[gradsusr] Enable netcdf 4.1.1 option in grads configure file
Huber Paúl Gilt López
huber.gilt at igp.gob.pe
Tue Jun 15 16:40:35 EDT 2010
Hello John,
I built the libxdr.a library, then exec the make command in grads source
folder, the libxdr.a library resolve 9 of 10 Unsatisfied symbols, the last
error is in the end. Maybe this symbol needs to include in libxdr.a, or is
another library?
Please help me,
Best regards,
Huber
gcc -g -O2 -o grads grads.o gxsubs.o gxmeta.o gxchpl.o gxcntr.o gxstrm.o
gxwm ap.o gxshad.o gaexpr.o
gafunc.o gautil.o gagx.o gscrpt.o gamach.o bufrstn.o gabu
fr.o gabufrtbl.o gxX.o gxdxwd.o galloc.o gaddes.o gaio.o gacfg.o gauser.o
gasd f.o -L../../supplibs/lib
-lX11 ../../supplibs/lib/libmfhdf.a ../../supplib
s/lib/libdf.a ../../supplibs/lib/libudunits.a ../../supplibs/lib/libsz.a
../../s upplibs/lib/libjpeg.a
../../supplibs/lib/libz.a ../../supplibs/lib/libhdf5.a ../
../supplibs/lib/libsz.a ../../supplibs/lib/libjpeg.a
../../supplibs/lib/libz.a .
./../supplibs/lib/libudunits.a ../../supplibs/lib/libnetcdf.a
../../supplibs/lib /libhdf5_hl.a
../../supplibs/lib/libhdf5.a ../../supplibs/lib/libz.a ../../suppl
ibs/lib/libsz.a ../../supplibs/lib/libcurl.a -lm -lxdr
ld: Unsatisfied symbol "xdrmem_create" in file
../../supplibs/lib/libnetcdf.a[liboc_la-ocinternal.o]
1 errors.
collect2: ld returned 1 exit status
_____
De: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org] En
nombre de Huddleston, John
Enviado el: martes, 15 de junio de 2010 12:32
Para: GrADS Users Forum
Asunto: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
Huber, I sent a PDF document to your private email describing how to build
all supplibs and GrADS. You should follow those steps in the order shown in
the document.
For the xdr library, do the following:
gcc –I. –c *.c
ar cruv libxdr.a ${SUPPLIBS}/lib/libjpeg.a xdr.o xdrfloat.o xdrstdio.o
xdrarray.o
cp libxdr.a ${SUPPLIBS}/lib
If the libjpeg.a is not under $SUPPLIBS/lib then put the path to where it
resides.
John Huddleston, PhD
Cooperative Institute for Research in the Atmosphere
From: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org]
On Behalf Of Huber Paúl Gilt López
Sent: Tuesday, June 15, 2010 10:59 AM
To: 'GrADS Users Forum'
Subject: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
Hello John,
Yes, I have built the hdf library, but I don’t have Makefile file neither
configure file in this path, and also I have and others files like
show above, Is there another way to build libxdr.a?
Please help me,
Best regards,
Huber
_____
De: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org] En
nombre de Huddleston, John
Enviado el: martes, 15 de junio de 2010 9:39
Para: GrADS Users Forum
Asunto: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
Huber
That is a good question. I remember building on HP/UX ten years ago and it
was always difficult.
Let’s try another approach. I assume you’ve built the hdf library. Look
under the hdf-4.2.5/mfhdf/xdr directory.
Type ‘make’ and it will build the shared library; then, use the objects to
make the static library.
ar cruv libxdr.a *.o
Copy the libxdr.a to your ${SUPPLIBS}/lib and link it into the GrADS link
line using the option
-lxdr
John Huddleston, PhD
Cooperative Institute for Research in the Atmosphere
From: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org]
On Behalf Of Huber Paúl Gilt López
Sent: Monday, June 14, 2010 3:40 PM
To: 'GrADS Users Forum'
Subject: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
Hello John,
I build in hp-ux, and I have the following libraries, which of them I will
choose?. I’m building a applications of 32 bits.
Thanks a lot,
Huber
# find / -name librpc*
/usr/lib/hpux32/librpcsvc.so.1
/usr/lib/hpux32/librpcsec_gss.sl
/usr/lib/hpux32/librpcsec_gss.so.1
/usr/lib/hpux32/librpcsoc.so
/usr/lib/hpux32/librpcsoc.so.1
/usr/lib/hpux32/librpcsvc.so
/usr/lib/hpux64/librpcsec_gss.sl
/usr/lib/hpux64/librpcsec_gss.so.1
/usr/lib/hpux64/librpcsvc.so
/usr/lib/hpux64/librpcsvc.so.1
/usr/lib/pa20_64/librpcsec_gss.1
/usr/lib/pa20_64/librpcsec_gss.sl
/usr/lib/pa20_64/librpcsvc.1
/usr/lib/pa20_64/librpcsvc.sl
/usr/lib/librpcsec_gss.1
/usr/lib/librpcsec_gss.sl
/usr/lib/librpcsoc.1
/usr/lib/librpcsoc.sl
/usr/lib/librpcsvc.1
/usr/lib/librpcsvc.sl
/usr/ccs/pa/usr/lib/pa20_64/librpcsec_gss.1
/usr/ccs/pa/usr/lib/pa20_64/librpcsec_gss.sl
/usr/ccs/pa/usr/lib/pa20_64/librpcsvc.1
/usr/ccs/pa/usr/lib/pa20_64/librpcsvc.sl
/usr/ccs/pa/usr/lib/librpcsec_gss.1
/usr/ccs/pa/usr/lib/librpcsec_gss.sl
/usr/ccs/pa/usr/lib/librpcsoc.1
/usr/ccs/pa/usr/lib/librpcsoc.sl
/usr/ccs/pa/usr/lib/librpcsvc.1
/usr/ccs/pa/usr/lib/librpcsvc.sl
_____
De: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org] En
nombre de Huddleston, John
Enviado el: lunes, 14 de junio de 2010 16:00
Para: GrADS Users Forum
Asunto: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
Huber
The XDR functions are in the RPC library. These are originally from the SUN
environment.
If you have a librpc.a or a *rpc*.so somewhere under the /usr/lib or
/usr/local/lib areas then add it to the link line, e.g.
-lrpc
What platform are you using to build GrADS?
John Huddleston, PhD
Cooperative Institute for Research in the Atmosphere
From: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org]
On Behalf Of Huber Paúl Gilt López
Sent: Monday, June 14, 2010 1:53 PM
To: 'GrADS Users Forum'
Subject: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
Hello Jennifer,
I want to compile de grads, but I don’t know what library or file include
these missing symbols, please if you kwon tell, how can I fix these problem?
(Error is in the end)
Thanks you very much,
Huber
gcc -g -O2 -o grads grads.o gxsubs.o gxmeta.o gxchpl.o gxcntr.o gxstrm.o
gxwmap.o gxshad.o gaexpr.o gafunc.o gautil.o gagx.o gscrpt.o gamach.o
bufrstn.o gabufr.o gabufrtbl.o gxX.o gxdxwd.o galloc.o gaddes.o gaio.o
gacfg.o gauser.o gasdf.o -L../../supplibs/lib -lX11
../../supplibs/lib/libmfhdf.a ../../supplibs/lib/libdf.a
../../supplibs/lib/libudunits.a ../../supplibs/lib/libsz.a
../../supplibs/lib/libjpeg.a ../../supplibs/lib/libz.a
../../supplibs/lib/libhdf5.a ../../supplibs/lib/libsz.a
../../supplibs/lib/libjpeg.a ../../supplibs/lib/libz.a
../../supplibs/lib/libudunits.a ../../supplibs/lib/libnetcdf.a
../../supplibs/lib/libhdf5_hl.a ../../supplibs/lib/libhdf5.a
../../supplibs/lib/libz.a ../../supplibs/lib/libsz.a
../../supplibs/lib/libcurl.a -lm
ld: Unsatisfied symbol "xdr_string" in file
../../supplibs/lib/libnetcdf.a[liboc_la-occompile.o]
ld: Unsatisfied symbol "xdr_int" in file
../../supplibs/lib/libmfhdf.a[putget.o]
ld: Unsatisfied symbol "xdr_double" in file
../../supplibs/lib/libmfhdf.a[putget.o]
ld: Unsatisfied symbol "xdr_opaque" in file
../../supplibs/lib/libmfhdf.a[putget.o]
ld: Unsatisfied symbol "xdr_float" in file
../../supplibs/lib/libmfhdf.a[putget.o]
ld: Unsatisfied symbol "xdrmem_create" in file
../../supplibs/lib/libnetcdf.a[liboc_la-ocinternal.o]
ld: Unsatisfied symbol "xdr_enum" in file
../../supplibs/lib/libmfhdf.a[var.o]
ld: Unsatisfied symbol "xdr_long" in file
../../supplibs/lib/libmfhdf.a[dim.o]
ld: Unsatisfied symbol "xdr_u_int" in file
../../supplibs/lib/libnetcdf.a[liboc_la-occompile.o]
ld: Unsatisfied symbol "xdr_u_long" in file
../../supplibs/lib/libmfhdf.a[string.o]
10 errors.
collect2: ld returned 1 exit status
make[2]: *** [grads] Error 1
make[2]: Leaving directory `/home/huber/grads/grads-2.0.a8/src'
make[1]: *** [all] Error 2
make[1]: Leaving directory `/home/huber/grads/grads-2.0.a8/src'
make: *** [all-recursive] Error 1
_____
De: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org] En
nombre de Jennifer Adams
Enviado el: lunes, 14 de junio de 2010 9:52
Para: GrADS Users Forum
Asunto: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
Huber --
hdiff is a utility compiled by the hdf4 library, but not needed for GrADS.
Did you already get libdf.a and libmfhdf.a? If so, then put them in
$SUPPLIBS/lib and all the include files in $SUPPLIBS/include/hdf/ and run
./configure (for GrADS) again.
--Jennifer
On Jun 14, 2010, at 10:43 AM, Huber Paúl Gilt López wrote:
Jennifer,
Thank you for your help, I haven’t compiled the hdf4 library yet, because I
have found the message ‘Unsatisfied symbol “sqrt” in file hdiff_array.o’, I
had thought that the math library was not specify ‘-lm’. Could you tell me
how can I solve this problem? (The error message is in the end)
Please help me,
Best regards,
Huber
gcc -O2 -L/home/huber/grads/supplibs/src/zlib-1.2.3/lib
-L/home/huber/grads/supplibs/src/jpeg-6b/lib -o hdiff hdiff.o hdiff_array.o
hdiff_gr.o hdiff_list.o hdiff_main.o hdiff_mattbl.o hdiff_gattr.o
hdiff_misc.o hdiff_sds.o hdiff_table.o hdiff_vs.o hdiff_dim.o
../libsrc/libmfhdf.a ../../hdf/src/libdf.a -ljpeg -lz -lnsl -ljpeg -lz
-lnsl
ld: Unsatisfied symbol "sqrt" in file hdiff_array.o
1 errors.
collect2: ld returned 1 exit status
make[2]: *** [hdiff] Error 1
make[2]: Leaving directory
`/home/huber/grads/supplibs/src/HDF4.2r3/mfhdf/hdiff'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/home/huber/grads/supplibs/src/HDF4.2r3/mfhdf'
make: *** [all-recursive] Error 1
_____
De: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org] En
nombre de Jennifer Adams
Enviado el: viernes, 11 de junio de 2010 19:34
Para: GrADS Users Forum
Asunto: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
On Jun 11, 2010, at 6:06 PM, Huber Paúl Gilt López wrote:
Jennifer,
Sorry, I can’t understand the patch for gasdf.c,
Change this code block:
gaint read_metadata (struct gafile *pfi) {
struct gavar *pvar;
gaint rc,i,ii,j,len,ngatts,natts,ndims,nvars,status,oflg,dummy;
size_t sz,size=0;
#if USEHDF ==1
int32 ndsets,dimsize,sds_id,dim_id,dtype,ndatts;
int32 dim_sizes[H4_MAX_VAR_DIMS],rank;
char sdsname[H4_MAX_NC_NAME+1];
char name[H4_MAX_NC_NAME+1],dimname[H4_MAX_NC_NAME+1];
#endif
To this code block instead:
gaint read_metadata (struct gafile *pfi) {
struct gavar *pvar;
gaint rc,i,ii,j,len,ngatts,natts,ndims,nvars,status,oflg,dummy;
size_t sz,size=0;
char name[300];
#if USEHDF ==1
int32 ndsets,dimsize,sds_id,dim_id,dtype,ndatts;
int32 dim_sizes[H4_MAX_VAR_DIMS],rank;
char sdsname[H4_MAX_NC_NAME+1];
char dimname[H4_MAX_NC_NAME+1];
#endif
but according with to suggest I going to compile hdf4.
Yes, you can also build wtih hdf4 -- but you must use the --disable-netcdf
option when compiling that library.
--Jennifer
Thank you
Best regards
Huber
_____
De: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org] En
nombre de Jennifer Adams
Enviado el: viernes, 11 de junio de 2010 16:48
Para: GrADS Users Forum
Asunto: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
That is a bug that occurs when you build with netcdf but without hdf4. Here
is the patch for gasdf.c :
# diff dev/src/gasdf.c grads-2.0.a8/src/gasdf.c
2169d2168
< char name[300];
2174c2173
< char dimname[H4_MAX_NC_NAME+1];
---
> char name[H4_MAX_NC_NAME+1],dimname[H4_MAX_NC_NAME+1];
On Jun 11, 2010, at 5:24 PM, Huber Paúl Gilt López wrote:
Hello Jennifer,
Thanks you for your help, I just enabled the netcdf option but now after
make command, akin the error message:
gcc -DHAVE_CONFIG_H -I. -I../../supplibs/include/udunits
-I../../supplibs/include/netcdf -I../../supplibs/include/hdf5
-I/usr/include/hdf -g -O2 -c gasdf.c
gasdf.c: In function 'read_metadata':
gasdf.c:2278: error: 'name' undeclared (first use in this function)
gasdf.c:2278: error: (Each undeclared identifier is reported only once
gasdf.c:2278: error: for each function it appears in.)
make[2]: *** [gasdf.o] Error 1
make[2]: Leaving directory `/home/huber/grads/grads-2.0.a8/src'
make[1]: *** [all] Error 2
make[1]: Leaving directory `/home/huber/grads/grads-2.0.a8/src'
make: *** [all-recursive] Error 1
How can I fix this undeclared ‘name’?
Please help me,
Best regards,
Huber
_____
De: gradsusr-bounces at gradsusr.org [mailto:gradsusr-bounces at gradsusr.org] En
nombre de Jennifer Adams
Enviado el: viernes, 11 de junio de 2010 13:37
Para: GrADS Users Forum
Asunto: Re: [gradsusr] Enable netcdf 4.1.1 option in grads configure file
On Jun 11, 2010, at 2:11 PM, Huber Paúl Gilt López wrote:
Hello,
I’m trying to build grads with netcdf option enable, after I configured the
grads with this command:
./configure -–prefix=/opt/grads-2.0.a8 --with-sdf
--with-netcdf-include=/home/huber/grads/supplibs/include/netcdf > config.out
You should not need to specify any configure options (other than --prefix)
to get netcdf support. I did not write any code to support the
"--with-netcdf-include" option...
I had the following message that ludunits library is not found:
Checking in supplibs for libraries to support netcdf-4 ...
checking for udunits.h... (cached) yes
checking for utInit in -ludunits... (cached) no
- netcdf-4 disabled
Then, I tried to build the source ldudunits library with the make command,
and also I had this error:
cc -o udunits -O udunits.o -R/data/hoop/udunits-1.11.7/src/lib
-L/data/hoop/udunits-1.11.7/src/lib -ludunits
-R/data/hoop/udunits-1.11.7/src/port/misc
-L/data/hoop/udunits-1.11.7/src/port/misc -ludport -ly -lm
(Bundled) cc: warning 922: "-O" is unsupported in the bundled compiler,
ignored.
(Bundled) cc: warning 901: unknown option:
`-R/data/hoop/udunits-1.11.7/src/lib': use +help for online documentation.
(Bundled) cc: warning 901: unknown option:
`-R/data/hoop/udunits-1.11.7/src/port/misc': use +help for online
documentation.
ld: Can't find library for -ludunits
Fatal error.
Why the compilation needs the ludunits library, I was thought this library
will be the output?
What you're trying to build here is a utility called 'udunits' -- that is
something that is built along with the library, but it is not necessary for
GrADS.
Look for a file called libudunits.a -- that is what GrADS needs -- and put
it in your $SUPPLIBS/lib location.
--Jennifer
Please help me
Best regards,
Huber Paul Gilt Lopez
IGP-Peru
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--
Jennifer M. Adams
IGES/COLA
4041 Powder Mill Road, Suite 302
Calverton, MD 20705
<mailto:jma at cola.iges.org> jma at cola.iges.org
_______________________________________________
gradsusr mailing list
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<http://gradsusr.org/mailman/listinfo/gradsusr>
http://gradsusr.org/mailman/listinfo/gradsusr
--
Jennifer M. Adams
IGES/COLA
4041 Powder Mill Road, Suite 302
Calverton, MD 20705
<mailto:jma at cola.iges.org> jma at cola.iges.org
_______________________________________________
gradsusr mailing list
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<http://gradsusr.org/mailman/listinfo/gradsusr>
http://gradsusr.org/mailman/listinfo/gradsusr
--
Jennifer M. Adams
IGES/COLA
4041 Powder Mill Road, Suite 302
Calverton, MD 20705
<mailto:jma at cola.iges.org> jma at cola.iges.org
_______________________________________________
gradsusr mailing list
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<http://gradsusr.org/mailman/listinfo/gradsusr>
http://gradsusr.org/mailman/listinfo/gradsusr
--
Jennifer M. Adams
IGES/COLA
4041 Powder Mill Road, Suite 302
Calverton, MD 20705
jma at cola.iges.org
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