[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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