On 13-04-11 2:57 AM, Lalitha Viswanathan wrote:> Hi
> I am new to Cygwin and Linux.
> I installed R under Cygwin as part of the setup
> I chose "All" during installation, for all packages. So I have
the FULL
> installlation of cygwin up and running, including gfortran.
> *Under Cygwin, how do I check and configure the path to the various
> libraries?*
We don't support Cygwin, and the R version distributed with Cygwin
(produced by someone else) doesn't pass the tests. I recommend that you
avoid it. Use the Windows native version instead; it's the one we support.
Duncan Murdoch
>
> I am trying below command and it says, cannot find "lgfortran"
> But I have installed gfortran from "All" and "Libs"
during setup
>
> I access R as below
> 1) R
> 2) install.pacakges('vegan')
> 3) After choosing mirror, here is the output I get
> * installing *source* package ?vegan? ...
> ** package ?vegan? successfully unpacked and MD5 sums checked
> ** libs
> gfortran -g -O2 -pipe -c cepin.f -o cepin.o
> gcc -I/usr/lib/R/include -DNDEBUG -g -O2 -pipe -std=gnu99 -c
> data2hill.c -o data2hill.o
> gfortran -g -O2 -pipe -c decorana.f -o decorana.o
> gcc -I/usr/lib/R/include -DNDEBUG -g -O2 -pipe -std=gnu99 -c
> goffactor.c -o goffactor.o
> gfortran -g -O2 -pipe -c monoMDS.f -o monoMDS.o
> gcc -I/usr/lib/R/include -DNDEBUG -g -O2 -pipe -std=gnu99 -c
> nestedness.c -o nestedness.o
> gfortran -g -O2 -pipe -c ordering.f -o ordering.o
> gcc -I/usr/lib/R/include -DNDEBUG -g -O2 -pipe -std=gnu99 -c
> pnpoly.c -o pnpoly.o
> gcc -I/usr/lib/R/include -DNDEBUG -g -O2 -pipe -std=gnu99 -c
> stepacross.c -o stepacross.o
> gcc -I/usr/lib/R/include -DNDEBUG -g -O2 -pipe -std=gnu99 -c
> vegdist.c -o vegdist.o
> *gcc -shared -o vegan.dll cepin.o data2hill.o decorana.o goffactor.o
> monoMDS.o nestedness.o ordering.o pnpoly.o stepacross.o vegdist.o
> -lgfortran -lcygwin -luser32 -lkernel32 -ladvapi32 -lshell32
> -L/usr/lib/R/lib -lR /usr/lib/libintl.dll.a -L/usr/lib/ncursesw
> /usr/lib/libiconv.dll.a
> /usr/lib/../lib/gcc/i686-pc-cygwin/4.5.3/../../../../i686-pc-cygwin/bin/ld:
> cannot find -lgfortran
> *collect2: ld returned 1 exit status
> /usr/lib/R/share/make/shlib.mk:6: recipe for target `vegan.dll' failed
> make: *** [vegan.dll] Error 1
> ERROR: compilation failed for package ?vegan?
> * removing ?/usr/lib/R/site-library/vegan?
>
> The downloaded source packages are in
> ?/tmp/RtmpLmqud4/downloaded_packages?
> Warning message:
> In install.packages("vegan") :
> installation of package ?vegan? had non-zero exit status
>
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>
>
>
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