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Anaconda issue tracking
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Anaconda permission errors on fresh installation #9892

Open Mereep opened 6 years ago

Mereep commented 6 years ago

Actual Behavior

anaconda doesn't install correctly on debian, permission errors and wrong paths

Expected Behavior

Fresh install, anaconda should just work

Steps to Reproduce

(Names etc are just examples)

install debian

sudo adduser jupyter
sudo su jupyter
wget https://repo.anaconda.com/archive/Anaconda3-5.2.0-Linux-x86_64.sh
chmod +x Anaconda3-5.2.0-Linux-x86_64.sh
./Anaconda3-5.2.0-Linux-x86_64.sh

Proceed using default settings 

cd /home/jupyter/anaconda3/bin
./conda install -c conda-forge jupyterhub

Error:

Solving environment: failed

NotWritableError: The current user does not have write permissions to a required path.
  path: /home/jupyter/.conda/pkgs/urls.txt
  uid: 1001
  gid: 1001

If you feel that permissions on this path are set incorrectly, you can manually
change them by executing

  $ sudo chown 1001:1001 /home/jupyter/.conda/pkgs/urls.txt

In general, it's not advisable to use 'sudo conda'.

Note: urls.txt does not live under ~/.conda/pkgs but under ~/anaconda3/pkgs Note: After continuing the operation multiple time, by chance it starts working Note: Propably conda breaks because of sudo su jupyter (Thats just a guess)

Anaconda or Miniconda version:

conda 4.5.9

Operating System:

Linux richard-lehre 4.9.0-4-amd64 #1 SMP Debian 4.9.65-3+deb9u1 (2017-12-23) x86_64 GNU/Linux

conda info

     active environment : None
       user config file : /home/jupyter/.condarc
 populated config files :
          conda version : 4.5.9
    conda-build version : 3.10.5
         python version : 3.6.5.final.0
       base environment : /home/jupyter/anaconda3  (writable)
           channel URLs : https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/free/linux-64
                          https://repo.anaconda.com/pkgs/free/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
                          https://repo.anaconda.com/pkgs/pro/linux-64
                          https://repo.anaconda.com/pkgs/pro/noarch
          package cache : /home/jupyter/anaconda3/pkgs
                          /home/jupyter/.conda/pkgs
       envs directories : /home/jupyter/anaconda3/envs
                          /home/jupyter/.conda/envs
               platform : linux-64
             user-agent : conda/4.5.9 requests/2.18.4 CPython/3.6.5 Linux/4.9.0-4-amd64 debian/9 glibc/2.24
                UID:GID : 1001:1001
             netrc file : None
           offline mode : False
conda list --show-channel-urls
# packages in environment at /home/jupyter/anaconda3:
#
# Name                    Version                   Build  Channel
_ipyw_jlab_nb_ext_conf    0.1.0            py36he11e457_0    defaults
alabaster                 0.7.10           py36h306e16b_0    defaults
alembic                   0.9.9                      py_0    conda-forge
anaconda                  5.2.0                    py36_3    defaults
anaconda-client           1.6.14                   py36_0    defaults
anaconda-navigator        1.8.7                    py36_0    defaults
anaconda-project          0.8.2            py36h44fb852_0    defaults
appdirs                   1.4.3                      py_1    conda-forge
asn1crypto                0.24.0                   py36_0    defaults
astroid                   1.6.3                    py36_0    defaults
astropy                   3.0.2            py36h3010b51_1    defaults
async_generator           1.10                       py_0    conda-forge
attrs                     18.1.0                   py36_0    defaults
automat                   0.7.0                    py36_0    conda-forge
babel                     2.5.3                    py36_0    defaults
backcall                  0.1.0                    py36_0    defaults
backports                 1.0              py36hfa02d7e_1    defaults
backports.shutil_get_terminal_size 1.0.0            py36hfea85ff_2    defaults
beautifulsoup4            4.6.0            py36h49b8c8c_1    defaults
bitarray                  0.8.1            py36h14c3975_1    defaults
bkcharts                  0.2              py36h735825a_0    defaults
blas                      1.0                         mkl    defaults
blaze                     0.11.3           py36h4e06776_0    defaults
bleach                    2.1.3                    py36_0    defaults
blosc                     1.14.3               hdbcaa40_0    defaults
bokeh                     0.12.16                  py36_0    defaults
boto                      2.48.0           py36h6e4cd66_1    defaults
bottleneck                1.2.1            py36haac1ea0_0    defaults
bzip2                     1.0.6                h14c3975_5    defaults
ca-certificates           2018.03.07                    0    defaults
cairo                     1.14.12              h7636065_2    defaults
certifi                   2018.4.16                py36_0    conda-forge
cffi                      1.11.5           py36h9745a5d_0    defaults
chardet                   3.0.4            py36h0f667ec_1    defaults
click                     6.7              py36h5253387_0    defaults
cloudpickle               0.5.3                    py36_0    defaults
clyent                    1.2.2            py36h7e57e65_1    defaults
colorama                  0.3.9            py36h489cec4_0    defaults
conda                     4.5.9                    py36_0    conda-forge
conda-build               3.10.5                   py36_0    defaults
conda-env                 2.6.0                h36134e3_1    defaults
conda-verify              2.0.0            py36h98955d8_0    defaults
configurable-http-proxy   3.1.0                   node8_1    conda-forge
constantly                15.1.0                     py_0    conda-forge
contextlib2               0.5.5            py36h6c84a62_0    defaults
cryptography              2.2.2            py36h14c3975_0    defaults
curl                      7.60.0               h84994c4_0    defaults
cycler                    0.10.0           py36h93f1223_0    defaults
cython                    0.28.2           py36h14c3975_0    defaults
cytoolz                   0.9.0.1          py36h14c3975_0    defaults
dask                      0.17.5                   py36_0    defaults
dask-core                 0.17.5                   py36_0    defaults
datashape                 0.5.4            py36h3ad6b5c_0    defaults
dbus                      1.13.2               h714fa37_1    defaults
decorator                 4.3.0                    py36_0    defaults
distributed               1.21.8                   py36_0    defaults
docutils                  0.14             py36hb0f60f5_0    defaults
entrypoints               0.2.3            py36h1aec115_2    defaults
et_xmlfile                1.0.1            py36hd6bccc3_0    defaults
expat                     2.2.5                he0dffb1_0    defaults
fastcache                 1.0.2            py36h14c3975_2    defaults
filelock                  3.0.4                    py36_0    defaults
flask                     1.0.2                    py36_1    defaults
flask-cors                3.0.4                    py36_0    defaults
fontconfig                2.12.6               h49f89f6_0    defaults
freetype                  2.8                  hab7d2ae_1    defaults
get_terminal_size         1.0.0                haa9412d_0    defaults
gevent                    1.3.0            py36h14c3975_0    defaults
glib                      2.56.1               h000015b_0    defaults
glob2                     0.6              py36he249c77_0    defaults
gmp                       6.1.2                h6c8ec71_1    defaults
gmpy2                     2.0.8            py36hc8893dd_2    defaults
graphite2                 1.3.11               h16798f4_2    defaults
greenlet                  0.4.13           py36h14c3975_0    defaults
gst-plugins-base          1.14.0               hbbd80ab_1    defaults
gstreamer                 1.14.0               hb453b48_1    defaults
h5py                      2.7.1            py36ha1f6525_2    defaults
harfbuzz                  1.7.6                h5f0a787_1    defaults
hdf5                      1.10.2               hba1933b_1    defaults
heapdict                  1.0.0                    py36_2    defaults
html5lib                  1.0.1            py36h2f9c1c0_0    defaults
hyperlink                 17.3.1                     py_0    conda-forge
icu                       58.2                 h9c2bf20_1    defaults
idna                      2.6              py36h82fb2a8_1    defaults
imageio                   2.3.0                    py36_0    defaults
imagesize                 1.0.0                    py36_0    defaults
incremental               17.5.0                     py_0    conda-forge
intel-openmp              2018.0.0                      8    defaults
ipykernel                 4.8.2                    py36_0    defaults
ipython                   6.4.0                    py36_0    defaults
ipython_genutils          0.2.0            py36hb52b0d5_0    defaults
ipywidgets                7.2.1                    py36_0    defaults
isort                     4.3.4                    py36_0    defaults
itsdangerous              0.24             py36h93cc618_1    defaults
jbig                      2.1                  hdba287a_0    defaults
jdcal                     1.4                      py36_0    defaults
jedi                      0.12.0                   py36_1    defaults
jinja2                    2.10             py36ha16c418_0    defaults
jpeg                      9b                   h024ee3a_2    defaults
jsonschema                2.6.0            py36h006f8b5_0    defaults
jupyter                   1.0.0                    py36_4    defaults
jupyter_client            5.2.3                    py36_0    defaults
jupyter_console           5.2.0            py36he59e554_1    defaults
jupyter_core              4.4.0            py36h7c827e3_0    defaults
jupyterhub                0.9.1                    py36_0    conda-forge
jupyterlab                0.32.1                   py36_0    defaults
jupyterlab_launcher       0.10.5                   py36_0    defaults
kiwisolver                1.0.1            py36h764f252_0    defaults
lazy-object-proxy         1.3.1            py36h10fcdad_0    defaults
libcurl                   7.60.0               h1ad7b7a_0    defaults
libedit                   3.1.20170329         h6b74fdf_2    defaults
libffi                    3.2.1                hd88cf55_4    defaults
libgcc                    7.2.0                h69d50b8_2    defaults
libgcc-ng                 7.2.0                hdf63c60_3    defaults
libgfortran-ng            7.2.0                hdf63c60_3    defaults
libpng                    1.6.34               hb9fc6fc_0    defaults
libsodium                 1.0.16               h1bed415_0    defaults
libssh2                   1.8.0                h9cfc8f7_4    defaults
libstdcxx-ng              7.2.0                hdf63c60_3    defaults
libtiff                   4.0.9                he85c1e1_1    defaults
libtool                   2.4.6                h544aabb_3    defaults
libxcb                    1.13                 h1bed415_1    defaults
libxml2                   2.9.8                h26e45fe_1    defaults
libxslt                   1.1.32               h1312cb7_0    defaults
llvmlite                  0.23.1           py36hdbcaa40_0    defaults
locket                    0.2.0            py36h787c0ad_1    defaults
lxml                      4.2.1            py36h23eabaa_0    defaults
lzo                       2.10                 h49e0be7_2    defaults
mako                      1.0.7                      py_1    conda-forge
markupsafe                1.0              py36hd9260cd_1    defaults
matplotlib                2.2.2            py36h0e671d2_1    defaults
mccabe                    0.6.1            py36h5ad9710_1    defaults
mistune                   0.8.3            py36h14c3975_1    defaults
mkl                       2018.0.2                      1    defaults
mkl-service               1.1.2            py36h17a0993_4    defaults
mkl_fft                   1.0.1            py36h3010b51_0    defaults
mkl_random                1.0.1            py36h629b387_0    defaults
more-itertools            4.1.0                    py36_0    defaults
mpc                       1.0.3                hec55b23_5    defaults
mpfr                      3.1.5                h11a74b3_2    defaults
mpmath                    1.0.0            py36hfeacd6b_2    defaults
msgpack-python            0.5.6            py36h6bb024c_0    defaults
multipledispatch          0.5.0                    py36_0    defaults
navigator-updater         0.2.1                    py36_0    defaults
nbconvert                 5.3.1            py36hb41ffb7_0    defaults
nbformat                  4.4.0            py36h31c9010_0    defaults
ncurses                   6.1                  hf484d3e_0    defaults
networkx                  2.1                      py36_0    defaults
nltk                      3.3.0                    py36_0    defaults
nodejs                    8.10.0                        0    conda-forge
nose                      1.3.7            py36hcdf7029_2    defaults
notebook                  5.5.0                    py36_0    defaults
numba                     0.38.0           py36h637b7d7_0    defaults
numexpr                   2.6.5            py36h7bf3b9c_0    defaults
numpy                     1.14.3           py36hcd700cb_1    defaults
numpy-base                1.14.3           py36h9be14a7_1    defaults
numpydoc                  0.8.0                    py36_0    defaults
odo                       0.5.1            py36h90ed295_0    defaults
olefile                   0.45.1                   py36_0    defaults
openpyxl                  2.5.3                    py36_0    defaults
openssl                   1.0.2o               h20670df_0    defaults
packaging                 17.1                     py36_0    defaults
pamela                    0.3.0                    py36_0    conda-forge
pandas                    0.23.0           py36h637b7d7_0    defaults
pandoc                    1.19.2.1             hea2e7c5_1    defaults
pandocfilters             1.4.2            py36ha6701b7_1    defaults
pango                     1.41.0               hd475d92_0    defaults
parso                     0.2.0                    py36_0    defaults
partd                     0.3.8            py36h36fd896_0    defaults
patchelf                  0.9                  hf79760b_2    defaults
path.py                   11.0.1                   py36_0    defaults
pathlib2                  2.3.2                    py36_0    defaults
patsy                     0.5.0                    py36_0    defaults
pcre                      8.42                 h439df22_0    defaults
pep8                      1.7.1                    py36_0    defaults
pexpect                   4.5.0                    py36_0    defaults
pickleshare               0.7.4            py36h63277f8_0    defaults
pillow                    5.1.0            py36h3deb7b8_0    defaults
pip                       10.0.1                   py36_0    defaults
pixman                    0.34.0               hceecf20_3    defaults
pkginfo                   1.4.2                    py36_1    defaults
pluggy                    0.6.0            py36hb689045_0    defaults
ply                       3.11                     py36_0    defaults
prometheus_client         0.3.0                      py_0    conda-forge
prompt_toolkit            1.0.15           py36h17d85b1_0    defaults
psutil                    5.4.5            py36h14c3975_0    defaults
ptyprocess                0.5.2            py36h69acd42_0    defaults
py                        1.5.3                    py36_0    defaults
pyasn1                    0.4.4                      py_0    conda-forge
pyasn1-modules            0.2.1                      py_0    conda-forge
pycodestyle               2.4.0                    py36_0    defaults
pycosat                   0.6.3            py36h0a5515d_0    defaults
pycparser                 2.18             py36hf9f622e_1    defaults
pycrypto                  2.6.1            py36h14c3975_8    defaults
pycurl                    7.43.0.1         py36hb7f436b_0    defaults
pyflakes                  1.6.0            py36h7bd6a15_0    defaults
pygments                  2.2.0            py36h0d3125c_0    defaults
pyhamcrest                1.9.0                      py_2    conda-forge
pylint                    1.8.4                    py36_0    defaults
pyodbc                    4.0.23           py36hf484d3e_0    defaults
pyopenssl                 18.0.0                   py36_0    defaults
pyparsing                 2.2.0            py36hee85983_1    defaults
pyqt                      5.9.2            py36h751905a_0    defaults
pysocks                   1.6.8                    py36_0    defaults
pytables                  3.4.3            py36h02b9ad4_2    defaults
pytest                    3.5.1                    py36_0    defaults
pytest-arraydiff          0.2                      py36_0    defaults
pytest-astropy            0.3.0                    py36_0    defaults
pytest-doctestplus        0.1.3                    py36_0    defaults
pytest-openfiles          0.3.0                    py36_0    defaults
pytest-remotedata         0.2.1                    py36_0    defaults
python                    3.6.5                hc3d631a_2    defaults
python-dateutil           2.7.3                    py36_0    defaults
python-editor             1.0.3                    py36_0    conda-forge
python-oauth2             1.0.1                    py36_0    conda-forge
pytz                      2018.4                   py36_0    defaults
pywavelets                0.5.2            py36he602eb0_0    defaults
pyyaml                    3.12             py36hafb9ca4_1    defaults
pyzmq                     17.0.0           py36h14c3975_0    defaults
qt                        5.9.5                h7e424d6_0    defaults
qtawesome                 0.4.4            py36h609ed8c_0    defaults
qtconsole                 4.3.1            py36h8f73b5b_0    defaults
qtpy                      1.4.1                    py36_0    defaults
readline                  7.0                  ha6073c6_4    defaults
requests                  2.18.4           py36he2e5f8d_1    defaults
rope                      0.10.7           py36h147e2ec_0    defaults
ruamel_yaml               0.15.35          py36h14c3975_1    defaults
scikit-image              0.13.1           py36h14c3975_1    defaults
scikit-learn              0.19.1           py36h7aa7ec6_0    defaults
scipy                     1.1.0            py36hfc37229_0    defaults
seaborn                   0.8.1            py36hfad7ec4_0    defaults
send2trash                1.5.0                    py36_0    defaults
service_identity          17.0.0                     py_0    conda-forge
setuptools                39.1.0                   py36_0    defaults
simplegeneric             0.8.1                    py36_2    defaults
singledispatch            3.4.0.3          py36h7a266c3_0    defaults
sip                       4.19.8           py36hf484d3e_0    defaults
six                       1.11.0           py36h372c433_1    defaults
snappy                    1.1.7                hbae5bb6_3    defaults
snowballstemmer           1.2.1            py36h6febd40_0    defaults
sortedcollections         0.6.1                    py36_0    defaults
sortedcontainers          1.5.10                   py36_0    defaults
sphinx                    1.7.4                    py36_0    defaults
sphinxcontrib             1.0              py36h6d0f590_1    defaults
sphinxcontrib-websupport  1.0.1            py36hb5cb234_1    defaults
spyder                    3.2.8                    py36_0    defaults
sqlalchemy                1.2.7            py36h6b74fdf_0    defaults
sqlite                    3.23.1               he433501_0    defaults
statsmodels               0.9.0            py36h3010b51_0    defaults
sympy                     1.1.1            py36hc6d1c1c_0    defaults
tblib                     1.3.2            py36h34cf8b6_0    defaults
terminado                 0.8.1                    py36_1    defaults
testpath                  0.3.1            py36h8cadb63_0    defaults
tk                        8.6.7                hc745277_3    defaults
toolz                     0.9.0                    py36_0    defaults
tornado                   5.0.2                    py36_0    defaults
traitlets                 4.3.2            py36h674d592_0    defaults
twisted                   18.7.0           py36h470a237_0    conda-forge
typing                    3.6.4                    py36_0    defaults
unicodecsv                0.14.1           py36ha668878_0    defaults
unixodbc                  2.3.6                h1bed415_0    defaults
urllib3                   1.22             py36hbe7ace6_0    defaults
wcwidth                   0.1.7            py36hdf4376a_0    defaults
webencodings              0.5.1            py36h800622e_1    defaults
werkzeug                  0.14.1                   py36_0    defaults
wheel                     0.31.1                   py36_0    defaults
widgetsnbextension        3.2.1                    py36_0    defaults
wrapt                     1.10.11          py36h28b7045_0    defaults
xlrd                      1.1.0            py36h1db9f0c_1    defaults
xlsxwriter                1.0.4                    py36_0    defaults
xlwt                      1.3.0            py36h7b00a1f_0    defaults
xz                        5.2.4                h14c3975_4    defaults
yaml                      0.1.7                had09818_2    defaults
zeromq                    4.2.5                h439df22_0    defaults
zict                      0.1.3            py36h3a3bf81_0    defaults
zlib                      1.2.11               ha838bed_2    defaults
zope.interface            4.5.0            py36h470a237_0    conda-forge
Mereep commented 6 years ago

Wanted to add, that if not using sudo su jupyter but instead su jupyter it works. Note that sudo su jupyter is totally valid and - to my knowledge - should be transparent for the application.