Setting up code scanning for a repository

You can set up code scanning by adding a workflow to your repository.

If you have write permissions to a repository, you can set up or configure code scanning for that repository.

Code scanning is available for organization-owned repositories where GitHub Advanced Security is enabled. For more information, see "About GitHub Advanced Security."

In this article

Note: Your site administrator must enable code scanning for your GitHub Enterprise Server instance before you can use this feature. If you want to use GitHub Actions to scan your code, the site administrator must also enable GitHub Actions and set up the infrastructure required. For more information, see "Configuring code scanning for your appliance."

Options for setting up code scanning

You decide how to generate code scanning alerts, and which tools to use, at a repository level. GitHub Enterprise Server provides fully integrated support for CodeQL analysis, and also supports analysis using third-party tools. For more information, see "About CodeQL."

Type of analysisOptions for generating alerts
CodeQLUsing GitHub Actions (see "Setting up code scanning using actions") or running CodeQL analysis in a third-party continuous integration (CI) system (see "About CodeQL code scanning in your CI system").
Third‑partyUsing GitHub Actions (see "Setting up code scanning using actions") or generated externally and uploaded to GitHub Enterprise Server (see "Uploading a SARIF file to GitHub").

Setting up code scanning using actions

  1. On GitHub Enterprise Server, navigate to the main page of the repository.

  2. Under your repository name, click Security. Security tab

  3. To the right of "Code scanning alerts", click Set up code scanning. If code scanning is missing, you need to ask an organization owner or repository administrator to enable GitHub Advanced Security. For more information, see "Managing security and analysis settings for your organization" or "Managing security and analysis settings for your repository." "Set up code scanning" button to the right of "Code scanning" in the Security Overview

  4. Under "Get started with code scanning", click Set up this workflow on the CodeQL analysis workflow or on a third-party workflow. "Set up this workflow" button under "Get started with code scanning" headingWorkflows are only displayed if they are relevant for the programming languages detected in the repository. The CodeQL analysis workflow is always displayed, but the "Set up this workflow" button is only enabled if CodeQL analysis supports the languages present in the repository.

  5. To customize how code scanning scans your code, edit the workflow.

    Generally you can commit the CodeQL analysis workflow without making any changes to it. However, many of the third-party workflows require additional configuration, so read the comments in the workflow before committing.

    For more information, see "Configuring code scanning."

  6. Use the Start commit drop-down, and type a commit message. Start commit

  7. Choose whether you'd like to commit directly to the default branch, or create a new branch and start a pull request. Choose where to commit

  8. Click Commit new file or Propose new file.

In the default CodeQL analysis workflow, code scanning is configured to analyze your code each time you either push a change to the default branch or any protected branches, or raise a pull request against the default branch. As a result, code scanning will now commence.

Bulk set up of code scanning

You can set up code scanning in many repositories at once using a script. For an example of a script that raises pull requests to add a GitHub Actions workflow to multiple repositories, see the jhutchings1/Create-ActionsPRs repository.

Understanding the pull request checks

Each code scanning workflow you set to run on pull requests always has at least two entries listed in the checks section of a pull request. There is one entry for each of the analysis jobs in the workflow, and a final one for the results of the analysis.

The names of the code scanning analysis checks take the form: "TOOL NAME / JOB NAME (TRIGGER)." For example, for CodeQL, analysis of C++ code has the entry "CodeQL / Analyze (cpp) (pull_request)." You can click Details on a code scanning analysis entry to see logging data. This allows you to debug a problem if the analysis job failed. For example, for code scanning analysis of compiled languages, this can happen if the action can't build the code.

code scanning pull request checks

When the code scanning jobs complete, GitHub works out whether any alerts were added by the pull request and adds the "Code scanning results / TOOL NAME" entry to the list of checks. After code scanning has been performed at least once, you can click Details to view the results of the analysis. If you used a pull request to add code scanning to the repository, you will initially see a "Missing analysis" message when you click Details on the "Code scanning results / TOOL NAME" check.

Missing analysis for commit message

Reasons for the "missing analysis" message

After code scanning has analyzed the code in a pull request, it needs to compare the analysis of the topic branch (the branch you used to create the pull request) with the analysis of the base branch (the branch into which you want to merge the pull request). This allows code scanning to compute which alerts are newly introduced by the pull request, which alerts were already present in the base branch, and whether any existing alerts are fixed by the changes in the pull request. Initially, if you use a pull request to add code scanning to a repository, the base branch has not yet been analyzed, so it's not possible to compute these details. In this case, when you click through from the results check on the pull request you will see the "Missing analysis for base commit SHA-HASH" message.

There are other situations where there may be no analysis for the latest commit to the base branch for a pull request. These include:

  • The pull request has been raised against a branch other than the default branch, and this branch hasn't been analyzed.

    To check whether a branch has been scanned, go to the Code scanning page, click the Branch drop-down and select the relevant branch.

    Choose a branch from the Branch drop-down menu

    The solution in this situation is to add the name of the base branch to the on:push and on:pull_request specification in the code scanning workflow on that branch and then make a change that updates the open pull request that you want to scan.

  • The latest commit on the base branch for the pull request is currently being analyzed and analysis is not yet available.

    Wait a few minutes and then push a change to the pull request to retrigger code scanning.

  • An error occurred while analyzing the latest commit on the base branch and analysis for that commit isn't available.

    Merge a trivial change into the base branch to trigger code scanning on this latest commit, then push a change to the pull request to retrigger code scanning.

Next steps

After setting up code scanning, and allowing its actions to complete, you can:

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