[Shake-dev] libnetcdf.so.4 problem

[Valentino Lauciani]

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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