Missing libiconv.so.2 library #98
Description
Solution to issue cannot be found in the documentation.
- I checked the documentation.
Issue
On a clean ubuntu docker image with miniconda installed and activated, the following is run:
$ conda install -c conda-forge
$itkTestDriver
itkTestDriver: error while loading shared libraries: libiconv.so.2: cannot open shared object file: No such file or directory
It appears that the libiconv library is not install and a dependency is missing. Groking through the ITK libraries I see the following:
$for lib in *.so; do echo $lib; ldd $lib |grep libiconv; done
libITKTestKernel-5.4.so
libiconv.so.2 => not found
libITKIOGDCM-5.4.so
libiconv.so.2 => not found
Installed packages
# conda list
Error while loading conda entry point: conda-libmamba-solver (libarchive.so.19: cannot open shared object file: No such file or directory)
# packages in environment at /root/miniconda3:
#
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_gnu conda-forge
anaconda-anon-usage 0.4.4 py312hfc0e8ea_100
archspec 0.2.3 pyhd3eb1b0_0
boltons 23.0.0 py312h06a4308_0
brotli-python 1.0.9 py312h6a678d5_8
bzip2 1.0.8 h5eee18b_6
c-ares 1.19.1 h5eee18b_0
ca-certificates 2024.7.4 hbcca054_0 conda-forge
certifi 2024.7.4 pyhd8ed1ab_0 conda-forge
cffi 1.16.0 py312h5eee18b_1
charset-normalizer 2.0.4 pyhd3eb1b0_0
conda 24.7.1 py312h7900ff3_0 conda-forge
conda-content-trust 0.2.0 py312h06a4308_1
conda-libmamba-solver 24.1.0 pyhd3eb1b0_0
conda-package-handling 2.3.0 py312h06a4308_0
conda-package-streaming 0.10.0 py312h06a4308_0
cryptography 42.0.5 py312hdda0065_1
distro 1.9.0 py312h06a4308_0
eigen 3.4.0 h00ab1b0_0 conda-forge
expat 2.6.2 h6a678d5_0
fftw 3.3.10 nompi_hf1063bd_110 conda-forge
fmt 9.1.0 hdb19cb5_1
frozendict 2.4.2 py312h06a4308_0
hdf5 1.14.3 nompi_h4f84152_101 conda-forge
icu 73.1 h6a678d5_0
idna 3.7 py312h06a4308_0
jsonpatch 1.33 py312h06a4308_1
jsonpointer 2.1 pyhd3eb1b0_0
krb5 1.20.1 h143b758_1
ld_impl_linux-64 2.38 h1181459_1
lerc 4.0.0 h27087fc_0 conda-forge
libaec 1.1.3 h59595ed_0 conda-forge
libarchive 3.6.2 h039dbb9_1 conda-forge
libcurl 8.7.1 h251f7ec_0
libdeflate 1.20 hd590300_0 conda-forge
libedit 3.1.20230828 h5eee18b_0
libev 4.33 h7f8727e_1
libexpat 2.6.2 h59595ed_0 conda-forge
libffi 3.4.4 h6a678d5_1
libgcc-ng 14.1.0 h77fa898_0 conda-forge
libgfortran-ng 14.1.0 h69a702a_0 conda-forge
libgfortran5 14.1.0 hc5f4f2c_0 conda-forge
libgomp 14.1.0 h77fa898_0 conda-forge
libhwloc 2.11.1 default_hecaa2ac_1000 conda-forge
libitk 5.4.0 ha759891_2 conda-forge
libjpeg-turbo 3.0.0 hd590300_1 conda-forge
libmamba 1.5.8 hfe524e5_2
libmambapy 1.5.8 py312h2dafd23_2
libnghttp2 1.57.0 h2d74bed_0
libnsl 2.0.1 hd590300_0 conda-forge
libpng 1.6.43 h2797004_0 conda-forge
libsolv 0.7.24 he621ea3_1
libsqlite 3.46.0 hde9e2c9_0 conda-forge
libssh2 1.11.0 h251f7ec_0
libstdcxx-ng 14.1.0 hc0a3c3a_0 conda-forge
libtiff 4.6.0 h1dd3fc0_3 conda-forge
libuuid 2.38.1 h0b41bf4_0 conda-forge
libwebp-base 1.4.0 hd590300_0 conda-forge
libxcrypt 4.4.36 hd590300_1 conda-forge
libxml2 2.13.1 hfdd30dd_2
libzlib 1.2.13 h4ab18f5_6 conda-forge
lz4-c 1.9.4 h6a678d5_1
lzo 2.10 hd590300_1001 conda-forge
menuinst 2.1.1 py312h06a4308_0
ncurses 6.4 h6a678d5_0
openssl 3.3.1 h4bc722e_2 conda-forge
packaging 23.2 py312h06a4308_0
pcre2 10.42 hebb0a14_1
pip 24.0 py312h06a4308_0
platformdirs 3.10.0 py312h06a4308_0
pluggy 1.0.0 py312h06a4308_1
pybind11-abi 5 hd3eb1b0_0
pycosat 0.6.6 py312h5eee18b_1
pycparser 2.21 pyhd3eb1b0_0
pysocks 1.7.1 py312h06a4308_0
python 3.12.2 hab00c5b_0_cpython conda-forge
python_abi 3.12 4_cp312 conda-forge
readline 8.2 h5eee18b_0
reproc 14.2.4 h6a678d5_2
reproc-cpp 14.2.4 h6a678d5_2
requests 2.32.2 py312h06a4308_0
ruamel.yaml 0.17.21 py312h5eee18b_0
setuptools 69.5.1 py312h06a4308_0
simpleitk 2.4.0 py312hcacb968_0 conda-forge
sqlite 3.45.3 h5eee18b_0
tbb 2021.12.0 h434a139_3 conda-forge
tk 8.6.14 h39e8969_0
tqdm 4.66.4 py312he106c6f_0
truststore 0.8.0 py312h06a4308_0
tzdata 2024a h04d1e81_0
urllib3 2.2.2 py312h06a4308_0
wheel 0.43.0 py312h06a4308_0
xz 5.4.6 h5eee18b_1
yaml-cpp 0.8.0 h6a678d5_1
zlib 1.2.13 h4ab18f5_6 conda-forge
zstandard 0.22.0 py312h2c38b39_0
zstd 1.5.5 hc292b87_2Environment info
# conda info
Error while loading conda entry point: conda-libmamba-solver (libarchive.so.19: cannot open shared object file: No such file or directory)
active environment : base
active env location : /root/miniconda3
shell level : 1
user config file : /root/.condarc
populated config files :
conda version : 24.7.1
conda-build version : not installed
python version : 3.12.2.final.0
solver : libmamba (default)
virtual packages : __archspec=1=x86_64
__conda=24.7.1=0
__glibc=2.39=0
__linux=6.6.26=0
__unix=0=0
base environment : /root/miniconda3 (writable)
conda av data dir : /root/miniconda3/etc/conda
conda av metadata url : None
channel URLs : https://repo.anaconda.com/pkgs/main/linux-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/r/linux-64
https://repo.anaconda.com/pkgs/r/noarch
package cache : /root/miniconda3/pkgs
/root/.conda/pkgs
envs directories : /root/miniconda3/envs
/root/.conda/envs
platform : linux-64
user-agent : conda/24.7.1 requests/2.32.2 CPython/3.12.2 Linux/6.6.26-linuxkit ubuntu/24.04 glibc/2.39 solver/libmamba aau/0.4.4 c/. s/. e/.
UID:GID : 0:0
netrc file : None
offline mode : False