[gradsusr] Enable netcdf 4.1.1 option in grads configure file

Mon Jun 14 15:53:20 EDT 2010

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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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

_______________________________________________
gradsusr mailing list
gradsusr at gradsusr.org
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

_______________________________________________
gradsusr mailing list
gradsusr at gradsusr.org
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

_______________________________________________
gradsusr mailing list
gradsusr at gradsusr.org
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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