[Shake-dev] libnetcdf.so.4 problem

[Gabe Plank]

Valentino -I have seen these errors. They'll probably be resolved with
different versions of both GMT and NetCDF. The only configuration that
worked on my Linux systems was gmt-4.4.0/  built against netcdf-4.1.1/

-Gabe

On Wed, Sep 8, 2010 at 2:32 AM, Valentino Lauciani
<valentino.lauciani at ingv.it> wrote:
> Hi all
> We are running ShakeMap v3.5, but testing It we are receiving this message:
> shake at shake1:~/ShakeMap> bin/shake -event 9583161 -verbose
> shake: Running: '/home/shake/ShakeMap/bin/../bin/retrieve -event 9583161'
> shake: Running: '/home/shake/ShakeMap/bin/../bin/pending -event 9583161'
> transfer: ----- Starting Transfer at 09/08/2010 08:40:07 -----
> transfer: ----- Transfer finished at 09/08/2010 08:40:07 -----
> shake: Done with 'pending'
> shake: Running: '/home/shake/ShakeMap/bin/../bin/grind -event 9583161 -qtm
> -xml'
> //home/shake/ShakeMap/bin/../bin/sm_nearneighbor: error while loading shared
> libraries: libnetcdf.so.4: cannot open shared object file: No such file or
> directory
> grdmath: Not a supported grid format
> [/home/shake/ShakeMap/bin/../data/9583161/output/XUjmmQOVU0.grd]
> grdmath: Not a supported grid format
> [/home/shake/ShakeMap/bin/../data/9583161/output/rK0FwR8Gfc.grd]
> //home/shake/ShakeMap/bin/../bin/sm_nearneighbor: error while loading shared
> libraries: libnetcdf.so.4: cannot open shared object file: No such file or
> directory
> grdmath: Not a supported grid format
> [/home/shake/ShakeMap/bin/../data/9583161/output/c0DqvB8ZQY.grd]
> grdmath: GMT SYNTAX ERROR:
> /home/shake/ShakeMap/bin/../data/9583161/richter/pga_rock.grd is not a
> number, operator or file name
> grdmath: Not a supported grid format
> [/home/shake/ShakeMap/bin/../data/9583161/output/eF5FziychM.grd]
> grdmath: GMT SYNTAX ERROR:
> /home/shake/ShakeMap/bin/../data/9583161/richter/pga_rock.grd is not a
> number, operator or file name
> grdmath: GMT SYNTAX ERROR:
> /home/shake/ShakeMap/bin/../data/9583161/richter/pgv_rock.grd is not a
> number, operator or file name
> //home/shake/ShakeMap/bin/../bin/sm_nearneighbor: error while loading shared
> libraries: libnetcdf.so.4: cannot open shared object file: No such file or
> directory
> grdmath: Not a supported grid format
> [/home/shake/ShakeMap/bin/../data/9583161/output/MRMsVbuWe1.grd]
> grdmath: GMT SYNTAX ERROR:
> /home/shake/ShakeMap/bin/../data/9583161/richter/mi_rock.grd is not a
> number, operator or file name
> gmt2rgb: Not a supported grid format
> [/home/shake/ShakeMap/bin/../data/9583161/output/0PecsZeBtB.grd]
> grdmath: GMT SYNTAX ERROR:
> /home/shake/ShakeMap/bin/../data/9583161/output/map_r.grd is not a number,
> operator or file name
> grdmath: GMT SYNTAX ERROR:
> /home/shake/ShakeMap/bin/../data/9583161/output/mi.grd is not a number,
> operator or file name
> grdinfo: Could not find file
> [/home/shake/ShakeMap/bin/../data/9583161/output/pga.grd]
> GMThd: unknown accessor 'file'
>  at /home/shake/ShakeMap/bin/../bin/grind line 1825
> shake: Error in grind: 2560
> shake at shake1:~/ShakeMap>
> What does it mean?
>
> Compiling "sm_nearneighbor" again, this is the output:
> shake at shake1:~/ShakeMap/src/contour> make all
> /usr/bin/cc -O -I . -I /opt/GMT4.5.2/include -I /opt/netcdf-3.6.3/include -c
> contour.c
> contour.c: In function ‘main’:
> contour.c:411: warning: passing argument 8 of ‘GMT_read_grd’ from
> incompatible pointer type
> /opt/GMT4.5.2/include/gmt_grdio.h:52: note: expected ‘GMT_LONG *’ but
> argument is of type ‘int *’
> /usr/bin/cc -O -I . -I /opt/GMT4.5.2/include -I /opt/netcdf-3.6.3/include -c
> shpopen.c
> /usr/bin/cc -O -I . -I /opt/GMT4.5.2/include -I /opt/netcdf-3.6.3/include -c
> dbfopen.c
> /usr/bin/cc  -L/opt/GMT4.5.2/lib -L/opt/netcdf-3.6.3/lib contour.o shpopen.o
> dbfopen.o  -lgmt -lnetcdf -lpsl -lm -o contour
> /usr/bin/install -m 0755 contour /home/shake/ShakeMap/bin
> /usr/bin/cc -O -I . -I /opt/GMT4.5.2/include -I /opt/netcdf-3.6.3/include -c
> sm_nearneighbor.c
> sm_nearneighbor.c: In function ‘main’:
> sm_nearneighbor.c:424: warning: passing argument 1 of ‘GMT_y_out_of_bounds’
> from incompatible pointer type
> /opt/GMT4.5.2/include/gmt_boundcond.h:54: note: expected ‘GMT_LONG *’ but
> argument is of type ‘int *’
> sm_nearneighbor.c:429: warning: passing argument 1 of ‘GMT_x_out_of_bounds’
> from incompatible pointer type
> /opt/GMT4.5.2/include/gmt_boundcond.h:55: note: expected ‘GMT_LONG *’ but
> argument is of type ‘int *’
> /usr/bin/cc  -L/opt/GMT4.5.2/lib -L/opt/netcdf-3.6.3/lib sm_nearneighbor.o
>  -lgmt -lnetcdf -lpsl -lm -o sm_nearneighbor
> /usr/bin/install -m 0755 sm_nearneighbor /home/shake/ShakeMap/bin
> /usr/bin/cc -O -I . -I /opt/GMT4.5.2/include -I /opt/netcdf-3.6.3/include -c
> dist_rrupt.c
> /usr/bin/cc  dist_rrupt.o -lm -o dist_rrupt
> /usr/bin/install -m 0755 dist_rrupt /home/shake/ShakeMap/bin
> /usr/bin/cc -O -I . -I /opt/GMT4.5.2/include -I /opt/netcdf-3.6.3/include -c
> dist_rx.c
> /usr/bin/cc  dist_rx.o -lm -o dist_rx
> /usr/bin/install -m 0755 dist_rx /home/shake/ShakeMap/bin
> shake at shake1:~/ShakeMap/src/contour>
> I resolved the problem using:
> export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/opt/netcdf-3.6.3/lib
> but is this the best solution?
> Thank you for your support.
>
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