[ncl-install] ncl_convert2nc ncl_filedump not working segmentation fault

Jing Tang lu.gistangjing at gmail.com
Wed Jun 12 06:43:33 MDT 2019


Hi,

I am trying to use ncl to convert some of downloaded MODIS hdf file to nc.
Please see the error message below.

The same error when I type ncl_filedump or ncl_convert2nc



*>ncl_convert2nc MCD12Q1.A2012001.h18v01.006.2018055002712.hdf Processing
file: MCD12Q1.A2012001.h18v01.006.2018055002712.hdf...Segmentation fault
(core dumped)*

I used conda installed ncl, and had no problem when running these test
command after installation.

>ncl $NCARG_ROOT/lib/ncarg/nclex/gsun/gsun02n.ncl

>ncl $NCARG_ROOT/lib/ncarg/nclex/nug/NUG_multi_timeseries.ncl





Here are the required information:


>conda list -n *ncl_stable*

 # packages in environment at /home/jing/miniconda2/envs/ncl_stable:
#
# Name                    Version                   Build  Channel
boost-cpp                 1.68.0            h11c811c_1000    conda-forge
bzip2                     1.0.6             h14c3975_1002    conda-forge
ca-certificates           2019.3.9             hecc5488_0    conda-forge
cairo                     1.16.0            ha4e643d_1000    conda-forge
certifi                   2019.3.9                 py37_0    conda-forge
cfitsio                   3.430             h0bd2449_1002    conda-forge
cftime                    1.0.3.4         py37hd352d35_1001    conda-forge
curl                      7.64.1               hf8cf82a_0    conda-forge
esmf                      7.1.0             hdfb41a0_1004    conda-forge
expat                     2.2.5             hf484d3e_1002    conda-forge
fontconfig                2.13.1            he4413a7_1000    conda-forge
freetype                  2.10.0               he983fc9_0    conda-forge
freexl                    1.0.5             h14c3975_1002    conda-forge
geos                      3.7.1             hf484d3e_1000    conda-forge
geotiff                   1.5.1                h560c3f3_2    conda-forge
gettext                   0.19.8.1          hc5be6a0_1002    conda-forge
giflib                    5.1.7                h516909a_1    conda-forge
glib                      2.58.3            hf63aee3_1001    conda-forge
gsl                       2.4               h294904e_1006    conda-forge
hdf4                      4.2.13            h9a582f1_1002    conda-forge
hdf5                      1.10.4          nompi_h3c11f04_1106    conda-forge
hdfeos2                   2.20              h64bfcee_1000    conda-forge
hdfeos5                   5.1.16               hccfc538_4    conda-forge
icu                       58.2              hf484d3e_1000    conda-forge
jasper                    1.900.1           h07fcdf6_1006    conda-forge
jpeg                      9c                h14c3975_1001    conda-forge
json-c                    0.13.1            h14c3975_1001    conda-forge
kealib                    1.4.10            h1978553_1003    conda-forge
krb5                      1.16.3            h05b26f9_1001    conda-forge
libblas                   3.8.0               10_openblas    conda-forge
libcblas                  3.8.0               10_openblas    conda-forge
libcurl                   7.64.1               hda55be3_0    conda-forge
libdap4                   3.19.1            hd48c02d_1000    conda-forge
libedit                   3.1.20170329      hf8c457e_1001    conda-forge
libffi                    3.2.1             he1b5a44_1006    conda-forge
libgcc-ng                 8.2.0                hdf63c60_1
libgdal                   2.4.1                h02bbc0b_3    conda-forge
libgfortran-ng            7.3.0                hdf63c60_0
libiconv                  1.15              h516909a_1005    conda-forge
libkml                    1.3.0             h328b03d_1009    conda-forge
liblapack                 3.8.0               10_openblas    conda-forge
libnetcdf                 4.6.2             hbdf4f91_1001    conda-forge
libpng                    1.6.37               hed695b0_0    conda-forge
libpq                     11.3                 h4e4e079_0    conda-forge
libspatialite             4.3.0a            h4c5cd43_1028    conda-forge
libssh2                   1.8.2                h22169c7_2    conda-forge
libstdcxx-ng              8.2.0                hdf63c60_1
libtiff                   4.0.10            h648cc4a_1001    conda-forge
libuuid                   2.32.1            h14c3975_1000    conda-forge
libxcb                    1.13              h14c3975_1002    conda-forge
libxml2                   2.9.9                h13577e0_0    conda-forge
lz4-c                     1.8.3             he1b5a44_1001    conda-forge
mpi                       1.0                       mpich    conda-forge
mpich                     3.2.1             hc99cbb1_1009    conda-forge
ncl                       6.6.2                h3a5803f_3    conda-forge
nco                       4.8.0                hfb3d286_0    conda-forge
ncurses                   6.1               hf484d3e_1002    conda-forge
netcdf-fortran            4.4.5             hea25ff8_1000    conda-forge
netcdf4                   1.5.1.2          py37had58050_0    conda-forge
numpy                     1.16.4           py37h95a1406_0    conda-forge
openblas                  0.3.6                h6e990d7_2    conda-forge
openjpeg                  2.3.1                h58a6597_0    conda-forge
openssl                   1.1.1b               h14c3975_1    conda-forge
pcre                      8.41              hf484d3e_1003    conda-forge
pip                       19.1                     py37_0    conda-forge
pixman                    0.34.0            h14c3975_1003    conda-forge
poppler                   0.67.0               h2ad7f00_6    conda-forge
poppler-data              0.4.9                         1    conda-forge
postgresql                11.3                 hbeee2d4_0    conda-forge
proj4                     6.1.0                he751ad9_2    conda-forge
pthread-stubs             0.4               h14c3975_1001    conda-forge
python                    3.7.3                h5b0a415_0    conda-forge
readline                  7.0               hf8c457e_1001    conda-forge
setuptools                41.0.1                   py37_0    conda-forge
sqlite                    3.28.0               h8b20d00_0    conda-forge
tempest-remap             2.0.3                h5f743cb_0    conda-forge
tk                        8.6.9             h84994c4_1001    conda-forge
tzcode                    2019a             h516909a_1002    conda-forge
udunits2                  2.2.27.6          h4e0c4b3_1001    conda-forge
wheel                     0.33.4                   py37_0    conda-forge
xerces-c                  3.2.2             hac72e42_1001    conda-forge
xorg-imake                1.0.7                         0    conda-forge
xorg-kbproto              1.0.7             h14c3975_1002    conda-forge
xorg-libice               1.0.9             h516909a_1004    conda-forge
xorg-libsm                1.2.3             h84519dc_1000    conda-forge
xorg-libx11               1.6.7             h14c3975_1000    conda-forge
xorg-libxau               1.0.9                h14c3975_0    conda-forge
xorg-libxaw               1.0.13            h14c3975_1002    conda-forge
xorg-libxdmcp             1.1.3                h516909a_0    conda-forge
xorg-libxext              1.3.4                h516909a_0    conda-forge
xorg-libxmu               1.1.3                h516909a_0    conda-forge
xorg-libxpm               3.5.12            h14c3975_1002    conda-forge
xorg-libxrender           0.9.10            h516909a_1002    conda-forge
xorg-libxt                1.1.5             h14c3975_1002    conda-forge
xorg-makedepend           1.0.6                he1b5a44_1    conda-forge
xorg-renderproto          0.11.1            h14c3975_1002    conda-forge
xorg-xextproto            7.3.0             h14c3975_1002    conda-forge
xorg-xproto               7.0.31            h14c3975_1007    conda-forge
xz                        5.2.4             h14c3975_1001    conda-forge
zlib                      1.2.11            h14c3975_1004    conda-forge
zstd                      1.4.0                h3b9ef0a_0    conda-forge
>conda --version

conda 4.6.14
>ncl -V
6.6.2


 >which ncl
/home/jing/miniconda2/envs/ncl_stable/bin/ncl

 >env | grep NCARG
OLD_NCARG_ROOT=/home/jing/miniconda2/envs/ncl_stable:
NCARG_ROOT=/home/jing/miniconda2/envs/ncl_stable


Looking forward to your suggestions!


Best regards, Jing
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