Why do I see the following error when using conda? (usually when installing packages or making new envs, e.g. conda create -n myenv python=3.6) and how do I fix it? Verifying transaction: | WARNING conda.core.path_actions:verify(963): Unable to create environments file. Path not writable. environment location: /Users/brandomiranda/.conda/environments.txt or Preparing transaction: done Verifying transaction: - WARNING conda.core.path_actions:verify(963): Unable to create environments file. Path not writable. environment location: /Users/brandomiranda/.conda/environments.txt done Executing transaction: - WARNING conda.core.envs_manager:register_env(52): Unable to register environment. Path not writable or missing. environment location: /Users/brandomiranda/miniconda3/envs/myenv registry file: /Users/brandomiranda/.conda/environments.txt done a detailed outline of what I did can be found on the following git issue: NotWritableError: The current user does not have write permissions to a required path. #7267 which really isn't anything too fancy except re-install conda from scratch and run the following command: bash Miniconda3-latest-MacOSX-x86_64.sh and it installed conda 4.7.12 (per conda -V) More errors when I install packages with conda (automl) brandomiranda~/automl-meta-learning ❯ conda install -c conda-forge jupyterlab Collecting package metadata (current_repodata.json): done Solving environment: done ## Package Plan ## environment location: /Users/brandomiranda/miniconda3/envs/automl added / updated specs: - jupyterlab The following packages will be downloaded: package | build ---------------------------|----------------- jupyter_client-5.3.4 | py37_0 131 KB conda-forge ------------------------------------------------------------ Total: 131 KB The following NEW packages will be INSTALLED: appnope conda-forge/osx-64::appnope-0.1.0-py37_1000 attrs conda-forge/noarch::attrs-19.3.0-py_0 backcall conda-forge/noarch::backcall-0.1.0-py_0 bleach conda-forge/noarch::bleach-3.1.0-py_0 decorator conda-forge/noarch::decorator-4.4.1-py_0 defusedxml conda-forge/noarch::defusedxml-0.6.0-py_0 entrypoints conda-forge/osx-64::entrypoints-0.3-py37_1000 importlib_metadata conda-forge/osx-64::importlib_metadata-1.3.0-py37_0 ipykernel conda-forge/osx-64::ipykernel-5.1.3-py37h5ca1d4c_0 ipython conda-forge/osx-64::ipython-7.11.1-py37h5ca1d4c_0 ipython_genutils conda-forge/noarch::ipython_genutils-0.2.0-py_1 jedi conda-forge/osx-64::jedi-0.15.2-py37_0 jinja2 conda-forge/noarch::jinja2-2.10.3-py_0 json5 conda-forge/noarch::json5-0.8.5-py_0 jsonschema conda-forge/osx-64::jsonschema-3.2.0-py37_0 jupyter_client conda-forge/osx-64::jupyter_client-5.3.4-py37_0 jupyter_core conda-forge/osx-64::jupyter_core-4.6.1-py37_0 jupyterlab conda-forge/noarch::jupyterlab-1.2.4-py_0 jupyterlab_server conda-forge/noarch::jupyterlab_server-1.0.6-py_0 libsodium conda-forge/osx-64::libsodium-1.0.17-h01d97ff_0 markupsafe conda-forge/osx-64::markupsafe-1.1.1-py37h0b31af3_0 mistune conda-forge/osx-64::mistune-0.8.4-py37h0b31af3_1000 more-itertools conda-forge/noarch::more-itertools-8.0.2-py_0 nbconvert conda-forge/osx-64::nbconvert-5.6.1-py37_0 nbformat conda-forge/noarch::nbformat-5.0.3-py_0 notebook conda-forge/osx-64::notebook-6.0.1-py37_0 pandoc conda-forge/osx-64:andoc-2.9.1.1-0 pandocfilters conda-forge/noarch:andocfilters-1.4.2-py_1 parso conda-forge/noarch:arso-0.5.2-py_0 pexpect conda-forge/osx-64:expect-4.7.0-py37_0 pickleshare conda-forge/osx-64:ickleshare-0.7.5-py37_1000 prometheus_client conda-forge/noarch:rometheus_client-0.7.1-py_0 prompt_toolkit conda-forge/noarch:rompt_toolkit-3.0.2-py_0 ptyprocess conda-forge/noarch:typrocess-0.6.0-py_1001 pygments conda-forge/noarch:ygments-2.5.2-py_0 pyrsistent conda-forge/osx-64:yrsistent-0.15.7-py37h0b31af3_0 python-dateutil conda-forge/noarch:ython-dateutil-2.8.1-py_0 pyzmq pkgs/main/osx-64:yzmq-18.1.0-py37h0a44026_0 send2trash conda-forge/noarch::send2trash-1.5.0-py_0 terminado conda-forge/osx-64::terminado-0.8.3-py37_0 testpath conda-forge/noarch::testpath-0.4.4-py_0 tornado conda-forge/osx-64::tornado-6.0.3-py37h0b31af3_0 traitlets conda-forge/osx-64::traitlets-4.3.3-py37_0 wcwidth conda-forge/noarch::wcwidth-0.1.8-py_0 webencodings conda-forge/noarch::webencodings-0.5.1-py_1 zeromq conda-forge/osx-64::zeromq-4.3.2-h6de7cb9_2 zipp conda-forge/noarch::zipp-0.6.0-py_0 The following packages will be UPDATED: ca-certificates pkgs/main::ca-certificates-2019.11.27~ --> conda-forge::ca-certificates-2019.11.28-hecc5488_0 The following packages will be SUPERSEDED by a higher-priority channel: certifi pkgs/main --> conda-forge openssl pkgs/main:penssl-1.1.1d-h1de35cc_3 --> conda-forge:penssl-1.1.1d-h0b31af3_0 Proceed ([y]/n)? y Downloading and Extracting Packages jupyter_client-5.3.4 | 131 KB | ################################################################################################################################################################# | 100% Preparing transaction: done Verifying transaction: | WARNING conda.core.path_actions:verify(963): Unable to create environments file. Path not writable. environment location: /Users/brandomiranda/.conda/environments.txt done Executing transaction: - WARNING conda.core.envs_manager:register_env(52): Unable to register environment. Path not writable or missing. environment location: /Users/brandomiranda/miniconda3/envs/automl registry file: /Users/brandomiranda/.conda/environments.txt done chmod I tried changing the permission according to the suggested answers, BUT it seems it won't work without sudo. Is it really safe to do sudo here? why isn't it writable to the correct set of users already? (automl) brandomiranda~/.conda ❯ if [ -w "/Users/brandomiranda/.conda" ]; then echo "WRITABLE"; else echo "NOT WRITABLE"; fi NOT WRITABLE (automl) brandomiranda~/.conda ❯ chmod 775 /Users/brandomiranda/.conda chmod: Unable to change file mode on /Users/brandomiranda/.conda: Operation not permitted Update after running suggested answers I've ran the chmod command in sudo. I checked the permissions of that file and I got the following: (automl-meta-learning) brandomiranda~/automl-meta-learning/automl/automl ❯ ls -lha /Users/brandomiranda/.conda total 8 drwxrwxr-x 3 root staff 96B Jan 5 16:57 . drwxr-xr-x+ 117 brandomiranda staff 3.7K Jan 19 17:25 .. -rw-r--r-- 1 root staff 32B Jan 5 16:57 environments.txt I checked this because I tried to install conda-build with conda install conda-build command but got the error towards the end: Preparing transaction: done Verifying transaction: \ WARNING conda.core.path_actions:verify(963): Unable to create environments file. Path not writable. environment location: /Users/brandomiranda/.conda/environments.txt done Executing transaction: \ WARNING conda.core.envs_manager:register_env(52): Unable to register environment. Path not writable or missing. environment location: /Users/brandomiranda/miniconda3/envs/automl-meta-learning registry file: /Users/brandomiranda/.conda/environments.txt done which seemed weird and that when I notice the environment.txt didn't have the same permissions as the other file/directories. I am tempted to chmod that file too but all this business seems to be putting a bandage on the problem. I feel this shouldn't have happened in the first place so I will ask: How do we fix this properly? How is one suppose to install conda (in the new Catalina OS for Mac using zsh)? Regardless of anything, what are the permissions of the /Users/brandomiranda/.conda conda folder supposed to be and should all folders/files have the same permissions? for now I will run: sudo chmod 775 /Users/brandomiranda/.conda/environments.txt although, it makes me uneasy that I am having to run sudo for conda related stuff. Anyone know how to do this without requiring sudo or is sudo supposed to be required? As a side comment, I am glad I never tried installing anything from conda using sudo and only changed the permissions of a few folders/files. That seems much safer than allowing conda to run arbitrary code in sudo (instead here it can run its stuff to a specific location while NOT running in sudo, so I guess changing folder permissions isn't that bad?). Continue reading...
