Comments (6)
Hmm "Upgrade Manubot to fix pubmed API calls." is the commit message for b7a5c3f (the latest commit), but isn't an actual error that Manubot issues.
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Yes, its Commit [b7a5c3f]. It is failing for my newer repositories but worked fine on the old repositories.
from rootstock.
Can you copy the GitHub Actions log and and paste it here? Will be helpful to see more about the error and the messages proceeding it.
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Here it is:
Run bash ci/deploy.sh
Already on 'main'
M webpage/README.md
Your branch is up to date with 'origin/main'.
[INFO] Detected MANUBOT_ACCESS_TOKEN. Will deploy via HTTPS.
fatal: couldn't find remote ref gh-pages
[INFO] could not fetch gh-pages or output from origin.
##WARNING
Checkout returned a nonzero exit status. See output:
fatal: invalid reference: gh-pages
remote: Write access to repository not granted.
fatal: unable to access '[removed address]': The requested URL returned error: 403
Traceback (most recent call last):
File "/usr/share/miniconda3/envs/manubot/bin/ghp-import", line 10, in <module>
sys.exit(main())
^^^^^^
File "/usr/share/miniconda3/envs/manubot/lib/python3.11/site-packages/ghp_import.py", line 300, in main
ghp_import(args.pop("directory"), **args)
File "/usr/share/miniconda3/envs/manubot/lib/python3.11/site-packages/ghp_import.py", line 285, in ghp_import
git.check_call('push', opts['remote'], opts['branch'])
File "/usr/share/miniconda3/envs/manubot/lib/python3.11/site-packages/ghp_import.py", line 119, in check_call
sp.check_call(['git'] + list(args), **kwargs)
File "/usr/share/miniconda3/envs/manubot/lib/python3.11/subprocess.py", line 413, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['git', 'push', 'origin', 'output']' returned non-zero exit status 128.
Error: Process completed with exit code 1.
Manubot did copy the the template into my repository. However GHActions is not working. I
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In addition for an organization repository, I receive this error:
Error: .github#L1
conda-incubator/setup-miniconda@v2 is not allowed to be used in XXXX. Actions in this workflow must be: within a repository that belongs to your Enterprise account, created by GitHub, verified in the GitHub Marketplace, or matching the following:
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Regarding "Write access to repository not granted", if you go to /settings/actions
can you see which box is checked:
If you add the following to .github/workflows/manubot.yaml
, that should also fix it (docs):
permissions:
contents: write
We should probably add this to rootstock, but would be good if you can confirm it fixes the problem.
Actions in this workflow must be: within a repository that belongs to your Enterprise account, created by GitHub, verified in the GitHub Marketplace, or matching the following
Looks like the organization has a setting that blocks the conda-incubator/setup-miniconda
action. See if someone with admin access to the organization can allow this and the other dependent actions.
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Related Issues (20)
- Deploy built DOCX to Github pages HOT 4
- load_bibliography: error reading 'content/manual-references.json' HOT 6
- no output saved in a forked manuscript HOT 4
- Editing Demo Manuboat HOT 1
- deployment timeout HOT 6
- Issues with local build command HOT 1
- Images are not shown in Word (docx) HOT 13
- Contributor Roles Taxonomy HOT 3
- AI workflow cannot create PR HOT 3
- best practice for integrating pandas-generated tables into manubot docs HOT 5
- Error: The process '/usr/share/miniconda3/condabin/conda' failed with exit code 1 HOT 5
- more elegant use of GitHub-set env variables HOT 10
- Change the name of the generated output pdf and .docx files HOT 4
- Convert repository to GitHub Template HOT 4
- Run failed: pages build and deployment HOT 1
- setup failing HOT 2
- docx fails to open HOT 4
- AppVeyor CI builds fail due to spellcheck dependencies HOT 3
- Deprecation Warnings / Recent Run HOT 2
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