I have resolved these comments in #25 which should contain all the changes suggested, if you could take a look. Further I see there is a conflict with nextflow.config, but due to permissions im unable to look and resolved the conflict myself - how should I go about this? Thanks!

@tanyasarkjain I've upgraded your repo permissions now (with great pwoer comes great responsbility!) Can you do it now?

@jfy133 Hi James! I still seem to be seeing the "dev is a protected branch" unfortunately and unable to click the "resolve conflicts"

@tanyasarkjain you need to do a manual merge, check the bottom of the box:

@jfy133

The error in nextflow.config is coming from a merge conflict with the 1.0.1 update to the version. I tried using the command Lind instructions and could make the change locally, but can't seem to push my changes to dev: I get this message:

Enumerating objects: 4, done.
Counting objects: 100% (4/4), done.
Delta compression using up to 8 threads
Compressing objects: 100% (2/2), done.
Writing objects: 100% (2/2), 279 bytes | 279.00 KiB/s, done.
Total 2 (delta 1), reused 0 (delta 0), pack-reused 0 (from 0)
remote: Resolving deltas: 100% (1/1), completed with 1 local object.
remote: error: GH013: Repository rule violations found for refs/heads/dev.
remote: Review all repository rules at https://github.com/nf-core/pacvar/rules?ref=refs%2Fheads%2Fdev
remote:
remote: - Changes must be made through a pull request.
remote:
remote: - 2 of 2 required status checks are expected.
remote:
To https://github.com/nf-core/pacvar.git
! [remote rejected] dev -> dev (push declined due to repository rule violations)
error: failed to push some refs to 'https://github.com/nf-core/pacvar.git'

I think if you make a separate PR merged into dev with the same fix, the issue 'should' go away

@jfy133 resolved :)