I am using both R and python for a research project. The computations and all analyses are done in a remote server which I access using SSH. I do not have root privileges to the server.
I have a Conda virtual environment for the project. My usual workflow is connecting to the server through the SSH features of Visual Studio Code and then editing code and running it in the terminal iteratively (using the Remote - SSH extension from Microsoft). When editing Python scripts, everything works great: I can edit the files and run them in the terminal with no error messages and so on.
However, as soon as I start editing an R script, I get some weird error messages although I believe R is correctly set up. See the output of a quick check (out of a simple Terminal shell):
The Conda environment I am working on is r_conda. It shows that it sees R and it's loading it from the correct binary. Even radian seems to be correctly installed in the Conda environment.
When I open an R file in VS Code, I get the following errors:
I am using this R extension.
I have already edited the settings of the extension to point it to the correct binaries:
Does anyone know what is going on? How to solve this?
Following the suggestion from #merv, here is what is installed in the r_conda environment:
(r_conda) [rgr6291#klc0201 ~]$ conda list
# packages in environment at /home/rgr6291/.conda/envs/r_conda:
#
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 1_gnu conda-forge
_r-mutex 1.0.1 anacondar_1 conda-forge
backports 1.0 py_2 conda-forge
backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge
binutils_impl_linux-64 2.36.1 h193b22a_2 conda-forge
binutils_linux-64 2.36 hf3e587d_4 conda-forge
bwidget 1.9.14 ha770c72_1 conda-forge
bzip2 1.0.8 h7f98852_4 conda-forge
c-ares 1.18.1 h7f98852_0 conda-forge
ca-certificates 2021.10.8 ha878542_0 conda-forge
cairo 1.16.0 ha00ac49_1009 conda-forge
cffi 1.15.0 pypi_0 pypi
curl 7.81.0 h494985f_0 conda-forge
font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge
font-ttf-inconsolata 3.000 h77eed37_0 conda-forge
font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge
font-ttf-ubuntu 0.83 hab24e00_0 conda-forge
fontconfig 2.13.1 hba837de_1005 conda-forge
fonts-conda-ecosystem 1 0 conda-forge
fonts-conda-forge 1 0 conda-forge
freetype 2.10.4 h0708190_1 conda-forge
fribidi 1.0.10 h36c2ea0_0 conda-forge
gcc_impl_linux-64 9.4.0 h03d3576_11 conda-forge
gcc_linux-64 9.4.0 h391b98a_4 conda-forge
gettext 0.19.8.1 h73d1719_1008 conda-forge
gfortran_impl_linux-64 9.4.0 h0003116_11 conda-forge
gfortran_linux-64 9.4.0 hf0ab688_4 conda-forge
graphite2 1.3.13 h58526e2_1001 conda-forge
gsl 2.7 he838d99_0 conda-forge
gxx_impl_linux-64 9.4.0 h03d3576_11 conda-forge
gxx_linux-64 9.4.0 h0316aca_4 conda-forge
harfbuzz 3.2.0 hb4a5f5f_0 conda-forge
icu 69.1 h9c3ff4c_0 conda-forge
jbig 2.1 h7f98852_2003 conda-forge
jpeg 9d h36c2ea0_0 conda-forge
kernel-headers_linux-64 2.6.32 he073ed8_15 conda-forge
krb5 1.19.2 h48eae69_3 conda-forge
ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge
lerc 3.0 h9c3ff4c_0 conda-forge
libblas 3.9.0 12_linux64_openblas conda-forge
libcblas 3.9.0 12_linux64_openblas conda-forge
libcurl 7.81.0 h494985f_0 conda-forge
libdeflate 1.8 h7f98852_0 conda-forge
libedit 3.1.20191231 he28a2e2_2 conda-forge
libev 4.33 h516909a_1 conda-forge
libffi 3.4.2 h7f98852_5 conda-forge
libgcc-devel_linux-64 9.4.0 hd854feb_11 conda-forge
libgcc-ng 11.2.0 h1d223b6_11 conda-forge
libgfortran-ng 11.2.0 h69a702a_11 conda-forge
libgfortran5 11.2.0 h5c6108e_11 conda-forge
libglib 2.70.2 h174f98d_1 conda-forge
libgomp 11.2.0 h1d223b6_11 conda-forge
libiconv 1.16 h516909a_0 conda-forge
liblapack 3.9.0 12_linux64_openblas conda-forge
libnghttp2 1.43.0 ha19adfc_1 conda-forge
libnsl 2.0.0 h7f98852_0 conda-forge
libopenblas 0.3.18 pthreads_h8fe5266_0 conda-forge
libpng 1.6.37 h21135ba_2 conda-forge
libsanitizer 9.4.0 h79bfe98_11 conda-forge
libssh2 1.10.0 ha35d2d1_2 conda-forge
libstdcxx-devel_linux-64 9.4.0 hd854feb_11 conda-forge
libstdcxx-ng 11.2.0 he4da1e4_11 conda-forge
libtiff 4.3.0 h6f004c6_2 conda-forge
libuuid 2.32.1 h7f98852_1000 conda-forge
libwebp-base 1.2.1 h7f98852_0 conda-forge
libxcb 1.13 h7f98852_1004 conda-forge
libxml2 2.9.12 h885dcf4_1 conda-forge
libzlib 1.2.11 h36c2ea0_1013 conda-forge
lineedit 0.1.6 pyhd8ed1ab_0 conda-forge
lz4-c 1.9.3 h9c3ff4c_1 conda-forge
make 4.3 hd18ef5c_1 conda-forge
ncurses 6.2 h58526e2_4 conda-forge
openssl 3.0.0 h7f98852_2 conda-forge
pandoc 2.17 h7f98852_0 conda-forge
pango 1.50.3 h9967ed3_0 conda-forge
pcre 8.45 h9c3ff4c_0 conda-forge
pcre2 10.37 h032f7d1_0 conda-forge
pip 21.3.1 pyhd8ed1ab_0 conda-forge
pixman 0.40.0 h36c2ea0_0 conda-forge
pthread-stubs 0.4 h36c2ea0_1001 conda-forge
pycparser 2.21 pyhd8ed1ab_0 conda-forge
pygments 2.11.2 pyhd8ed1ab_0 conda-forge
python 3.10.2 h543edf9_0_cpython conda-forge
python_abi 3.10 2_cp310 conda-forge
r-askpass 1.1 r41hcfec24a_2 conda-forge
r-assertthat 0.2.1 r41hc72bb7e_2 conda-forge
r-backports 1.4.1 r41hcfec24a_0 conda-forge
r-base 4.1.2 h2553ce4_1 conda-forge
r-base64enc 0.1_3 r41hcfec24a_1004 conda-forge
r-bayestestr 0.11.5 r41hc72bb7e_0 conda-forge
r-bit 4.0.4 r41hcfec24a_0 conda-forge
r-bit64 4.0.5 r41hcfec24a_0 conda-forge
r-blob 1.2.2 r41hc72bb7e_0 conda-forge
r-brio 1.1.3 r41hcfec24a_0 conda-forge
r-broom 0.7.11 r41hc72bb7e_0 conda-forge
r-callr 3.7.0 r41hc72bb7e_0 conda-forge
r-cellranger 1.1.0 r41hc72bb7e_1004 conda-forge
r-checkmate 2.0.0 r41hcfec24a_1 conda-forge
r-cli 3.1.0 r41h03ef668_0 conda-forge
r-clipr 0.7.1 r41hc72bb7e_0 conda-forge
r-colorspace 2.0_2 r41hcfec24a_0 conda-forge
r-cpp11 0.4.2 r41hc72bb7e_0 conda-forge
r-crayon 1.4.2 r41hc72bb7e_0 conda-forge
r-curl 4.3.2 r41hcfec24a_0 conda-forge
r-data.table 1.14.2 r41hcfec24a_0 conda-forge
r-datawizard 0.2.2 r41hc72bb7e_0 conda-forge
r-dbi 1.1.2 r41hc72bb7e_0 conda-forge
r-dbplyr 2.1.1 r41hc72bb7e_0 conda-forge
r-desc 1.4.0 r41hc72bb7e_0 conda-forge
r-diffobj 0.3.5 r41hcfec24a_0 conda-forge
r-digest 0.6.29 r41h03ef668_0 conda-forge
r-dplyr 1.0.7 r41h03ef668_0 conda-forge
r-dtplyr 1.2.0 r41hc72bb7e_0 conda-forge
r-ellipsis 0.3.2 r41hcfec24a_0 conda-forge
r-evaluate 0.14 r41hc72bb7e_2 conda-forge
r-fansi 1.0.2 r41hcfec24a_0 conda-forge
r-farver 2.1.0 r41h03ef668_0 conda-forge
r-fastmap 1.1.0 r41h03ef668_0 conda-forge
r-forcats 0.5.1 r41hc72bb7e_0 conda-forge
r-fs 1.5.2 r41h03ef668_0 conda-forge
r-gargle 1.2.0 r41hc72bb7e_0 conda-forge
r-gdtools 0.2.3 r41h42e24d8_0 conda-forge
r-generics 0.1.1 r41hc72bb7e_0 conda-forge
r-ggplot2 3.3.5 r41hc72bb7e_0 conda-forge
r-ggsci 2.9 r41hc72bb7e_1003 conda-forge
r-glue 1.6.0 r41hcfec24a_0 conda-forge
r-googledrive 2.0.0 r41hc72bb7e_0 conda-forge
r-googlesheets4 1.0.0 r41h785f33e_0 conda-forge
r-gtable 0.3.0 r41hc72bb7e_3 conda-forge
r-haven 2.4.3 r41h2713e49_0 conda-forge
r-here 1.0.1 r41hc72bb7e_0 conda-forge
r-highr 0.9 r41hc72bb7e_0 conda-forge
r-hms 1.1.1 r41hc72bb7e_0 conda-forge
r-htmltools 0.5.2 r41h03ef668_0 conda-forge
r-httr 1.4.2 r41hc72bb7e_0 conda-forge
r-ids 1.0.1 r41hc72bb7e_1 conda-forge
r-insight 0.15.0 r41hc72bb7e_0 conda-forge
r-isoband 0.2.5 r41h03ef668_0 conda-forge
r-jquerylib 0.1.4 r41hc72bb7e_0 conda-forge
r-jsonlite 1.7.3 r41hcfec24a_0 conda-forge
r-kableextra 1.3.4 r41hc72bb7e_0 conda-forge
r-knitr 1.37 r41hc72bb7e_1 conda-forge
r-labeling 0.4.2 r41hc72bb7e_1 conda-forge
r-lattice 0.20_45 r41hcfec24a_0 conda-forge
r-lifecycle 1.0.1 r41hc72bb7e_0 conda-forge
r-lubridate 1.8.0 r41h03ef668_0 conda-forge
r-magrittr 2.0.1 r41hcfec24a_1 conda-forge
r-mass 7.3_55 r41hcfec24a_0 conda-forge
r-matrix 1.4_0 r41he454529_0 conda-forge
r-mgcv 1.8_38 r41he454529_0 conda-forge
r-mime 0.12 r41hcfec24a_0 conda-forge
r-modelr 0.1.8 r41hc72bb7e_0 conda-forge
r-modelsummary 0.9.5 r41hc72bb7e_0 conda-forge
r-munsell 0.5.0 r41hc72bb7e_1004 conda-forge
r-nlme 3.1_155 r41h859d828_0 conda-forge
r-openssl 1.4.6 r41he82ab30_0 conda-forge
r-parameters 0.16.0 r41hc72bb7e_0 conda-forge
r-performance 0.8.0 r41hc72bb7e_0 conda-forge
r-pillar 1.6.4 r41hc72bb7e_0 conda-forge
r-pkgconfig 2.0.3 r41hc72bb7e_1 conda-forge
r-pkgload 1.2.4 r41h03ef668_0 conda-forge
r-praise 1.0.0 r41hc72bb7e_1005 conda-forge
r-prettyunits 1.1.1 r41hc72bb7e_1 conda-forge
r-processx 3.5.2 r41hcfec24a_0 conda-forge
r-progress 1.2.2 r41hc72bb7e_2 conda-forge
r-ps 1.6.0 r41hcfec24a_0 conda-forge
r-purrr 0.3.4 r41hcfec24a_1 conda-forge
r-r6 2.5.1 r41hc72bb7e_0 conda-forge
r-rappdirs 0.3.3 r41hcfec24a_0 conda-forge
r-rcolorbrewer 1.1_2 r41h785f33e_1003 conda-forge
r-rcpp 1.0.8 r41h03ef668_0 conda-forge
r-readr 2.1.1 r41h03ef668_0 conda-forge
r-readxl 1.3.1 r41h2713e49_4 conda-forge
r-rematch 1.0.1 r41hc72bb7e_1004 conda-forge
r-rematch2 2.1.2 r41hc72bb7e_1 conda-forge
r-reprex 2.0.1 r41hc72bb7e_0 conda-forge
r-rlang 0.4.12 r41hcfec24a_0 conda-forge
r-rmarkdown 2.11 r41hc72bb7e_1 conda-forge
r-rprojroot 2.0.2 r41hc72bb7e_0 conda-forge
r-rstudioapi 0.13 r41hc72bb7e_0 conda-forge
r-rvest 1.0.2 r41hc72bb7e_0 conda-forge
r-sandwich 3.0_1 r41hc72bb7e_0 conda-forge
r-scales 1.1.1 r41hc72bb7e_0 conda-forge
r-selectr 0.4_2 r41hc72bb7e_1 conda-forge
r-stringi 1.7.6 r41h337692f_1 conda-forge
r-stringr 1.4.0 r41hc72bb7e_2 conda-forge
r-svglite 2.0.0 r41h03ef668_0 conda-forge
r-sys 3.4 r41hcfec24a_0 conda-forge
r-systemfonts 1.0.3 r41hef9c87a_0 conda-forge
r-tables 0.9.6 r41hc72bb7e_0 conda-forge
r-testthat 3.1.1 r41h03ef668_0 conda-forge
r-tibble 3.1.6 r41hcfec24a_0 conda-forge
r-tidyr 1.1.4 r41h03ef668_0 conda-forge
r-tidyselect 1.1.1 r41hc72bb7e_0 conda-forge
r-tidyverse 1.3.1 r41hc72bb7e_0 conda-forge
r-tinytex 0.36 r41hc72bb7e_0 conda-forge
r-tzdb 0.2.0 r41h03ef668_0 conda-forge
r-utf8 1.2.2 r41hcfec24a_0 conda-forge
r-uuid 1.0_3 r41hcfec24a_0 conda-forge
r-vctrs 0.3.8 r41hcfec24a_1 conda-forge
r-viridislite 0.4.0 r41hc72bb7e_0 conda-forge
r-vroom 1.5.7 r41h03ef668_0 conda-forge
r-waldo 0.3.1 r41hc72bb7e_0 conda-forge
r-webshot 0.5.2 r41hc72bb7e_1 conda-forge
r-withr 2.4.3 r41hc72bb7e_0 conda-forge
r-xfun 0.29 r41h03ef668_0 conda-forge
r-xml2 1.3.3 r41h03ef668_0 conda-forge
r-yaml 2.2.1 r41hcfec24a_1 conda-forge
r-zoo 1.8_9 r41hcfec24a_1 conda-forge
radian 0.5.12 pyhd8ed1ab_0 conda-forge
rchitect 0.3.35 pypi_0 pypi
readline 8.1 h46c0cb4_0 conda-forge
sed 4.8 he412f7d_0 conda-forge
setuptools 60.5.0 pypi_0 pypi
six 1.16.0 pyh6c4a22f_0 conda-forge
sqlite 3.37.0 h9cd32fc_0 conda-forge
sysroot_linux-64 2.12 he073ed8_15 conda-forge
tk 8.6.11 h27826a3_1 conda-forge
tktable 2.10 hb7b940f_3 conda-forge
tzdata 2021e he74cb21_0 conda-forge
wcwidth 0.2.5 pyh9f0ad1d_2 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
zlib 1.2.11 h36c2ea0_1013 conda-forge
zstd 1.5.1 ha95c52a_0 conda-forge
Related
I am converting my python script (that works) to an installer using pyinstaller but as a result I obtain a black window and nothing happens. Is there any bug I should be aware ?
these are the libraries I am using in my conda environment
Name Version Build Channel
altgraph 0.17.2 pypi_0 pypi
argparse 1.4.0 pypi_0 pypi
auto-py-to-exe 2.18.0 pypi_0 pypi
azure-cognitiveservices-speech 1.20.0 pypi_0 pypi
bottle 0.12.19 pypi_0 pypi
bottle-websocket 0.2.9 pypi_0 pypi
brotlipy 0.7.0 py39hb82d6ee_1003 conda-forge
ca-certificates 2021.10.8 h5b45459_0 conda-forge
certifi 2021.10.8 py39hcbf5309_1 conda-forge
cffi 1.15.0 py39h0878f49_0 conda-forge
charset-normalizer 2.0.12 pyhd8ed1ab_0 conda-forge
colorama 0.4.4 pypi_0 pypi
colored 1.4.2 py_0 conda-forge
cryptography 36.0.2 py39h7bc7c5c_0 conda-forge
cycler 0.11.0 pypi_0 pypi
decorator 4.4.2 pypi_0 pypi
eel 0.12.4 pypi_0 pypi
fonttools 4.31.2 pypi_0 pypi
freetype 2.10.4 h546665d_1 conda-forge
future 0.18.2 pypi_0 pypi
gevent 21.12.0 pypi_0 pypi
gevent-websocket 0.10.1 pypi_0 pypi
gooey 1.0.8.1 py39h415ef7b_1 conda-forge
greenlet 1.1.2 pypi_0 pypi
idna 3.3 pyhd8ed1ab_0 conda-forge
imageio 2.16.1 pypi_0 pypi
imageio-ffmpeg 0.4.5 pypi_0 pypi
jbig 2.1 h8d14728_2003 conda-forge
jpeg 9e h8ffe710_0 conda-forge
kiwisolver 1.4.0 pypi_0 pypi
lcms2 2.12 h2a16943_0 conda-forge
lerc 3.0 h0e60522_0 conda-forge
libdeflate 1.10 h8ffe710_0 conda-forge
libpng 1.6.37 h1d00b33_2 conda-forge
libtiff 4.3.0 hc4061b1_3 conda-forge
libwebp 1.2.2 h57928b3_0 conda-forge
libwebp-base 1.2.2 h8ffe710_1 conda-forge
libxcb 1.13 hcd874cb_1004 conda-forge
libzlib 1.2.11 h8ffe710_1013 conda-forge
lxml 4.8.0 pypi_0 pypi
lz4-c 1.9.3 h8ffe710_1 conda-forge
m2w64-gcc-libgfortran 5.3.0 6 conda-forge
m2w64-gcc-libs 5.3.0 7 conda-forge
m2w64-gcc-libs-core 5.3.0 7 conda-forge
m2w64-gmp 6.1.0 2 conda-forge
m2w64-libwinpthread-git 5.0.0.4634.697f757 2 conda-forge
moviepy 1.0.3 pypi_0 pypi
msys2-conda-epoch 20160418 1 conda-forge
numpy 1.22.3 pypi_0 pypi
openjpeg 2.4.0 hb211442_1 conda-forge
openssl 1.1.1n h8ffe710_0 conda-forge
packaging 21.3 pypi_0 pypi
pandas 1.4.1 pypi_0 pypi
pathlib2 2.3.7.post1 py39hcbf5309_0 conda-forge
pefile 2021.9.3 pypi_0 pypi
pillow 9.0.1 py39ha53f419_2 conda-forge
pip 21.2.4 py39haa95532_0
proglog 0.1.9 pypi_0 pypi
psutil 5.9.0 py39hb82d6ee_0 conda-forge
pthread-stubs 0.4 hcd874cb_1001 conda-forge
pycparser 2.21 pyhd8ed1ab_0 conda-forge
pygtrie 2.4.2 pyhd3deb0d_0 conda-forge
pyinstaller 4.10 pypi_0 pypi
pyinstaller-hooks-contrib 2022.2 pypi_0 pypi
pyopenssl 22.0.0 pyhd8ed1ab_0 conda-forge
pyparsing 3.0.7 pypi_0 pypi
pypiwin32 223 pypi_0 pypi
pypubsub 4.0.3 py_0 conda-forge
pysocks 1.7.1 py39hcbf5309_4 conda-forge
python 3.9.7 h6244533_1
python-dateutil 2.8.2 pypi_0 pypi
python-pptx 0.6.21 pypi_0 pypi
python-pptx-interface 0.0.12 pypi_0 pypi
python_abi 3.9 2_cp39 conda-forge
pytz 2022.1 pypi_0 pypi
pywin32 303 pypi_0 pypi
pywin32-ctypes 0.2.0 pypi_0 pypi
requests 2.27.1 pyhd8ed1ab_0 conda-forge
setuptools 44.0.0 pypi_0 pypi
shiboken2 5.15.2.1 pypi_0 pypi
six 1.16.0 pyh6c4a22f_0 conda-forge
sqlite 3.38.0 h2bbff1b_0
tinyaes 1.0.3 pypi_0 pypi
tk 8.6.12 h8ffe710_0 conda-forge
tqdm 4.63.1 pypi_0 pypi
tzdata 2021e hda174b7_0
urllib3 1.26.9 pyhd8ed1ab_0 conda-forge
vc 14.2 h21ff451_1
vs2015_runtime 14.27.29016 h5e58377_2
wheel 0.37.1 pyhd3eb1b0_0
whichcraft 0.6.1 pypi_0 pypi
win_inet_pton 1.1.0 py39hcbf5309_3 conda-forge
wincertstore 0.2 py39haa95532_2
wxpython 4.1.1 py39h5cc5705_5 conda-forge
xlsxwriter 3.0.3 pypi_0 pypi
xorg-libxau 1.0.9 hcd874cb_0 conda-forge
xorg-libxdmcp 1.1.3 hcd874cb_0 conda-forge
xz 5.2.5 h62dcd97_1 conda-forge
zlib 1.2.11 h8ffe710_1013 conda-forge
zope-event 4.5.0 pypi_0 pypi
zope-interface 5.4.0 pypi_0 pypi
zstd 1.5.2 h6255e5f_0 conda-forge
I was trying to load Seurat package in rstudio and got this error
Error: package or namespace load failed for ‘Seurat’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/wdata/msmuhammad/workbench/miniconda3/envs/test2/lib/R/library/Rcpp/libs/Rcpp.so':
/usr/lib/x86_64-linux-gnu/libstdc++.so.6: version `GLIBCXX_3.4.26' not found (required by /wdata/msmuhammad/workbench/miniconda3/envs/test2/lib/R/library/Rcpp/libs/Rcpp.so)
I'm using rstudio on a conda environment
I found a question regarding same issue of not having version `GLIBCXX_3.4.26'. that led me to running this command
strings /usr/lib/x86_64-linux-gnu/libstdc++.so.6 | grep GLIBCXX
and I got this:
GLIBCXX_3.4
GLIBCXX_3.4.1
GLIBCXX_3.4.2
GLIBCXX_3.4.3
GLIBCXX_3.4.4
GLIBCXX_3.4.5
GLIBCXX_3.4.6
GLIBCXX_3.4.7
GLIBCXX_3.4.8
GLIBCXX_3.4.9
GLIBCXX_3.4.10
GLIBCXX_3.4.11
GLIBCXX_3.4.12
GLIBCXX_3.4.13
GLIBCXX_3.4.14
GLIBCXX_3.4.15
GLIBCXX_3.4.16
GLIBCXX_3.4.17
GLIBCXX_3.4.18
GLIBCXX_3.4.19
GLIBCXX_3.4.20
GLIBCXX_3.4.21
GLIBCXX_3.4.22
GLIBCXX_3.4.23
GLIBCXX_3.4.24
GLIBCXX_3.4.25
GLIBCXX_DEBUG_MESSAGE_LENGTH
So, it doesn't have the required version and I can't install the libstdc++ from the terminal because that step requires the sudo command and I'm not one of the sudoers and I keep getting permission denied.
Ubuntu 18.04.6
Linux 4.15.0-154-generic
So, is there any solution for this issue other than the sudo command?
I tried this command with my conda environment
strings msmuhammad/workbench/miniconda3/envs/test2/lib/libstdc++.so.6 | grep GLIBCXX
and I got this
GLIBCXX_3.4
GLIBCXX_3.4.1
GLIBCXX_3.4.2
GLIBCXX_3.4.3
GLIBCXX_3.4.4
GLIBCXX_3.4.5
GLIBCXX_3.4.6
GLIBCXX_3.4.7
GLIBCXX_3.4.8
GLIBCXX_3.4.9
GLIBCXX_3.4.10
GLIBCXX_3.4.11
GLIBCXX_3.4.12
GLIBCXX_3.4.13
GLIBCXX_3.4.14
GLIBCXX_3.4.15
GLIBCXX_3.4.16
GLIBCXX_3.4.17
GLIBCXX_3.4.18
GLIBCXX_3.4.19
GLIBCXX_3.4.20
GLIBCXX_3.4.21
GLIBCXX_3.4.22
GLIBCXX_3.4.23
GLIBCXX_3.4.24
GLIBCXX_3.4.25
GLIBCXX_3.4.26
GLIBCXX_3.4.27
GLIBCXX_3.4.28
GLIBCXX_3.4.29
GLIBCXX_DEBUG_MESSAGE_LENGTH
_ZNKSt14basic_ifstreamIcSt11char_traitsIcEE7is_openEv#GLIBCXX_3.4
_ZNSt13basic_istreamIwSt11char_traitsIwEE6ignoreEv##GLIBCXX_3.4.5
_ZNKSbIwSt11char_traitsIwESaIwEE11_M_disjunctEPKw#GLIBCXX_3.4
_ZNKSt14basic_ifstreamIwSt11char_traitsIwEE7is_openEv##GLIBCXX_3.4.5
GLIBCXX_3.4.21
GLIBCXX_3.4.9
_ZSt10adopt_lock##GLIBCXX_3.4.11
GLIBCXX_3.4.10
GLIBCXX_3.4.16
GLIBCXX_3.4.1
_ZNSt19istreambuf_iteratorIcSt11char_traitsIcEEppEv#GLIBCXX_3.4
GLIBCXX_3.4.28
_ZNSs7_M_copyEPcPKcm#GLIBCXX_3.4
GLIBCXX_3.4.25
_ZNSt19istreambuf_iteratorIcSt11char_traitsIcEEppEv##GLIBCXX_3.4.5
_ZNSs7_M_moveEPcPKcm##GLIBCXX_3.4.5
_ZNKSt13basic_fstreamIwSt11char_traitsIwEE7is_openEv#GLIBCXX_3.4
_ZNKSt13basic_fstreamIcSt11char_traitsIcEE7is_openEv#GLIBCXX_3.4
_ZNSbIwSt11char_traitsIwESaIwEE4_Rep26_M_set_length_and_sharableEm##GLIBCXX_3.4.5
_ZNSs4_Rep26_M_set_length_and_sharableEm#GLIBCXX_3.4
_ZSt10defer_lock##GLIBCXX_3.4.11
_ZN10__gnu_norm15_List_node_base4swapERS0_S1_##GLIBCXX_3.4
_ZNSs9_M_assignEPcmc##GLIBCXX_3.4.5
_ZNKSbIwSt11char_traitsIwESaIwEE15_M_check_lengthEmmPKc##GLIBCXX_3.4.5
_ZNKSt14basic_ifstreamIcSt11char_traitsIcEE7is_openEv##GLIBCXX_3.4.5
_ZNSbIwSt11char_traitsIwESaIwEE7_M_moveEPwPKwm#GLIBCXX_3.4
GLIBCXX_3.4.24
_ZNVSt9__atomic011atomic_flag12test_and_setESt12memory_order##GLIBCXX_3.4.11
GLIBCXX_3.4.20
_ZNSt11char_traitsIwE2eqERKwS2_##GLIBCXX_3.4.5
GLIBCXX_3.4.12
_ZNSi6ignoreEv##GLIBCXX_3.4.5
GLIBCXX_3.4.2
_ZNSt11char_traitsIcE2eqERKcS2_##GLIBCXX_3.4.5
GLIBCXX_3.4.6
GLIBCXX_3.4.15
_ZNKSt13basic_fstreamIcSt11char_traitsIcEE7is_openEv##GLIBCXX_3.4.5
_ZNSs9_M_assignEPcmc#GLIBCXX_3.4
GLIBCXX_3.4.19
_ZNKSt14basic_ofstreamIwSt11char_traitsIwEE7is_openEv#GLIBCXX_3.4
_ZNSt19istreambuf_iteratorIwSt11char_traitsIwEEppEv#GLIBCXX_3.4
GLIBCXX_3.4.27
_ZN10__gnu_norm15_List_node_base7reverseEv##GLIBCXX_3.4
_ZN10__gnu_norm15_List_node_base4hookEPS0_##GLIBCXX_3.4
_ZNSt11char_traitsIwE2eqERKwS2_#GLIBCXX_3.4
_ZNSbIwSt11char_traitsIwESaIwEE7_M_copyEPwPKwm#GLIBCXX_3.4
_ZNSbIwSt11char_traitsIwESaIwEE7_M_copyEPwPKwm##GLIBCXX_3.4.5
GLIBCXX_3.4.23
GLIBCXX_3.4.3
GLIBCXX_3.4.7
_ZNSi6ignoreEl##GLIBCXX_3.4.5
_ZNKSbIwSt11char_traitsIwESaIwEE11_M_disjunctEPKw##GLIBCXX_3.4.5
_ZNSt13basic_istreamIwSt11char_traitsIwEE6ignoreEv#GLIBCXX_3.4
_ZNKSt13basic_fstreamIwSt11char_traitsIwEE7is_openEv##GLIBCXX_3.4.5
_ZNSbIwSt11char_traitsIwESaIwEE7_M_moveEPwPKwm##GLIBCXX_3.4.5
GLIBCXX_3.4.18
_ZNSbIwSt11char_traitsIwESaIwEE4_Rep26_M_set_length_and_sharableEm#GLIBCXX_3.4
_ZNSt13basic_istreamIwSt11char_traitsIwEE6ignoreEl##GLIBCXX_3.4.5
_ZSt15future_category##GLIBCXX_3.4.14
_ZNSi6ignoreEl#GLIBCXX_3.4
GLIBCXX_3.4.29
_ZNSt11char_traitsIcE2eqERKcS2_#GLIBCXX_3.4
_ZNKSs15_M_check_lengthEmmPKc#GLIBCXX_3.4
_ZN10__gnu_norm15_List_node_base8transferEPS0_S1_##GLIBCXX_3.4
_ZNSbIwSt11char_traitsIwESaIwEE9_M_assignEPwmw#GLIBCXX_3.4
_ZNVSt9__atomic011atomic_flag5clearESt12memory_order##GLIBCXX_3.4.11
_ZNKSt14basic_ofstreamIcSt11char_traitsIcEE7is_openEv##GLIBCXX_3.4.5
_ZNKSt14basic_ofstreamIcSt11char_traitsIcEE7is_openEv#GLIBCXX_3.4
_ZNSs7_M_moveEPcPKcm#GLIBCXX_3.4
_ZNSt13basic_istreamIwSt11char_traitsIwEE6ignoreEl#GLIBCXX_3.4
_ZNSbIwSt11char_traitsIwESaIwEE9_M_assignEPwmw##GLIBCXX_3.4.5
_ZNKSbIwSt11char_traitsIwESaIwEE15_M_check_lengthEmmPKc#GLIBCXX_3.4
_ZNKSs11_M_disjunctEPKc##GLIBCXX_3.4.5
_ZN10__gnu_norm15_List_node_base6unhookEv##GLIBCXX_3.4
GLIBCXX_3.4.22
_ZNSt19istreambuf_iteratorIwSt11char_traitsIwEEppEv##GLIBCXX_3.4.5
_ZNSi6ignoreEv#GLIBCXX_3.4
_ZNSs7_M_copyEPcPKcm##GLIBCXX_3.4.5
GLIBCXX_3.4.8
GLIBCXX_3.4.13
_ZSt11try_to_lock##GLIBCXX_3.4.11
_ZNKSt14basic_ofstreamIwSt11char_traitsIwEE7is_openEv##GLIBCXX_3.4.5
GLIBCXX_3.4.17
GLIBCXX_3.4.4
_ZNKSs15_M_check_lengthEmmPKc##GLIBCXX_3.4.5
_ZNKSt14basic_ifstreamIwSt11char_traitsIwEE7is_openEv#GLIBCXX_3.4
_ZNSs4_Rep26_M_set_length_and_sharableEm##GLIBCXX_3.4.5
GLIBCXX_3.4.26
_ZNKSs11_M_disjunctEPKc#GLIBCXX_3.4
It seems that the package is updated and the required version is there in the conda environment directory but for some reason rstudio doesn't check that file.
How to make sure that rstudio looks at that directory?
The output of conda info is as below
active environment : test2
active env location : /wdata/msmuhammad/workbench/miniconda3/envs/test2
shell level : 3
user config file : /home/msmuhammad/.condarc
populated config files : /home/msmuhammad/.condarc
conda version : 4.10.3
conda-build version : not installed
python version : 3.9.7.final.0
virtual packages : __cuda=9.1=0
__linux=4.15.0=0
__glibc=2.27=0
__unix=0=0
__archspec=1=x86_64
base environment : /wdata/msmuhammad/workbench/miniconda3 (writable)
conda av data dir : /wdata/msmuhammad/workbench/miniconda3/etc/conda
conda av metadata url : None
channel URLs : https://conda.anaconda.org/bioconda/linux-64
https://conda.anaconda.org/bioconda/noarch
https://conda.anaconda.org/conda-forge/linux-64
https://conda.anaconda.org/conda-forge/noarch
https://conda.anaconda.org/r/linux-64
https://conda.anaconda.org/r/noarch
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 : /wdata/msmuhammad/workbench/miniconda3/pkgs
/home/msmuhammad/.conda/pkgs
envs directories : /wdata/msmuhammad/workbench/miniconda3/envs
/home/msmuhammad/.conda/envs
platform : linux-64
user-agent : conda/4.10.3 requests/2.26.0 CPython/3.9.7 Linux/4.15.0-154-generic ubuntu/18.04.6 glibc/2.27
UID:GID : 2449533:900053705
netrc file : None
offline mode : False
and conda list output was as below
# packages in environment at /wdata/msmuhammad/workbench/miniconda3/envs/test2:
#
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 1_gnu conda-forge
_r-mutex 1.0.1 anacondar_1 conda-forge
binutils_impl_linux-64 2.36.1 h193b22a_2 conda-forge
binutils_linux-64 2.36 hf3e587d_1 conda-forge
bwidget 1.9.14 ha770c72_0 conda-forge
bzip2 1.0.8 h7f98852_4 conda-forge
c-ares 1.17.2 h7f98852_0 conda-forge
ca-certificates 2021.7.5 h06a4308_1
cairo 1.16.0 h6cf1ce9_1008 conda-forge
curl 7.79.0 hea6ffbf_0 conda-forge
font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge
font-ttf-inconsolata 3.000 h77eed37_0 conda-forge
font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge
font-ttf-ubuntu 0.83 hab24e00_0 conda-forge
fontconfig 2.13.1 hba837de_1005 conda-forge
fonts-conda-ecosystem 1 0 conda-forge
fonts-conda-forge 1 0 conda-forge
freetype 2.10.4 h0708190_1 conda-forge
fribidi 1.0.10 h36c2ea0_0 conda-forge
gcc_impl_linux-64 9.4.0 h03d3576_8 conda-forge
gcc_linux-64 9.4.0 h391b98a_1 conda-forge
gettext 0.21.0 hf68c758_0
gfortran_impl_linux-64 9.4.0 h0003116_8 conda-forge
gfortran_linux-64 9.4.0 hf0ab688_1 conda-forge
gmp 6.2.1 h58526e2_0 conda-forge
graphite2 1.3.14 h23475e2_0
gsl 2.6 he838d99_2 conda-forge
gxx_impl_linux-64 9.4.0 h03d3576_8 conda-forge
gxx_linux-64 9.4.0 h0316aca_1 conda-forge
harfbuzz 2.9.1 h83ec7ef_0 conda-forge
icu 68.1 h58526e2_0 conda-forge
jbig 2.1 h7f98852_2003 conda-forge
jpeg 9d h36c2ea0_0 conda-forge
kernel-headers_linux-64 2.6.32 he073ed8_14 conda-forge
krb5 1.19.2 hcc1bbae_0 conda-forge
ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge
lerc 2.2.1 h9c3ff4c_0 conda-forge
libblas 3.9.0 11_linux64_openblas conda-forge
libcblas 3.9.0 11_linux64_openblas conda-forge
libcurl 7.79.0 h2574ce0_0 conda-forge
libdeflate 1.7 h7f98852_5 conda-forge
libedit 3.1.20210714 h7f8727e_0
libev 4.33 h516909a_1 conda-forge
libffi 3.4.2 h9c3ff4c_2 conda-forge
libgcc 7.2.0 h69d50b8_2 conda-forge
libgcc-devel_linux-64 9.4.0 hd854feb_8 conda-forge
libgcc-ng 11.2.0 h1d223b6_8 conda-forge
libgfortran-ng 11.2.0 h69a702a_8 conda-forge
libgfortran5 11.2.0 h5c6108e_8 conda-forge
libglib 2.68.4 h174f98d_1 conda-forge
libgomp 11.2.0 h1d223b6_8 conda-forge
libiconv 1.16 h516909a_0 conda-forge
liblapack 3.9.0 11_linux64_openblas conda-forge
libnghttp2 1.43.0 h812cca2_0 conda-forge
libopenblas 0.3.17 pthreads_h8fe5266_1 conda-forge
libpng 1.6.37 h21135ba_2 conda-forge
libsanitizer 9.4.0 h79bfe98_8 conda-forge
libssh2 1.10.0 ha56f1ee_0 conda-forge
libstdcxx-devel_linux-64 9.4.0 hd854feb_8 conda-forge
libstdcxx-ng 11.2.0 he4da1e4_8 conda-forge
libtiff 4.3.0 hf544144_1 conda-forge
libuuid 2.32.1 h7f98852_1000 conda-forge
libwebp-base 1.2.1 h7f98852_0 conda-forge
libxcb 1.14 h7b6447c_0
libxml2 2.9.12 h72842e0_0 conda-forge
lz4-c 1.9.3 h9c3ff4c_1 conda-forge
make 4.3 hd18ef5c_1 conda-forge
ncurses 6.2 h58526e2_4 conda-forge
openssl 1.1.1l h7f98852_0 conda-forge
pango 1.48.10 hb8ff022_0 conda-forge
pcre 8.45 h9c3ff4c_0 conda-forge
pcre2 10.37 h032f7d1_0 conda-forge
pixman 0.40.0 h36c2ea0_0 conda-forge
r 4.1 r41hd8ed1ab_1004 conda-forge
r-abind 1.4_5 r41hc72bb7e_1003 conda-forge
r-askpass 1.1 r41hcfec24a_2 conda-forge
r-assertthat 0.2.1 r41hc72bb7e_2 conda-forge
r-backports 1.2.1 r41hcfec24a_0 conda-forge
r-base 4.1.0 hb67fd72_2 conda-forge
r-base64enc 0.1_3 r41hcfec24a_1004 conda-forge
r-bh 1.75.0_0 r41hc72bb7e_0 conda-forge
r-bitops 1.0_7 r41hcfec24a_0 conda-forge
r-boot 1.3_28 r41hc72bb7e_0 conda-forge
r-brio 1.1.2 r41hcfec24a_0 conda-forge
r-bslib 0.3.0 r41hc72bb7e_0 conda-forge
r-cachem 1.0.6 r41hcfec24a_0 conda-forge
r-callr 3.7.0 r41hc72bb7e_0 conda-forge
r-catools 1.18.2 r41h03ef668_0 conda-forge
r-class 7.3_19 r41hcfec24a_0 conda-forge
r-cli 3.0.1 r41h03ef668_1 conda-forge
r-cluster 2.1.2 r41h859d828_0 conda-forge
r-codetools 0.2_18 r41hc72bb7e_0 conda-forge
r-colorspace 2.0_2 r41hcfec24a_0 conda-forge
r-commonmark 1.7 r41hcfec24a_1002 conda-forge
r-cowplot 1.1.1 r41hc72bb7e_0 conda-forge
r-crayon 1.4.1 r41hc72bb7e_0 conda-forge
r-crosstalk 1.1.1 r41hc72bb7e_0 conda-forge
r-curl 4.3.2 r41hcfec24a_0 conda-forge
r-data.table 1.14.0 r41hcfec24a_0 conda-forge
r-deldir 0.2_10 r41h859d828_0 conda-forge
r-desc 1.3.0 r41hc72bb7e_0 conda-forge
r-diffobj 0.3.4 r41hcfec24a_0 conda-forge
r-digest 0.6.27 r41h03ef668_0 conda-forge
r-dplyr 1.0.7 r41h03ef668_0 conda-forge
r-dqrng 0.3.0 r41h03ef668_0 conda-forge
r-ellipsis 0.3.2 r41hcfec24a_0 conda-forge
r-evaluate 0.14 r41hc72bb7e_2 conda-forge
r-fansi 0.4.2 r41hcfec24a_0 conda-forge
r-farver 2.1.0 r41h03ef668_0 conda-forge
r-fastmap 1.1.0 r41h03ef668_0 conda-forge
r-fitdistrplus 1.1_5 r41hc72bb7e_0 conda-forge
r-fnn 1.1.3 r41h03ef668_2 conda-forge
r-foreign 0.8_81 r41hcfec24a_0 conda-forge
r-fs 1.5.0 r41h03ef668_0 conda-forge
r-future 1.22.1 r41hc72bb7e_0 conda-forge
r-future.apply 1.8.1 r41hc72bb7e_0 conda-forge
r-generics 0.1.0 r41hc72bb7e_0 conda-forge
r-ggplot2 3.3.5 r41hc72bb7e_0 conda-forge
r-ggrepel 0.9.1 r41h03ef668_0 conda-forge
r-ggridges 0.5.3 r41hc72bb7e_0 conda-forge
r-globals 0.14.0 r41hc72bb7e_0 conda-forge
r-glue 1.4.2 r41hcfec24a_0 conda-forge
r-goftest 1.2_2 r41hcfec24a_1 conda-forge
r-gplots 3.1.1 r41hc72bb7e_0 conda-forge
r-gridextra 2.3 r41hc72bb7e_1003 conda-forge
r-gtable 0.3.0 r41hc72bb7e_3 conda-forge
r-gtools 3.9.2 r41hcfec24a_0 conda-forge
r-here 1.0.1 r41hc72bb7e_0 conda-forge
r-hexbin 1.28.2 r41h859d828_0 conda-forge
r-htmltools 0.5.2 r41h03ef668_0 conda-forge
r-htmlwidgets 1.5.4 r41hc72bb7e_0 conda-forge
r-httpuv 1.6.3 r41h03ef668_0 conda-forge
r-httr 1.4.2 r41hc72bb7e_0 conda-forge
r-ica 1.0_2 r41hc72bb7e_2 conda-forge
r-igraph 1.2.6 r41he0372cf_1 conda-forge
r-irlba 2.3.3 r41he454529_3 conda-forge
r-isoband 0.2.5 r41h03ef668_0 conda-forge
r-jquerylib 0.1.4 r41hc72bb7e_0 conda-forge
r-jsonlite 1.7.2 r41hcfec24a_0 conda-forge
r-kernsmooth 2.23_20 r41h742201e_0 conda-forge
r-labeling 0.4.2 r41hc72bb7e_0 conda-forge
r-later 1.2.0 r41h03ef668_0 conda-forge
r-lattice 0.20_44 r41hcfec24a_0 conda-forge
r-lazyeval 0.2.2 r41hcfec24a_2 conda-forge
r-leiden 0.3.9 r41hc72bb7e_0 conda-forge
r-lifecycle 1.0.0 r41hc72bb7e_0 conda-forge
r-listenv 0.8.0 r41hc72bb7e_1 conda-forge
r-lmtest 0.9_38 r41h859d828_1 conda-forge
r-lsei 1.3_0 r41h92ddd45_1 conda-forge
r-magrittr 2.0.1 r41hcfec24a_1 conda-forge
r-mass 7.3_54 r41hcfec24a_0 conda-forge
r-matrix 1.3_4 r41he454529_0 conda-forge
r-matrixstats 0.61.0 r41hcfec24a_0 conda-forge
r-mgcv 1.8_36 r41he454529_0 conda-forge
r-mime 0.11 r41hcfec24a_0 conda-forge
r-miniui 0.1.1.1 r41hc72bb7e_1002 conda-forge
r-munsell 0.5.0 r41hc72bb7e_1003 conda-forge
r-nlme 3.1_153 r41h859d828_0 conda-forge
r-nnet 7.3_16 r41hcfec24a_0 conda-forge
r-npsurv 0.5_0 r41hc72bb7e_0 conda-forge
r-openssl 1.4.5 r41he36bf35_0 conda-forge
r-parallelly 1.28.1 r41hc72bb7e_0 conda-forge
r-patchwork 1.1.1 r41hc72bb7e_0 conda-forge
r-pbapply 1.5_0 r41hc72bb7e_0 conda-forge
r-pillar 1.6.2 r41hc72bb7e_0 conda-forge
r-pkgconfig 2.0.3 r41hc72bb7e_1 conda-forge
r-pkgload 1.2.2 r41h03ef668_0 conda-forge
r-plotly 4.9.4.1 r41hc72bb7e_1 conda-forge
r-plyr 1.8.6 r41h03ef668_1 conda-forge
r-png 0.1_7 r41hcfec24a_1004 conda-forge
r-polyclip 1.10_0 r41h03ef668_2 conda-forge
r-praise 1.0.0 r41hc72bb7e_1004 conda-forge
r-processx 3.5.2 r41hcfec24a_0 conda-forge
r-promises 1.2.0.1 r41h03ef668_0 conda-forge
r-ps 1.6.0 r41hcfec24a_0 conda-forge
r-purrr 0.3.4 r41hcfec24a_1 conda-forge
r-r6 2.5.1 r41hc72bb7e_0 conda-forge
r-rann 2.6.1 r41h03ef668_2 conda-forge
r-rappdirs 0.3.3 r41hcfec24a_0 conda-forge
r-rcolorbrewer 1.1_2 r41h785f33e_1003 conda-forge
r-rcpp 1.0.7 r41h03ef668_0 conda-forge
r-rcppannoy 0.0.19 r41h03ef668_0 conda-forge
r-rcpparmadillo 0.10.6.0.0 r41h306847c_0 conda-forge
r-rcppeigen 0.3.3.9.1 r41h306847c_0 conda-forge
r-rcppparallel 5.1.4 r41h03ef668_0 conda-forge
r-rcppprogress 0.4.2 r41hc72bb7e_1 conda-forge
r-recommended 4.1 r41hd8ed1ab_1004 conda-forge
r-rematch2 2.1.2 r41hc72bb7e_1 conda-forge
r-reshape2 1.4.4 r41h03ef668_1 conda-forge
r-reticulate 1.22 r41h03ef668_0 conda-forge
r-rlang 0.4.11 r41hcfec24a_0 conda-forge
r-rocr 1.0_11 r41hc72bb7e_1 conda-forge
r-rpart 4.1_15 r41hcfec24a_2 conda-forge
r-rprojroot 2.0.2 r41hc72bb7e_0 conda-forge
r-rspectra 0.16_0 r41h306847c_4 conda-forge
r-rstudioapi 0.13 r41hc72bb7e_0 conda-forge
r-rtsne 0.15 r41h6dc32e9_3 conda-forge
r-sass 0.4.0 r41h03ef668_0 conda-forge
r-scales 1.1.1 r41hc72bb7e_0 conda-forge
r-scattermore 0.7 r41hcfec24a_0 conda-forge
r-sctransform 0.3.2 r41h78ebb21_1 conda-forge
r-seurat 4.0.4 r41h03ef668_0 conda-forge
r-seuratobject 4.0.2 r41h03ef668_0 conda-forge
r-shiny 1.6.0 r41hc72bb7e_0 conda-forge
r-sitmo 2.0.1 r41h03ef668_2 conda-forge
r-sourcetools 0.1.7 r41h9c3ff4c_1002 conda-forge
r-spatial 7.3_14 r41hcfec24a_0 conda-forge
r-spatstat 2.2_0 r41hc72bb7e_0 conda-forge
r-spatstat.core 2.3_0 r41h03ef668_0 conda-forge
r-spatstat.data 2.1_0 r41hc72bb7e_0 conda-forge
r-spatstat.geom 2.2_2 r41hcfec24a_0 conda-forge
r-spatstat.linnet 2.3_0 r41hcfec24a_0 conda-forge
r-spatstat.sparse 2.0_0 r41hcfec24a_0 conda-forge
r-spatstat.utils 2.2_0 r41h7f98852_0 conda-forge
r-stringi 1.7.4 r41hcabe038_0 conda-forge
r-stringr 1.4.0 r41hc72bb7e_2 conda-forge
r-survival 3.2_13 r41hcfec24a_0 conda-forge
r-sys 3.4 r41hcfec24a_0 conda-forge
r-tensor 1.5 r41hc72bb7e_1003 conda-forge
r-testthat 3.0.4 r41h03ef668_0 conda-forge
r-tibble 3.1.4 r41hcfec24a_0 conda-forge
r-tidyr 1.1.3 r41h03ef668_0 conda-forge
r-tidyselect 1.1.1 r41hc72bb7e_0 conda-forge
r-utf8 1.2.2 r41hcfec24a_0 conda-forge
r-uwot 0.1.10 r41h03ef668_0 conda-forge
r-vctrs 0.3.8 r41hcfec24a_1 conda-forge
r-viridislite 0.4.0 r41hc72bb7e_0 conda-forge
r-waldo 0.3.1 r41hc72bb7e_0 conda-forge
r-withr 2.4.2 r41hc72bb7e_0 conda-forge
r-xtable 1.8_4 r41hc72bb7e_3 conda-forge
r-yaml 2.2.1 r41hcfec24a_1 conda-forge
r-zoo 1.8_9 r41hcfec24a_1 conda-forge
readline 8.1 h46c0cb4_0 conda-forge
sed 4.8 he412f7d_0 conda-forge
sysroot_linux-64 2.12 he073ed8_14 conda-forge
tk 8.6.11 h27826a3_1 conda-forge
tktable 2.10 hb7b940f_3 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-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
zlib 1.2.11 h516909a_1010 conda-forge
zstd 1.5.0 ha95c52a_0 conda-forge
I had a similar issue. My system had the correct GLIBCXX_3.4.26 version in /usr/lib/x86_64-linux-gnu/libstdc++.so.6, but my conda environment did not:
ImportError: /mnt/nfs/home/[my_username]/miniconda3/envs/myenv/bin/../lib/libstdc++.so.6: version `GLIBCXX_3.4.26' not found (required by /usr/lib/x86_64-linux-gnu/libLLVM-12.so.1)
In other similar questions' answers, many people suggested running
conda update libgcc
but my libgcc in my conda environment was already up to date, so this did not solve it.
The solution that fixed it for me was:
conda update libstdcxx-ng
(credit goes to the answer here: scipy not using anaconda's local lib for libgcc).
As far as I understand problem is that your binary first checks system path and you conda path may or may not be on a lookup list.
Following worked for me:
LD_LIBRARY_PATH=$LD_LIBRARY_PATH:<your lib path> <your binary>
I'm trying to visualize Bokeh plots and panels with a Bokeh backend in a notebook in JupyterLab. Things were running fine until I updated.
Current packages and versions are below
I have tried the following:
conda install jupyter_bokeh
conda install -c pyviz panel holoviews
conda install -c pyviz bokeh panel holoviews`
jupyter labextension install --no-build #jupyter-widgets/jupyterlab-manager`
jupyter lab clean
import bokeh.io
from bokeh.io import output_notebook
bokeh.io.output_notebook()
hv.extension('bokeh')
As well as the following from this question
from bokeh.resources import INLINE
import bokeh.io
from bokeh import *
bokeh.io.output_notebook(INLINE)
Here is a toy example from the post cited above. I do see BokehJS 2.2.3 successfully loaded, but the plot does not render. There is no other error. I've tried the toy example with various permutations of the above substituted for the first two lines with no effect.
from bokeh.io import output_notebook, show
from bokeh.plotting import figure
output_notebook()
p = figure(plot_width=400, plot_height=400)
p.circle([1, 2, 3, 4, 5], [6, 7, 2, 4, 5], size=15, line_color="navy",
fill_color="orange", fill_alpha=0.5)
show(p)
I'd really appreciate any insight - I'm still not great at upgrading Jupyter Labs and getting Bokeh/Panels to render properly in-line. Thank you
current installed packages:
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 1_gnu conda-forge
_r-mutex 1.0.1 anacondar_1 conda-forge
alsa-lib 1.2.3 h516909a_0 conda-forge
anyio 3.2.1 py38h578d9bd_0 conda-forge
argon2-cffi 20.1.0 py38h497a2fe_2 conda-forge
async_generator 1.10 py_0 conda-forge
attrs 20.3.0 pyhd3deb0d_0 conda-forge
babel 2.9.1 pyh44b312d_0 conda-forge
backcall 0.2.0 pyh9f0ad1d_0 conda-forge
backports 1.0 py_2 conda-forge
backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge
bibtexparser 1.1.0 py_0 conda-forge
binutils_impl_linux-64 2.35.1 h193b22a_2 conda-forge
binutils_linux-64 2.35 h67ddf6f_30 conda-forge
bioconductor-biobase 2.50.0 r40hd029910_1 bioconda
bioconductor-biocgenerics 0.36.0 r40hdfd78af_1 bioconda
bioconductor-biocparallel 1.24.1 r40h399db7b_0 bioconda
bioconductor-biostrings 2.58.0 r40hd029910_1 bioconda
bioconductor-dada2 1.18.0 r40h399db7b_1 bioconda
bioconductor-delayedarray 0.16.3 r40hd029910_0 bioconda
bioconductor-genomeinfodb 1.26.4 r40hdfd78af_0 bioconda
bioconductor-genomeinfodbdata 1.2.4 r40hdfd78af_2 bioconda
bioconductor-genomicalignments 1.26.0 r40hd029910_1 bioconda
bioconductor-genomicranges 1.42.0 r40hd029910_1 bioconda
bioconductor-iranges 2.24.1 r40hd029910_0 bioconda
bioconductor-matrixgenerics 1.2.1 r40hdfd78af_0 bioconda
bioconductor-rhtslib 1.22.0 r40hd029910_1 bioconda
bioconductor-rsamtools 2.6.0 r40h399db7b_1 bioconda
bioconductor-s4vectors 0.28.1 r40hd029910_0 bioconda
bioconductor-shortread 1.48.0 r40h399db7b_1 bioconda
bioconductor-summarizedexperiment 1.20.0 r40hdfd78af_1 bioconda
bioconductor-xvector 0.30.0 r40hd029910_1 bioconda
bioconductor-zlibbioc 1.36.0 r40hd029910_1 bioconda
biom-format 2.1.10 py38h0b5ebd8_0 conda-forge
blas 1.1 openblas conda-forge
blast 2.11.0 pl526he19e7b1_0 bioconda
bleach 3.3.0 pyh44b312d_0 conda-forge
bokeh 2.3.1 py38h578d9bd_0 conda-forge
bowtie2 2.4.2 py38hc2f83ea_2 bioconda
brotlipy 0.7.0 py38h497a2fe_1001 conda-forge
bwidget 1.9.14 ha770c72_0 conda-forge
bzip2 1.0.8 h7f98852_4 conda-forge
c-ares 1.17.1 h7f98852_1 conda-forge
ca-certificates 2021.5.30 ha878542_0 conda-forge
cachecontrol 0.12.6 py_0 conda-forge
cached-property 1.5.2 hd8ed1ab_1 conda-forge
cached_property 1.5.2 pyha770c72_1 conda-forge
cairo 1.16.0 h6cf1ce9_1008 conda-forge
certifi 2021.5.30 py38h578d9bd_0 conda-forge
cffi 1.14.5 py38ha65f79e_0 conda-forge
chardet 4.0.0 py38h578d9bd_1 conda-forge
click 7.1.2 pyh9f0ad1d_0 conda-forge
colorcet 2.0.6 py_0 pyviz
cryptography 3.4.7 py38ha5dfef3_0 conda-forge
curl 7.76.1 h979ede3_1 conda-forge
cutadapt 3.4 py38h4a8c8d9_1 bioconda
cycler 0.10.0 py_2 conda-forge
cython 0.29.23 py38h709712a_1 conda-forge
dbus 1.13.6 h48d8840_2 conda-forge
deblur 1.1.0 py_2 bioconda
decorator 4.4.2 py_0 conda-forge
defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge
dendropy 4.5.2 pyh3252c3a_0 bioconda
dnaio 0.5.0 py38h4a8c8d9_1 bioconda
emperor 1.0.3 py38h578d9bd_0 conda-forge
entrez-direct 13.9 pl5262he881be0_2 bioconda
entrypoints 0.3 pyhd8ed1ab_1003 conda-forge
expat 2.3.0 h9c3ff4c_0 conda-forge
fastcluster 1.1.26 py38hc5bc63f_2 conda-forge
fasttree 2.1.10 0 bioconda
font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge
font-ttf-inconsolata 3.000 h77eed37_0 conda-forge
font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge
font-ttf-ubuntu 0.83 hab24e00_0 conda-forge
fontconfig 2.13.1 hba837de_1005 conda-forge
fonts-conda-ecosystem 1 0 conda-forge
fonts-conda-forge 1 0 conda-forge
freetype 2.10.4 h0708190_1 conda-forge
fribidi 1.0.10 h36c2ea0_0 conda-forge
future 0.18.2 py38h578d9bd_3 conda-forge
gcc_impl_linux-64 9.3.0 h70c0ae5_19 conda-forge
gcc_linux-64 9.3.0 hf25ea35_30 conda-forge
gettext 0.19.8.1 h0b5b191_1005 conda-forge
gfortran_impl_linux-64 9.3.0 hc4a2995_19 conda-forge
gfortran_linux-64 9.3.0 hdc58fab_30 conda-forge
glib 2.68.1 h9c3ff4c_0 conda-forge
glib-tools 2.68.1 h9c3ff4c_0 conda-forge
gneiss 0.4.6 py_0 bioconda
graphite2 1.3.13 h58526e2_1001 conda-forge
gsl 2.6 he838d99_2 conda-forge
gst-plugins-base 1.18.4 hf529b03_2 conda-forge
gstreamer 1.18.4 h76c114f_2 conda-forge
gxx_impl_linux-64 9.3.0 hd87eabc_19 conda-forge
gxx_linux-64 9.3.0 h3fbe746_30 conda-forge
h5py 3.2.1 nompi_py38h9915d05_100 conda-forge
harfbuzz 2.8.0 h83ec7ef_1 conda-forge
hdf5 1.10.6 nompi_h6a2412b_1114 conda-forge
hdmedians 0.14.2 py38h5c078b8_0 conda-forge
hmmer 3.1b2 3 bioconda
holoviews 1.14.4 py_0 pyviz
htslib 1.12 h9093b5e_1 bioconda
icu 68.1 h58526e2_0 conda-forge
idna 2.10 pyh9f0ad1d_0 conda-forge
ijson 3.1.3 pyhd3deb0d_0 conda-forge
importlib-metadata 3.10.1 py38h578d9bd_0 conda-forge
iniconfig 1.1.1 pyh9f0ad1d_0 conda-forge
ipykernel 5.5.3 py38hd0cf306_0 conda-forge
ipython 7.22.0 py38hd0cf306_0 conda-forge
ipython_genutils 0.2.0 py_1 conda-forge
ipywidgets 7.6.3 pyhd3deb0d_0 conda-forge
iqtree 2.1.2 h56fc30b_0 bioconda
isa-l 2.30.0 ha770c72_4 conda-forge
jedi 0.18.0 py38h578d9bd_2 conda-forge
jinja2 2.11.3 pyh44b312d_0 conda-forge
joblib 1.0.1 pyhd8ed1ab_0 conda-forge
jpeg 9d h36c2ea0_0 conda-forge
json5 0.9.5 pyh9f0ad1d_0 conda-forge
jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge
jupyter_bokeh 3.0.2 pyhd8ed1ab_0 conda-forge
jupyter_client 6.1.12 pyhd8ed1ab_0 conda-forge
jupyter_core 4.7.1 py38h578d9bd_0 conda-forge
jupyter_server 1.9.0 pyhd8ed1ab_0 conda-forge
jupyterlab 3.0.16 pyhd8ed1ab_0 conda-forge
jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge
jupyterlab_server 2.6.1 pyhd8ed1ab_0 conda-forge
jupyterlab_widgets 1.0.0 pyhd8ed1ab_1 conda-forge
kernel-headers_linux-64 2.6.32 h77966d4_13 conda-forge
kiwisolver 1.3.1 py38h1fd1430_1 conda-forge
krb5 1.17.2 h926e7f8_0 conda-forge
lcms2 2.12 hddcbb42_0 conda-forge
ld_impl_linux-64 2.35.1 hea4e1c9_2 conda-forge
libblas 3.9.0 8_openblas conda-forge
libcblas 3.9.0 8_openblas conda-forge
libclang 11.1.0 default_ha53f305_1 conda-forge
libcurl 7.76.1 hc4aaa36_1 conda-forge
libdeflate 1.7 h7f98852_5 conda-forge
libedit 3.1.20191231 he28a2e2_2 conda-forge
libev 4.33 h516909a_1 conda-forge
libevent 2.1.10 hcdb4288_3 conda-forge
libffi 3.3 h58526e2_2 conda-forge
libgcc 7.2.0 h69d50b8_2 conda-forge
libgcc-devel_linux-64 9.3.0 h7864c58_19 conda-forge
libgcc-ng 9.3.0 h2828fa1_19 conda-forge
libgfortran-ng 9.3.0 hff62375_19 conda-forge
libgfortran5 9.3.0 hff62375_19 conda-forge
libglib 2.68.1 h3e27bee_0 conda-forge
libgomp 9.3.0 h2828fa1_19 conda-forge
libiconv 1.16 h516909a_0 conda-forge
liblapack 3.9.0 8_openblas conda-forge
libllvm11 11.1.0 hf817b99_2 conda-forge
libnghttp2 1.43.0 h812cca2_0 conda-forge
libogg 1.3.4 h7f98852_1 conda-forge
libopenblas 0.3.12 pthreads_h4812303_1 conda-forge
libopus 1.3.1 h7f98852_1 conda-forge
libpng 1.6.37 h21135ba_2 conda-forge
libpq 13.1 hfd2b0eb_2 conda-forge
libsodium 1.0.18 h36c2ea0_1 conda-forge
libssh2 1.9.0 ha56f1ee_6 conda-forge
libstdcxx-devel_linux-64 9.3.0 hb016644_19 conda-forge
libstdcxx-ng 9.3.0 h6de172a_19 conda-forge
libtiff 4.2.0 hbd63e13_2 conda-forge
libuuid 2.32.1 h7f98852_1000 conda-forge
libuv 1.41.0 h7f98852_0 conda-forge
libvorbis 1.3.7 h9c3ff4c_0 conda-forge
libwebp-base 1.2.0 h7f98852_2 conda-forge
libxcb 1.13 h7f98852_1003 conda-forge
libxkbcommon 1.0.3 he3ba5ed_0 conda-forge
libxml2 2.9.10 h72842e0_4 conda-forge
libxslt 1.1.33 h15afd5d_2 conda-forge
lockfile 0.12.2 py_1 conda-forge
lxml 4.6.3 py38hf1fe3a4_0 conda-forge
lz4 3.1.3 py38hebdc3cf_0 conda-forge
lz4-c 1.9.3 h9c3ff4c_0 conda-forge
mafft 7.475 h779adbc_1 bioconda
make 4.3 hd18ef5c_1 conda-forge
markdown 3.3.4 pyhd8ed1ab_0 conda-forge
markupsafe 1.1.1 py38h497a2fe_3 conda-forge
matplotlib 3.4.1 py38h578d9bd_0 conda-forge
matplotlib-base 3.4.1 py38hcc49a3a_0 conda-forge
mistune 0.8.4 py38h497a2fe_1004 conda-forge
more-itertools 8.7.0 pyhd8ed1ab_1 conda-forge
msgpack-python 1.0.2 py38h1fd1430_1 conda-forge
mysql-common 8.0.23 ha770c72_2 conda-forge
mysql-libs 8.0.23 h935591d_2 conda-forge
natsort 7.1.1 pyhd8ed1ab_0 conda-forge
nbclassic 0.3.1 pyhd8ed1ab_1 conda-forge
nbclient 0.5.3 pyhd8ed1ab_0 conda-forge
nbconvert 6.0.7 py38h578d9bd_3 conda-forge
nbformat 5.1.3 pyhd8ed1ab_0 conda-forge
ncurses 6.2 h58526e2_4 conda-forge
nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge
networkx 2.5.1 pyhd8ed1ab_0 conda-forge
nodejs 15.14.0 h92b4a50_0 conda-forge
nose 1.3.7 py_1006 conda-forge
notebook 6.3.0 pyha770c72_1 conda-forge
nspr 4.30 h9c3ff4c_0 conda-forge
nss 3.64 hb5efdd6_0 conda-forge
numpy 1.20.2 py38h9894fe3_0 conda-forge
olefile 0.46 pyh9f0ad1d_1 conda-forge
openblas 0.3.12 pthreads_h04b7a96_1 conda-forge
openjdk 11.0.1 h516909a_1016 conda-forge
openjpeg 2.4.0 hb52868f_1 conda-forge
openssl 1.1.1k h7f98852_0 conda-forge
packaging 20.9 pyh44b312d_0 conda-forge
pandas 1.2.4 py38h1abd341_0 conda-forge
pandoc 2.12 h7f98852_0 conda-forge
pandocfilters 1.4.2 py_1 conda-forge
panel 0.11.3 py_0 pyviz
pango 1.48.4 hb8ff022_1 conda-forge
param 1.11.1 py_0 pyviz
parso 0.8.2 pyhd8ed1ab_0 conda-forge
patsy 0.5.1 py_0 conda-forge
pcre 8.44 he1b5a44_0 conda-forge
pcre2 10.36 h032f7d1_1 conda-forge
perl 5.26.2 h36c2ea0_1008 conda-forge
perl-app-cpanminus 1.7044 pl526_1 bioconda
perl-archive-tar 2.32 pl526_0 bioconda
perl-base 2.23 pl526_1 bioconda
perl-business-isbn 3.004 pl526_0 bioconda
perl-business-isbn-data 20140910.003 pl526_0 bioconda
perl-carp 1.38 pl526_3 bioconda
perl-common-sense 3.74 pl526_2 bioconda
perl-compress-raw-bzip2 2.087 pl526he1b5a44_0 bioconda
perl-compress-raw-zlib 2.087 pl526hc9558a2_0 bioconda
perl-constant 1.33 pl526_1 bioconda
perl-data-dumper 2.173 pl526_0 bioconda
perl-digest-hmac 1.03 pl526_3 bioconda
perl-digest-md5 2.55 pl526_0 bioconda
perl-encode 2.88 pl526_1 bioconda
perl-encode-locale 1.05 pl526_6 bioconda
perl-exporter 5.72 pl526_1 bioconda
perl-exporter-tiny 1.002001 pl526_0 bioconda
perl-extutils-makemaker 7.36 pl526_1 bioconda
perl-file-listing 6.04 pl526_1 bioconda
perl-file-path 2.16 pl526_0 bioconda
perl-file-temp 0.2304 pl526_2 bioconda
perl-html-parser 3.72 pl526h6bb024c_5 bioconda
perl-html-tagset 3.20 pl526_3 bioconda
perl-html-tree 5.07 pl526_1 bioconda
perl-http-cookies 6.04 pl526_0 bioconda
perl-http-daemon 6.01 pl526_1 bioconda
perl-http-date 6.02 pl526_3 bioconda
perl-http-message 6.18 pl526_0 bioconda
perl-http-negotiate 6.01 pl526_3 bioconda
perl-io-compress 2.087 pl526he1b5a44_0 bioconda
perl-io-html 1.001 pl526_2 bioconda
perl-io-socket-ssl 2.066 pl526_0 bioconda
perl-io-zlib 1.10 pl526_2 bioconda
perl-json 4.02 pl526_0 bioconda
perl-json-xs 2.34 pl526h6bb024c_3 bioconda
perl-libwww-perl 6.39 pl526_0 bioconda
perl-list-moreutils 0.428 pl526_1 bioconda
perl-list-moreutils-xs 0.428 pl526_0 bioconda
perl-lwp-mediatypes 6.04 pl526_0 bioconda
perl-lwp-protocol-https 6.07 pl526_4 bioconda
perl-mime-base64 3.15 pl526_1 bioconda
perl-mozilla-ca 20180117 pl526_1 bioconda
perl-net-http 6.19 pl526_0 bioconda
perl-net-ssleay 1.88 pl526h90d6eec_0 bioconda
perl-ntlm 1.09 pl526_4 bioconda
perl-parent 0.236 pl526_1 bioconda
perl-pathtools 3.75 pl526h14c3975_1 bioconda
perl-scalar-list-utils 1.52 pl526h516909a_0 bioconda
perl-socket 2.027 pl526_1 bioconda
perl-storable 3.15 pl526h14c3975_0 bioconda
perl-test-requiresinternet 0.05 pl526_0 bioconda
perl-time-local 1.28 pl526_1 bioconda
perl-try-tiny 0.30 pl526_1 bioconda
perl-types-serialiser 1.0 pl526_2 bioconda
perl-uri 1.76 pl526_0 bioconda
perl-www-robotrules 6.02 pl526_3 bioconda
perl-xml-namespacesupport 1.12 pl526_0 bioconda
perl-xml-parser 2.44_01 pl5262hc3e0081_1002 conda-forge
perl-xml-sax 1.02 pl526_0 bioconda
perl-xml-sax-base 1.09 pl526_0 bioconda
perl-xml-sax-expat 0.51 pl526_3 bioconda
perl-xml-simple 2.25 pl526_1 bioconda
perl-xsloader 0.24 pl526_0 bioconda
pexpect 4.8.0 pyh9f0ad1d_2 conda-forge
pickleshare 0.7.5 py_1003 conda-forge
pigz 2.6 h27826a3_0 conda-forge
pillow 8.1.2 py38ha0e1e83_1 conda-forge
pip 21.0.1 pyhd8ed1ab_0 conda-forge
pixman 0.40.0 h36c2ea0_0 conda-forge
pluggy 0.13.1 py38h578d9bd_4 conda-forge
prometheus_client 0.10.1 pyhd8ed1ab_0 conda-forge
prompt-toolkit 3.0.18 pyha770c72_0 conda-forge
psutil 5.8.0 py38h497a2fe_1 conda-forge
pthread-stubs 0.4 h36c2ea0_1001 conda-forge
ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge
py 1.10.0 pyhd3deb0d_0 conda-forge
pycparser 2.20 pyh9f0ad1d_2 conda-forge
pyct 0.4.8 py_0 pyviz
pyct-core 0.4.8 py_0 pyviz
pygments 2.8.1 pyhd8ed1ab_0 conda-forge
pyopenssl 20.0.1 pyhd8ed1ab_0 conda-forge
pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge
pyqt 5.12.3 py38h578d9bd_7 conda-forge
pyqt-impl 5.12.3 py38h7400c14_7 conda-forge
pyqt5-sip 4.19.18 py38h709712a_7 conda-forge
pyqtchart 5.12 py38h7400c14_7 conda-forge
pyqtwebengine 5.12.1 py38h7400c14_7 conda-forge
pyrsistent 0.17.3 py38h497a2fe_2 conda-forge
pysocks 1.7.1 py38h578d9bd_3 conda-forge
pytest 6.2.3 py38h578d9bd_0 conda-forge
python 3.8.8 hffdb5ce_0_cpython conda-forge
python-dateutil 2.8.1 py_0 conda-forge
python-isal 0.10.0 py38h497a2fe_0 conda-forge
python_abi 3.8 2_cp38 conda-forge
pytz 2021.1 pyhd8ed1ab_0 conda-forge
pyviz_comms 2.1.0 py_0 pyviz
pyyaml 5.4.1 py38h497a2fe_0 conda-forge
pyzmq 22.0.3 py38h2035c66_1 conda-forge
qiime2 2021.4.0 py38_0 qiime2/label/r2021.4
qt 5.12.9 hda022c4_4 conda-forge
raxml 8.2.12 h779adbc_3 bioconda
readline 8.1 h46c0cb4_0 conda-forge
requests 2.25.1 pyhd3deb0d_0 conda-forge
requests-unixsocket 0.2.0 py_0 conda-forge
samtools 1.12 h9aed4be_1 bioconda
scikit-bio 0.5.6 py38h0b5ebd8_4 conda-forge
scikit-learn 0.24.1 py38h658cfdd_0 conda-forge
scipy 1.6.2 py38h7b17777_0 conda-forge
seaborn 0.11.1 hd8ed1ab_1 conda-forge
seaborn-base 0.11.1 pyhd8ed1ab_1 conda-forge
sed 4.8 he412f7d_0 conda-forge
send2trash 1.5.0 py_0 conda-forge
sepp 4.3.10 py38h3252c3a_2 bioconda
setuptools 49.6.0 py38h578d9bd_3 conda-forge
six 1.15.0 pyh9f0ad1d_0 conda-forge
sniffio 1.2.0 py38h578d9bd_1 conda-forge
sortmerna 2.0 he860b03_4 bioconda
sqlite 3.35.4 h74cdb3f_0 conda-forge
statsmodels 0.12.2 py38h5c078b8_0 conda-forge
sysroot_linux-64 2.12 h77966d4_13 conda-forge
tbb 2020.2 h4bd325d_4 conda-forge
terminado 0.9.4 py38h578d9bd_0 conda-forge
testpath 0.4.4 py_0 conda-forge
threadpoolctl 2.1.0 pyh5ca1d4c_0 conda-forge
tk 8.6.10 h21135ba_1 conda-forge
tktable 2.10 hb7b940f_3 conda-forge
toml 0.10.2 pyhd8ed1ab_0 conda-forge
tornado 6.1 py38h497a2fe_1 conda-forge
tqdm 4.61.2 pyhd8ed1ab_1 conda-forge
traitlets 5.0.5 py_0 conda-forge
typing_extensions 3.7.4.3 py_0 conda-forge
tzlocal 2.1 pyh9f0ad1d_0 conda-forge
unifrac 0.20.2 py38hc37a69a_1 bioconda
urllib3 1.26.4 pyhd8ed1ab_0 conda-forge
vsearch 2.7.0 1 bioconda
wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge
webencodings 0.5.1 py_1 conda-forge
websocket-client 0.57.0 py38h578d9bd_4 conda-forge
wheel 0.36.2 pyhd3deb0d_0 conda-forge
widgetsnbextension 3.5.1 py38h578d9bd_4 conda-forge
xopen 1.1.0 py38h578d9bd_3 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 1.7.0 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
yaml 0.2.5 h516909a_0 conda-forge
zeromq 4.3.4 h9c3ff4c_0 conda-forge
zipp 3.4.1 pyhd8ed1ab_0 conda-forge
zlib 1.2.11 h516909a_1010 conda-forge
zstd 1.4.9 ha95c52a_0 conda-forge
What is the best way to install talos because whenever i am installing talos i am getting error as
[I 10:35:48.748 NotebookApp] Adapting to protocol v5.1 for kernel 7e583387-30ab-46fa-92b3-9aa67ee40139
[E 10:35:48.752 NotebookApp] Uncaught exception in /api/kernels/7e583387-30ab-46fa-92b3-9aa67ee40139/channels
Traceback (most recent call last):
File "C:\ProgramData\Anaconda3\lib\site-packages\tornado\websocket.py", line 498, in _run_callback
result = callback(*args, **kwargs)
File "C:\Users\User\AppData\Roaming\Python\Python36\site-packages\notebook\services\kernels\handlers.py", line 258, in open
super(ZMQChannelsHandler, self).open()
File "C:\Users\User\AppData\Roaming\Python\Python36\site-packages\notebook\base\zmqhandlers.py", line 168, in open
self.send_ping, self.ping_interval, io_loop=loop,
TypeError: __init__() got an unexpected keyword argument 'io_loop'
I have been using google colab for sometime but i recently switched back to jupyter notebook for my project.
I remember i installed "Anaconda3-5.2.0-Windows-x86_64" on my windows 10 Laptop
List of packages:
(base) C:\Windows\system32>conda list
# packages in environment at C:\Users\XXXX\Anaconda3:
#
# Name Version Build Channel
_ipyw_jlab_nb_ext_conf 0.1.0 py36he6757f0_0
alabaster 0.7.10 py36hcd07829_0
anaconda 5.2.0 py36_3
anaconda-client 1.6.14 py36_0
anaconda-navigator 1.8.7 py36_0
anaconda-project 0.8.2 py36hfad2e28_0
asn1crypto 0.24.0 py36_0
astroid 1.6.3 py36_0
astropy 3.0.2 py36h452e1ab_1
attrs 18.1.0 py36_0
babel 2.5.3 py36_0
backcall 0.1.0 py36_0
backports 1.0 py36h81696a8_1
backports.shutil_get_terminal_size 1.0.0 py36h79ab834_2
beautifulsoup4 4.6.0 py36hd4cc5e8_1
bitarray 0.8.1 py36hfa6e2cd_1
bkcharts 0.2 py36h7e685f7_0
blas 1.0 mkl
blaze 0.11.3 py36h8a29ca5_0
bleach 2.1.3 py36_0
blosc 1.14.3 he51fdeb_0
bokeh 0.12.16 py36_0
boto 2.48.0 py36h1a776d2_1
bottleneck 1.2.1 py36hd119dfa_0
bzip2 1.0.6 hfa6e2cd_5
ca-certificates 2018.03.07 0
certifi 2018.4.16 py36_0
cffi 1.11.5 py36h945400d_0
chardet 3.0.4 py36h420ce6e_1
click 6.7 py36hec8c647_0
cloudpickle 0.5.3 py36_0
clyent 1.2.2 py36hb10d595_1
colorama 0.3.9 py36h029ae33_0
comtypes 1.1.4 py36_0
conda 4.5.4 py36_0
conda-build 3.10.5 py36_0
conda-env 2.6.0 h36134e3_1
conda-verify 2.0.0 py36h065de53_0
console_shortcut 0.1.1 h6bb2dd7_3
contextlib2 0.5.5 py36he5d52c0_0
cryptography 2.2.2 py36hfa6e2cd_0
curl 7.60.0 h7602738_0
cycler 0.10.0 py36h009560c_0
cython 0.28.2 py36hfa6e2cd_0
cytoolz 0.9.0.1 py36hfa6e2cd_0
dask 0.17.5 py36_0
dask-core 0.17.5 py36_0
datashape 0.5.4 py36h5770b85_0
decorator 4.3.0 py36_0
distributed 1.21.8 py36_0
docutils 0.14 py36h6012d8f_0
entrypoints 0.2.3 py36hfd66bb0_2
et_xmlfile 1.0.1 py36h3d2d736_0
fastcache 1.0.2 py36hfa6e2cd_2
filelock 3.0.4 py36_0
flask 1.0.2 py36_1
flask-cors 3.0.4 py36_0
freetype 2.8 h51f8f2c_1
get_terminal_size 1.0.0 h38e98db_0
gevent 1.3.0 py36hfa6e2cd_0
glob2 0.6 py36hdf76b57_0
greenlet 0.4.13 py36hfa6e2cd_0
h5py 2.7.1 py36h3bdd7fb_2
hdf5 1.10.2 hac2f561_1
heapdict 1.0.0 py36_2
html5lib 1.0.1 py36h047fa9f_0
icc_rt 2017.0.4 h97af966_0
icu 58.2 ha66f8fd_1
idna 2.6 py36h148d497_1
imageio 2.3.0 py36_0
imagesize 1.0.0 py36_0
intel-openmp 2018.0.0 8
ipykernel 4.8.2 py36_0
ipython 6.4.0 py36_0
ipython_genutils 0.2.0 py36h3c5d0ee_0
ipywidgets 7.2.1 py36_0
isort 4.3.4 py36_0
itsdangerous 0.24 py36hb6c5a24_1
jdcal 1.4 py36_0
jedi 0.12.0 py36_1
jinja2 2.10 py36h292fed1_0
jpeg 9b hb83a4c4_2
jsonschema 2.6.0 py36h7636477_0
jupyter 1.0.0 py36_4
jupyter_client 5.2.3 py36_0
jupyter_console 5.2.0 py36h6d89b47_1
jupyter_core 4.4.0 py36h56e9d50_0
jupyterlab 0.32.1 py36_0
jupyterlab_launcher 0.10.5 py36_0
kiwisolver 1.0.1 py36h12c3424_0
lazy-object-proxy 1.3.1 py36hd1c21d2_0
libcurl 7.60.0 hc4dcbb0_0
libiconv 1.15 h1df5818_7
libpng 1.6.34 h79bbb47_0
libsodium 1.0.16 h9d3ae62_0
libssh2 1.8.0 hd619d38_4
libtiff 4.0.9 hb8ad9f9_1
libxml2 2.9.8 hadb2253_1
libxslt 1.1.32 hf6f1972_0
llvmlite 0.23.1 py36hcacf6c6_0
locket 0.2.0 py36hfed976d_1
lxml 4.2.1 py36heafd4d3_0
lzo 2.10 h6df0209_2
m2w64-gcc-libgfortran 5.3.0 6
m2w64-gcc-libs 5.3.0 7
m2w64-gcc-libs-core 5.3.0 7
m2w64-gmp 6.1.0 2
m2w64-libwinpthread-git 5.0.0.4634.697f757 2
markupsafe 1.0 py36h0e26971_1
matplotlib 2.2.2 py36h153e9ff_1
mccabe 0.6.1 py36hb41005a_1
menuinst 1.4.14 py36hfa6e2cd_0
mistune 0.8.3 py36hfa6e2cd_1
mkl 2018.0.2 1
mkl-service 1.1.2 py36h57e144c_4
mkl_fft 1.0.1 py36h452e1ab_0
mkl_random 1.0.1 py36h9258bd6_0
more-itertools 4.1.0 py36_0
mpmath 1.0.0 py36hacc8adf_2
msgpack-python 0.5.6 py36he980bc4_0
msys2-conda-epoch 20160418 1
multipledispatch 0.5.0 py36_0
navigator-updater 0.2.1 py36_0
nbconvert 5.3.1 py36h8dc0fde_0
nbformat 4.4.0 py36h3a5bc1b_0
networkx 2.1 py36_0
nltk 3.3.0 py36_0
nose 1.3.7 py36h1c3779e_2
notebook 5.5.0 py36_0
numba 0.38.0 py36h830ac7b_0
numexpr 2.6.5 py36hcd2f87e_0
numpy 1.14.3 py36h9fa60d3_1
numpy-base 1.14.3 py36h555522e_1
numpydoc 0.8.0 py36_0
odo 0.5.1 py36h7560279_0
olefile 0.45.1 py36_0
openpyxl 2.5.3 py36_0
openssl 1.0.2o h8ea7d77_0
packaging 17.1 py36_0
pandas 0.23.0 py36h830ac7b_0
pandoc 1.19.2.1 hb2460c7_1
pandocfilters 1.4.2 py36h3ef6317_1
parso 0.2.0 py36_0
partd 0.3.8 py36hc8e763b_0
path.py 11.0.1 py36_0
pathlib2 2.3.2 py36_0
patsy 0.5.0 py36_0
pep8 1.7.1 py36_0
pickleshare 0.7.4 py36h9de030f_0
pillow 5.1.0 py36h0738816_0
pip 10.0.1 py36_0
pkginfo 1.4.2 py36_1
pluggy 0.6.0 py36hc7daf1e_0
ply 3.11 py36_0
prompt_toolkit 1.0.15 py36h60b8f86_0
psutil 5.4.5 py36hfa6e2cd_0
py 1.5.3 py36_0
pycodestyle 2.4.0 py36_0
pycosat 0.6.3 py36h413d8a4_0
pycparser 2.18 py36hd053e01_1
pycrypto 2.6.1 py36hfa6e2cd_8
pycurl 7.43.0.1 py36h74b6da3_0
pyflakes 1.6.0 py36h0b975d6_0
pygments 2.2.0 py36hb010967_0
pylint 1.8.4 py36_0
pyodbc 4.0.23 py36h6538335_0
pyopenssl 18.0.0 py36_0
pyparsing 2.2.0 py36h785a196_1
pyqt 5.9.2 py36h1aa27d4_0
pysocks 1.6.8 py36_0
pytables 3.4.3 py36he6f6034_1
pytest 3.5.1 py36_0
pytest-arraydiff 0.2 py36_0
pytest-astropy 0.3.0 py36_0
pytest-doctestplus 0.1.3 py36_0
pytest-openfiles 0.3.0 py36_0
pytest-remotedata 0.2.1 py36_0
python 3.6.5 h0c2934d_0
python-dateutil 2.7.3 py36_0
pytz 2018.4 py36_0
pywavelets 0.5.2 py36hc649158_0
pywin32 223 py36hfa6e2cd_1
pywinpty 0.5.1 py36_0
pyyaml 3.12 py36h1d1928f_1
pyzmq 17.0.0 py36hfa6e2cd_1
qt 5.9.5 vc14he4a7d60_0 [vc14]
qtawesome 0.4.4 py36h5aa48f6_0
qtconsole 4.3.1 py36h99a29a9_0
qtpy 1.4.1 py36_0
requests 2.18.4 py36h4371aae_1
rope 0.10.7 py36had63a69_0
ruamel_yaml 0.15.35 py36hfa6e2cd_1
scikit-image 0.13.1 py36hfa6e2cd_1
scikit-learn 0.19.1 py36h53aea1b_0
scipy 1.1.0 py36h672f292_0
seaborn 0.8.1 py36h9b69545_0
send2trash 1.5.0 py36_0
setuptools 39.1.0 py36_0
simplegeneric 0.8.1 py36_2
singledispatch 3.4.0.3 py36h17d0c80_0
sip 4.19.8 py36h6538335_0
six 1.11.0 py36h4db2310_1
snappy 1.1.7 h777316e_3
snowballstemmer 1.2.1 py36h763602f_0
sortedcollections 0.6.1 py36_0
sortedcontainers 1.5.10 py36_0
sphinx 1.7.4 py36_0
sphinxcontrib 1.0 py36hbbac3d2_1
sphinxcontrib-websupport 1.0.1 py36hb5e5916_1
spyder 3.2.8 py36_0
sqlalchemy 1.2.7 py36ha85dd04_0
sqlite 3.23.1 h35aae40_0
statsmodels 0.9.0 py36h452e1ab_0
sympy 1.1.1 py36h96708e0_0
tblib 1.3.2 py36h30f5020_0
terminado 0.8.1 py36_1
testpath 0.3.1 py36h2698cfe_0
tk 8.6.7 hcb92d03_3
toolz 0.9.0 py36_0
tornado 5.0.2 py36_0
traitlets 4.3.2 py36h096827d_0
typing 3.6.4 py36_0
unicodecsv 0.14.1 py36h6450c06_0
urllib3 1.22 py36h276f60a_0
vc 14 h0510ff6_3
vs2015_runtime 14.0.25123 3
wcwidth 0.1.7 py36h3d5aa90_0
webencodings 0.5.1 py36h67c50ae_1
werkzeug 0.14.1 py36_0
wheel 0.31.1 py36_0
widgetsnbextension 3.2.1 py36_0
win_inet_pton 1.0.1 py36he67d7fd_1
win_unicode_console 0.5 py36hcdbd4b5_0
wincertstore 0.2 py36h7fe50ca_0
winpty 0.4.3 4
wrapt 1.10.11 py36he5f5981_0
xlrd 1.1.0 py36h1cb58dc_1
xlsxwriter 1.0.4 py36_0
xlwings 0.11.8 py36_0
xlwt 1.3.0 py36h1a4751e_0
yaml 0.1.7 hc54c509_2
zeromq 4.2.5 hc6251cf_0
zict 0.1.3 py36h2d8e73e_0
zlib 1.2.11 h8395fce_2
I am very sure there is some version problem.
If you can suggest me what version of ananconda to install i will remove my all old packages using 'Uninstall-Anaconda3.exe' under C:\Users\XXXX\Anaconda3
Oh i forgot i have tried installing talos by
pip install talos
pip install git+https://github.com/autonomio/talos.git#daily-dev
After a fresh install of Anaconda 2.4.0/Python 3.5 on a 64-bit Windows 7, I can display a matplotlib window, but a brush of the mouse pointer over the window crashes ipython / python.
Python 3.5.0 |Anaconda 2.4.0 (64-bit)| (default, Oct 20 2015, 07:26:33) [MSC v.1900 64 bit (AMD64)]
Type "copyright", "credits" or "license" for more information.
? -> Introduction and overview of IPython's features.
%quickref -> Quick reference.
help -> Python's own help system.
object? -> Details about 'object', use 'object??' for extra details.
IPython 4.0.0 -- An enhanced Interactive Python.
In[1]: import matplotlib.pyplot as plt
import numpy.random
a = numpy.random.rand(500,1)
plt.plot(a)
plt.show()
Backend Qt4Agg is interactive backend. Turning interactive mode on.
Process finished with exit code -1073741819 (0xC0000005)
python3.exe, ipython.exe, and the PyCharm Ipython console all fail. Spyder Ipython console and Jupyter Qt console both can survive a matplotlib window.
All Interpreters point to the Anaconda 2.4.0 only install of python3 on the computer.
Ipython manages to get the following before a recursion limit is reached :
C:\Users\owinter\AppData\Local\Continuum\Anaconda3\ipython.exe E:\owinter\PYTHON\echo\sandbox\test_matplotlib.py
In [6]: Readline internal error
Traceback (most recent call last):
File "C:\Users\owinter\AppData\Local\Continuum\Anaconda3\lib\seadline\console\console.py", line 768, in hook_wrapper_23
res = ensure_str(readline_hook(prompt))
File "C:\Users\owinter\AppData\Local\Continuum\Anaconda3\lib\seadline\rlmain.py", line 571, in readline
self._readline_from_keyboard()
File "C:\Users\owinter\AppData\Local\Continuum\Anaconda3\lib\seadline\rlmain.py", line 536, in _readline_from_keyboard
if self._readline_from_keyboard_poll():
File "C:\Users\owinter\AppData\Local\Continuum\Anaconda3\lib\seadline\rlmain.py", line 552, in _readline_from_keyboard_poll
event = c.getkeypress()
File "C:\Users\owinter\AppData\Local\Continuum\Anaconda3\lib\seadline\console\console.py", line 524, in getkeypress
e = self.get()
File "C:\Users\owinter\AppData\Local\Continuum\Anaconda3\lib\seadline\console\console.py", line 514, in get
call_function(inputHookFunc, ())
OSError: exception: access violation reading 0x0000000000434DB8
Attached is the package list, unaltered and fresh from the Anaconda install
C:\Users\owinter>conda list
# packages in environment at C:\Users\owinter\AppData\Local\Continuu
#
alabaster 0.7.6 py35_0
anaconda 2.4.0 np110py35_0
anaconda-client 1.1.0 py35_0
argcomplete 1.0.0 py35_1
astropy 1.0.5 np110py35_1
babel 2.1.1 py35_0
beautifulsoup4 4.4.1 py35_0
bitarray 0.8.1 py35_1
blaze 0.8.3 <pip>
blaze-core 0.8.3 py35_0
bokeh 0.10.0 py35_0
boto 2.38.0 py35_0
bzip2 1.0.6 vc14_2 [vc14]
cffi 1.2.1 py35_0
clyent 0.4.0 py35_0
colorama 0.3.3 py35_0
comtypes 1.1.2 py35_0
conda 3.18.3 py35_0
conda-build 1.18.1 py35_0
conda-env 2.4.4 py35_0
configobj 5.0.6 py35_0
console_shortcut 0.1.1 py35_1
cryptography 1.0.2 py35_0
curl 7.45.0 vc14_0 [vc14]
cython 0.23.4 py35_0
cytoolz 0.7.4 py35_0
datashape 0.4.7 np110py35_1
decorator 4.0.4 py35_0
docutils 0.12 py35_1
fastcache 1.0.2 py35_0
flask 0.10.1 py35_1
freetype 2.5.5 vc14_0 [vc14]
greenlet 0.4.9 py35_0
h5py 2.5.0 np110py35_4
hdf5 1.8.15.1 vc14_3 [vc14]
idna 2.0 py35_0
ipykernel 4.1.1 py35_0
ipython 4.0.0 py35_1
ipython-genutils 0.1.0 <pip>
ipython-notebook 4.0.4 py35_3
ipython-qtconsole 4.0.1 py35_4
ipython_genutils 0.1.0 py35_0
ipywidgets 4.1.0 py35_0
itsdangerous 0.24 py35_0
jdcal 1.0 py35_0
jedi 0.9.0 py35_0
jinja2 2.8 py35_0
jpeg 8d vc14_0 [vc14]
jsonschema 2.4.0 py35_0
jupyter 1.0.0 py35_0
jupyter-client 4.1.1 <pip>
jupyter-console 4.0.3 <pip>
jupyter-core 4.0.6 <pip>
jupyter_client 4.1.1 py35_0
jupyter_console 4.0.3 py35_0
jupyter_core 4.0.6 py35_0
launcher 1.0.0 4
libpng 1.6.17 vc14_1 [vc14]
libsodium 1.0.3 0
libtiff 4.0.6 vc14_0 [vc14]
lxml 3.4.4 py35_0
markupsafe 0.23 py35_0
matplotlib 1.4.3 np110py35_3
menuinst 1.2.1 py35_0
mistune 0.7.1 py35_0
msvc_runtime 1.0.0 vc14_0 [vc14]
multipledispatch 0.4.8 py35_0
nbconvert 4.0.0 py35_0
nbformat 4.0.1 py35_0
networkx 1.10 py35_0
nltk 3.1 py35_0
node-webkit 0.10.1 0
nose 1.3.7 py35_0
notebook 4.0.6 py35_0
numexpr 2.4.4 np110py35_0
numpy 1.10.1 py35_0
odo 0.3.4 py35_0
openpyxl 2.2.6 py35_0
openssl 1.0.2d vc14_0 [vc14]
pandas 0.17.0 np110py35_0
path.py 8.1.2 py35_0
patsy 0.4.0 np110py35_0
pep8 1.6.2 py35_0
pickleshare 0.5 py35_0
pillow 3.0.0 py35_1
pip 7.1.2 py35_0
ply 3.8 py35_0
psutil 3.2.2 py35_0
py 1.4.30 py35_0
pyasn1 0.1.9 py35_0
pycosat 0.6.1 py35_0
pycparser 2.14 py35_0
pycrypto 2.6.1 py35_3
pycurl 7.19.5.1 py35_1
pyflakes 1.0.0 py35_0
pygments 2.0.2 py35_0
pyopenssl 0.15.1 py35_1
pyparsing 2.0.3 py35_0
pyqt 4.11.4 py35_2
pyreadline 2.1 py35_0
pytables 3.2.2 np110py35_1
pytest 2.8.1 py35_0
python 3.5.0 2
python-dateutil 2.4.2 py35_0
pytz 2015.6 py35_0
pywin32 219 py35_1
pyyaml 3.11 py35_2
pyzmq 14.7.0 py35_1
qt 4.8.7 vc14_4 [vc14]
qtconsole 4.1.0 py35_0
requests 2.8.1 py35_0
rope 0.9.4 py35_1
rope-py3k-0.9.4 1 <pip>
scikit-image 0.11.3 np110py35_0
scikit-learn 0.16.1 np110py35_0
scipy 0.16.0 np110py35_0
setuptools 18.4 py35_0
simplegeneric 0.8.1 py35_0
sip 4.16.9 py35_1
six 1.10.0 py35_0
snowballstemmer 1.2.0 py35_0
sockjs-tornado 1.0.1 py35_0
sphinx 1.3.1 py35_0
sphinx-rtd-theme 0.1.7 <pip>
sphinx_rtd_theme 0.1.7 py35_0
spyder 2.3.7 py35_3
spyder-app 2.3.7 py35_0
sqlalchemy 1.0.9 py35_0
statsmodels 0.6.1 np110py35_0
sympy 0.7.6.1 py35_0
tables 3.2.2 <pip>
tk 8.5.18 vc14_0 [vc14]
toolz 0.7.4 py35_0
tornado 4.2.1 py35_1
traitlets 4.0.0 py35_0
ujson 1.33 py35_0
unicodecsv 0.14.1 py35_0
werkzeug 0.10.4 py35_0
wheel 0.26.0 py35_1
xlrd 0.9.4 py35_0
xlsxwriter 0.7.7 py35_0
xlwings 0.4.1 py35_0
xlwt 1.0.0 py35_0
zeromq 4.1.3 vc14_1 [vc14]
zlib 1.2.8 vc14_2 [vc14]
By digging further I found out there was conflicting Qt libraries in this Anaconda install :
Cannot mix incompatible Qt library (version 0x40807) with this library (version 0x40804)
Next step was to look for the conflicting libraries in the command window:
where QtGui*.dll
Then uninstall or remove from the path environment variable the softwares responsible.