I believe we are experiencing the same issue that others are in this PR and 
are just waiting for it to 
merge: https://github.com/jenkinsci/github-branch-source-plugin/pull/134

On Friday, June 9, 2017 at 4:13:48 PM UTC-4, David Brooks wrote:
>
> Hey all,
>
> We currently have a GitHub Organization Folder that is told to build 
> projects that have a Jenkinsfile in their root. However, when I create a 
> branch with a brand new Jenkinsfile on a repo that never had a Jenkinsfile 
> before, the PR is not being built using the Jenkinsfile in the PR. I read 
> https://support.cloudbees.com/hc/en-us/articles/227246367-Why-Jenkinsfile-changes-Are-Not-Reflected-in-PR-Build
>  
> but don't understand why I was not a trusted source. I am an Admin of our 
> GitHub organization and a team I am apart of was added to this specific 
> repo with Write access.
>
> I don't want to merge in the Jenkinsfile without it first being run and 
> tested. It seems as if this issue was addressed in 
> https://github.com/jenkinsci/github-branch-source-plugin/pull/114 and tag 
> github-branch-source-2.01 however, my Jenkins is running version 2.06 so I 
> don't understand why this is still occurring.
>
> Any ideas are welcomed!
>
> Thanks,
> David
>

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