >>>>>>>>>>>
> >>>>>>>>>>> Unidata User Support
> >>>>>>>>>>
> >>>>>>>>>>
> >>>>>>>>>
> >>>>>>>>>
> >>>>>>>>> Ticket Details
> >>>>>>>>> ===================
> >>>>>>>>> Ticket ID: XPO-276613
> >>>>>>>>> Department: Support netCDF
> >>>>>>>>> Priority: High
> >>>>>>>>> Status: Open
> >>>>>>>>
> >>>>>>>>
> >>>>>>>
> >>>>>>>
> >>>>>>> Ticket Details
> >>>>>>> ===================
> >>>>>>> Ticket ID: XPO-276613
> >>>>>>> Department: Support netCDF
> >>>>>>> Priority: High
> >>>>>>> Status: Open
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>>
> >>>>>
> >>>>> Ticket Details
> >>>>> ===================
> >>>>> Ticket ID: XPO-276613
> >>>>> Department: Support netCDF
> >>>>> Priority: High
> >>>>> Status: Open
> >>>>
> >>>>
> >>>
> >>>
> >>> Ticket Details
> >>> ===================
> >>> Ticket ID: XPO-276613
> >>> Department: Support netCDF
> >>> Priority: High
> >>> Status: Open
> >>
> >>
> >
> >
> > Ticket Details
> > ===================
> > Ticket ID: XPO-276613
> > Department: Support netCDF
> > Priority: High
> > Status: Open
> 
> 


Ticket Details
===================
Ticket ID: XPO-276613
Department: Support netCDF
Priority: High
Status: Open
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