RE: AMBER: amber10 installation problem in cygwin

From: Ross Walker <>
Date: Tue, 14 Oct 2008 09:32:06 -0700

Hi Vijay,

Did you download and install Amber tools? These are needed since they
contain all the netcdf configuration stuff which is what it looks like you
are missing below.

You could also try without the -static since I don't think there is such a
thing as a statically linked binary under cygwin. The other option is to try
specifying -nobintraj to skip the netcdf compilation if you don't need
support for binary trajectory files.

Remember to make clean each time before recompiling with the new option.

All the best

> -----Original Message-----
> From: [] On Behalf
> Of
> Sent: Tuesday, October 14, 2008 8:21 AM
> To:
> Subject: AMBER: amber10 installation problem in cygwin
> Hi,
> I am trying to install amber10 (ambertools installed) in cygwin. I have
> done configuration ("./configure_amber -static -cygwin g95") with g95
> and when i run make serial command, im getting an error report as,
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0xad8): undefined reference to
> `netcdf_M
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0xbba): undefined reference to
> `netcdf_M
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0xc38): undefined reference to
> `netcdf_M
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0xd05): undefined reference to
> `netcdf_M
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0xdc6): undefined reference to
> `netcdf_M
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0x10b5): undefined reference to
> `netcdf_
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0x10e2): undefined reference to
> `netcdf_
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0x11d5): undefined reference to
> `netcdf_
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0x129e): undefined reference to
> `netcdf_
> ncsu-umbrella.o:_ncsu-umbrella.f:(.text+0x12b4): undefined reference to
> `netcdf_
> make[1]: *** [sander.exe] Error 1
> make[1]: Leaving directory `/amber10/amber10/src/sander'
> make: *** [serial] Error 2
> can anyone pl give me a solution.
> thank you.
> vijay
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Received on Wed Oct 15 2008 - 05:11:09 PDT
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