About file and directory deletion
You can delete an individual file in your repository or an entire directory, including all the files in the directory.
If you try to delete a file or directory in a repository that you don’t have write permissions to, we'll fork the project to your personal account and help you send a pull request to the original repository after you commit your change. For more information, see "About pull requests."
If the file or directory you deleted contains sensitive data, the data will still be available in the repository's Git history. To completely remove the file from GitHub Enterprise Server, you must remove the file from your repository's history. For more information, see "Removing sensitive data from a repository."
Deleting a file
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Browse to the file in your repository that you want to delete.
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In the top-right corner, select the dropdown menu, then click Delete file.
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In the "Commit message" field, type a short, meaningful commit message that describes the change you made to the file. You can attribute the commit to more than one author in the commit message. For more information, see "Creating a commit with multiple authors."
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Below the commit message fields, decide whether to add your commit to the current branch or to a new branch. If your current branch is the default branch, you should choose to create a new branch for your commit and then create a pull request. For more information, see "Creating a pull request."
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Click Commit changes or Propose changes.
Deleting a directory
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Browse to the directory in your repository that you want to delete.
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In the top-right corner, select the dropdown menu, then click Delete directory.
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Review the files you will delete.
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In the "Commit message" field, type a short, meaningful commit message that describes the change you made to the file. You can attribute the commit to more than one author in the commit message. For more information, see "Creating a commit with multiple authors."
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Below the commit message fields, decide whether to add your commit to the current branch or to a new branch. If your current branch is the default branch, you should choose to create a new branch for your commit and then create a pull request. For more information, see "Creating a pull request."
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Click Commit changes or Propose changes.