built error (remove entries from nonexistent file) on some branches and not others

[cokelaer]

Details

• Project URL: github.com/sequana/sequana
• Build URL (if applicable): sequana.readthedocs.io
• Read the Docs username (if applicable): cokelaer

Expected Result

successful built

Actual Result

The built on RTD works in general but the latest built may fail on some branches and not others. For instance the build fails on the "develop" branch that is identical to "latest" branch, which passes.
In the develop branch the error message is

Cannot remove entries from nonexistent file /home/docs/.conda/pkgs/urllib3-1.12-py35_0/lib/python3.5/site-packages/easy-install.pth

for example: https://readthedocs.org/projects/sequana/builds/6084575/

thanks for any feedbacks or help

[cokelaer]

@RichardLitt FYI this is now failing on all branches (master, latest, develop)

[RichardLitt]

May be related to #3150.

@cokelaer Any chance you've been touching .conda anywhere else on your system?

[cokelaer]

? not sure what you mean. I did not change anything in the admin part of the project on
https://readthedocs.org/dashboard/sequana/edit/
However, I have updated a template file in the sphinx code of the documentation but it builds locally.
As for the environment.yml and readthedocs.yml, they were not changed either.

[RichardLitt]

That error looks like it is a conda issue - so I wanted to make sure that you weren't touching that elsewhere. If you don't know what that means, that helps us out, as it means it is probably an error on our end. Thanks!

[cokelaer]

I have changed the requirements.txt slightly but this does not seem to be the issue indeed since this part of the build is succesfull as shown here : http://readthedocs.org/projects/sequana/builds/6094359/
thanks

[cokelaer]

FYI in RTD, the error occurs at the third stage when executing the command:

 python /home/docs/checkouts/readthedocs.org/user_builds/sequana/conda/master/bin/pip install -U --cache-dir /home/docs/checkouts/readthedocs.org/user_builds/sequana/.cache/pip recommonmark readthedocs-sphinx-ext 

[cokelaer]

@RichardLitt sorry to sound a bit impatient, I was wondering whether you had any feedbacks or clues about what is happening on this project ? or whether you need further help from my side ? I'll be willing to do tests if that helps.

[RichardLitt]

@cokelaer Sorry to hear you need this sooner! I unfortunately don't know what the problem is - I'm helping out with triaging to make it easier for other maintainers, but can't diagnose this one any further at the moment.

[safwanrahman]

I am quite sure that this issue is cause of Conda. Updating conda version should fix it.
Merging readthedocs/readthedocs-docker-images#43 should fix the issue

[cokelaer]

I have added urllib3=1.22 in my conda environment in the environment.yml file
It worked on the develop branch on the project. Not sure this trick solve the problem or whereas the update of the conda version mentioned here above solved the problem. anyway this seem to fixed the issue. I have now other issue for the other branches related to time issue but that is a different issue. thanks. I'm closing the issue.