Open dariober opened 3 years ago
Is no one else habing this problem? For me exactly this happend with the Statistics::R module. Had to manually move the module one level up. Then it was in @INC again and worked. Any other ideas?
conda --version
conda 4.11.0
conda list
# packages in environment at /*/miniconda3/envs/resreport:
#
# Name Version Build Channel
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wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge
webencodings 0.5.1 py_1 conda-forge
wheel 0.37.1 pyhd8ed1ab_0 conda-forge
xorg-kbproto 1.0.7 h7f98852_1002 conda-forge
xorg-libice 1.0.10 h7f98852_0 conda-forge
xorg-libsm 1.2.3 hd9c2040_1000 conda-forge
xorg-libx11 1.7.2 h7f98852_0 conda-forge
xorg-libxau 1.0.9 h7f98852_0 conda-forge
xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge
xorg-libxext 1.3.4 h7f98852_1 conda-forge
xorg-libxrender 0.9.10 h7f98852_1003 conda-forge
xorg-libxt 1.2.1 h7f98852_2 conda-forge
xorg-renderproto 0.11.1 h7f98852_1002 conda-forge
xorg-xextproto 7.3.0 h7f98852_1002 conda-forge
xorg-xproto 7.0.31 h7f98852_1007 conda-forge
xz 5.2.5 h516909a_1 conda-forge
zeromq 4.3.4 h9c3ff4c_1 conda-forge
zipp 3.7.0 pyhd8ed1ab_1 conda-forge
zlib 1.2.11 h36c2ea0_1013 conda-forge
zstd 1.5.2 ha95c52a_0 conda-forge
There is a number of perl modules on bioconda that get installed outside the paths visible to perl, i.e. outside the
@INC
variable thus leading to a broken environment.Here's an example to reproduce the issue - these are modules from the recipe for meme:
This completes ok but then I get:
There reason is that the XML module was installed in
$CONDA_PREFIX/lib/perl5/site_perl/5.22.0/XML/Simple.pm
. Adding$CONDA_PREFIX/lib/perl5/site_perl/5.22.0/
toPERL5LIB
does not help:I think this issue has been observed before (e.g. #20459) - I don't know if there is a general fix?
These are my settings: