Update changelog and version for v3.28.20

Ignore pre-release parts when comparing GHES versions
Move comment to JSDoc
2026-10-31 20:01:33 +03:00 · 2025-07-21 11:24:11 +02:00 · 2025-07-21 11:19:24 +02:00 · 2025-07-21 11:19:07 +02:00 · 2025-07-21 11:19:02 +02:00 · 2025-07-21 11:18:49 +02:00
35 changed files with 608 additions and 125 deletions
@@ -2,9 +2,15 @@

 See the [releases page](https://github.com/github/codeql-action/releases) for the relevant changes to the CodeQL CLI and language packs.

-## [UNRELEASED]
+## 3.28.20 - 21 July 2025

-No user facing changes.
+- Remove support for combining SARIF files from a single upload for GHES 3.18, see [the changelog post](https://github.blog/changelog/2024-05-06-code-scanning-will-stop-combining-runs-from-a-single-upload/). [#2959](https://github.com/github/codeql-action/pull/2959)
+
+## 3.28.18 - 16 May 2025
+
+- Update default CodeQL bundle version to 2.21.3. [#2893](https://github.com/github/codeql-action/pull/2893)
+- Skip validating SARIF produced by CodeQL for improved performance. [#2894](https://github.com/github/codeql-action/pull/2894)
+- The number of threads and amount of RAM used by CodeQL can now be set via the `CODEQL_THREADS` and `CODEQL_RAM` runner environment variables. If set, these environment variables override the `threads` and `ram` inputs respectively. [#2891](https://github.com/github/codeql-action/pull/2891)

 ## 3.28.17 - 02 May 2025

@@ -70,10 +70,11 @@ We typically release new minor versions of the CodeQL Action and Bundle when a n

 | Minimum CodeQL Action | Minimum CodeQL Bundle Version | GitHub Environment | Notes |
 |-----------------------|-------------------------------|--------------------|-------|
-| `v3.26.6`  | `2.18.4` | Enterprise Server 3.15 | |
-| `v3.25.11` | `2.17.6` | Enterprise Server 3.14 | |
-| `v3.24.11` | `2.16.6` | Enterprise Server 3.13 | |
-| `v3.22.12` | `2.15.5` | Enterprise Server 3.12 | |
+| `v3.28.12`  | `2.20.7` | Enterprise Server 3.17 | |
+| `v3.28.6`  | `2.20.3` | Enterprise Server 3.16 | |
+| `v3.28.6`  | `2.20.3` | Enterprise Server 3.15 | |
+| `v3.28.6` | `2.20.3` | Enterprise Server 3.14 | |
+| `v3.28.6` | `2.20.3` | Enterprise Server 3.13 | |

 See the full list of GHES release and deprecation dates at [GitHub Enterprise Server releases](https://docs.github.com/en/enterprise-server/admin/all-releases#releases-of-github-enterprise-server).

@@ -64,7 +64,6 @@ const logging_1 = require("./logging");
 const repository_1 = require("./repository");
 const tools_features_1 = require("./tools-features");
 const tracer_config_1 = require("./tracer-config");
-const upload_lib_1 = require("./upload-lib");
 const util = __importStar(require("./util"));
 const util_1 = require("./util");
 class CodeQLAnalysisError extends Error {
@@ -429,7 +428,7 @@ async function runQueries(sarifFolder, memoryFlag, addSnippetsFlag, threadsFlag,
            logger.endGroup();
            logger.info(analysisSummary);
            if (await features.getValue(feature_flags_1.Feature.QaTelemetryEnabled)) {
-                const perQueryAlertCounts = getPerQueryAlertCounts(sarifFile, logger);
+                const perQueryAlertCounts = getPerQueryAlertCounts(sarifFile);
                const perQueryAlertCountEventReport = {
                    event: "codeql database interpret-results",
                    started_at: startTimeInterpretResults.toISOString(),
@@ -457,8 +456,7 @@ async function runQueries(sarifFolder, memoryFlag, addSnippetsFlag, threadsFlag,
        return await codeql.databaseInterpretResults(databasePath, queries, sarifFile, addSnippetsFlag, threadsFlag, enableDebugLogging ? "-vv" : "-v", sarifRunPropertyFlag, automationDetailsId, config, features);
    }
    /** Get an object with all queries and their counts parsed from a SARIF file path. */
-    function getPerQueryAlertCounts(sarifPath, log) {
-        (0, upload_lib_1.validateSarifFileSchema)(sarifPath, log);
+    function getPerQueryAlertCounts(sarifPath) {
        const sarifObject = JSON.parse(fs.readFileSync(sarifPath, "utf8"));
        // We do not need to compute fingerprints because we are not sending data based off of locations.
        // Generate the query: alert count object
@@ -1 +1 @@
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@@ -1 +1 @@
-{ "maximumVersion": "3.17", "minimumVersion": "3.12" }
+{ "maximumVersion": "3.17", "minimumVersion": "3.13" }
@@ -78,15 +78,15 @@ const CODEQL_MINIMUM_VERSION = "2.15.5";
 /**
 * This version will shortly become the oldest version of CodeQL that the Action will run with.
 */
-const CODEQL_NEXT_MINIMUM_VERSION = "2.15.5";
+const CODEQL_NEXT_MINIMUM_VERSION = "2.16.6";
 /**
 * This is the version of GHES that was most recently deprecated.
 */
-const GHES_VERSION_MOST_RECENTLY_DEPRECATED = "3.11";
+const GHES_VERSION_MOST_RECENTLY_DEPRECATED = "3.12";
 /**
 * This is the deprecation date for the version of GHES that was most recently deprecated.
 */
-const GHES_MOST_RECENT_DEPRECATION_DATE = "2024-12-19";
+const GHES_MOST_RECENT_DEPRECATION_DATE = "2025-04-03";
 /** The CLI verbosity level to use for extraction in debug mode. */
 const EXTRACTION_DEBUG_MODE_VERBOSITY = "progress++";
 /*
@@ -1,6 +1,6 @@
 {
-    "bundleVersion": "codeql-bundle-v2.21.2",
-    "cliVersion": "2.21.2",
-    "priorBundleVersion": "codeql-bundle-v2.21.1",
-    "priorCliVersion": "2.21.1"
+    "bundleVersion": "codeql-bundle-v2.21.3",
+    "cliVersion": "2.21.3",
+    "priorBundleVersion": "codeql-bundle-v2.21.2",
+    "priorCliVersion": "2.21.2"
 }
@@ -61,6 +61,7 @@ var Feature;
    Feature["CppBuildModeNone"] = "cpp_build_mode_none";
    Feature["CppDependencyInstallation"] = "cpp_dependency_installation_enabled";
    Feature["DiffInformedQueries"] = "diff_informed_queries";
+    Feature["DisableCombineSarifFiles"] = "disable_combine_sarif_files";
    Feature["DisableCsharpBuildless"] = "disable_csharp_buildless";
    Feature["DisableJavaBuildlessEnabled"] = "disable_java_buildless_enabled";
    Feature["DisableKotlinAnalysisEnabled"] = "disable_kotlin_analysis_enabled";
@@ -98,6 +99,11 @@ exports.featureConfig = {
        envVar: "CODEQL_ACTION_DIFF_INFORMED_QUERIES",
        minimumVersion: "2.21.0",
    },
+    [Feature.DisableCombineSarifFiles]: {
+        defaultValue: false,
+        envVar: "CODEQL_ACTION_DISABLE_COMBINE_SARIF_FILES",
+        minimumVersion: undefined,
+    },
    [Feature.DisableCsharpBuildless]: {
        defaultValue: false,
        envVar: "CODEQL_ACTION_DISABLE_CSHARP_BUILDLESS",
@@ -1 +1 @@
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@@ -319,7 +319,8 @@ async function run() {
        // for details.
        core.exportVariable("CODEQL_RAM", process.env["CODEQL_RAM"] ||
            (0, util_1.getMemoryFlagValue)((0, actions_util_1.getOptionalInput)("ram"), logger).toString());
-        core.exportVariable("CODEQL_THREADS", (0, util_1.getThreadsFlagValue)((0, actions_util_1.getOptionalInput)("threads"), logger).toString());
+        core.exportVariable("CODEQL_THREADS", process.env["CODEQL_THREADS"] ||
+            (0, util_1.getThreadsFlagValue)((0, actions_util_1.getOptionalInput)("threads"), logger).toString());
        // Disable Kotlin extractor if feature flag set
        if (await features.getValue(feature_flags_1.Feature.DisableKotlinAnalysisEnabled)) {
            core.exportVariable("CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN", "true");
@@ -1 +1 @@
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@@ -149,10 +149,10 @@ async function createStatusReportBase(actionName, status, actionStartedAt, confi
        const runnerOs = (0, util_1.getRequiredEnvParam)("RUNNER_OS");
        const codeQlCliVersion = (0, util_1.getCachedCodeQlVersion)();
        const actionRef = process.env["GITHUB_ACTION_REF"] || "";
-        const testingEnvironment = process.env[environment_1.EnvVar.TESTING_ENVIRONMENT] || "";
+        const testingEnvironment = (0, util_1.getTestingEnvironment)();
        // re-export the testing environment variable so that it is available to subsequent steps,
        // even if it was only set for this step
-        if (testingEnvironment !== "") {
+        if (testingEnvironment) {
            core.exportVariable(environment_1.EnvVar.TESTING_ENVIRONMENT, testingEnvironment);
        }
        const isSteadyStateDefaultSetupRun = process.env["CODE_SCANNING_IS_STEADY_STATE_DEFAULT_SETUP"] === "true";
@@ -173,7 +173,7 @@ async function createStatusReportBase(actionName, status, actionStartedAt, confi
            started_at: workflowStartedAt,
            status,
            steady_state_default_setup: isSteadyStateDefaultSetupRun,
-            testing_environment: testingEnvironment,
+            testing_environment: testingEnvironment || "",
            workflow_name: workflowName,
            workflow_run_attempt: workflowRunAttempt,
            workflow_run_id: workflowRunID,
@@ -1 +1 @@
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@@ -38,8 +38,10 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.InvalidSarifUploadError = void 0;
 exports.shouldShowCombineSarifFilesDeprecationWarning = shouldShowCombineSarifFilesDeprecationWarning;
+exports.throwIfCombineSarifFilesDisabled = throwIfCombineSarifFilesDisabled;
 exports.populateRunAutomationDetails = populateRunAutomationDetails;
 exports.findSarifFilesInDir = findSarifFilesInDir;
+exports.readSarifFile = readSarifFile;
 exports.validateSarifFileSchema = validateSarifFileSchema;
 exports.buildPayload = buildPayload;
 exports.uploadFiles = uploadFiles;
@@ -53,7 +55,6 @@ const zlib_1 = __importDefault(require("zlib"));
 const core = __importStar(require("@actions/core"));
 const file_url_1 = __importDefault(require("file-url"));
 const jsonschema = __importStar(require("jsonschema"));
-const semver = __importStar(require("semver"));
 const actionsUtil = __importStar(require("./actions-util"));
 const actions_util_1 = require("./actions-util");
 const api = __importStar(require("./api-client"));
@@ -62,6 +63,7 @@ const codeql_1 = require("./codeql");
 const config_utils_1 = require("./config-utils");
 const diff_informed_analysis_utils_1 = require("./diff-informed-analysis-utils");
 const environment_1 = require("./environment");
+const feature_flags_1 = require("./feature-flags");
 const fingerprints = __importStar(require("./fingerprints"));
 const gitUtils = __importStar(require("./git-utils"));
 const init_1 = require("./init");
@@ -135,7 +137,7 @@ function areAllRunsUnique(sarifObjects) {
 async function shouldShowCombineSarifFilesDeprecationWarning(sarifObjects, githubVersion) {
    // Do not show this warning on GHES versions before 3.14.0
    if (githubVersion.type === util_1.GitHubVariant.GHES &&
-        semver.lt(githubVersion.version, "3.14.0")) {
+        (0, util_1.satisfiesGHESVersion)(githubVersion.version, "<3.14", true)) {
        return false;
    }
    // Only give a deprecation warning when not all runs are unique and
@@ -143,6 +145,36 @@ async function shouldShowCombineSarifFilesDeprecationWarning(sarifObjects, githu
    return (!areAllRunsUnique(sarifObjects) &&
        !process.env.CODEQL_MERGE_SARIF_DEPRECATION_WARNING);
 }
+async function throwIfCombineSarifFilesDisabled(sarifObjects, features, githubVersion) {
+    if (!(await shouldDisableCombineSarifFiles(sarifObjects, features, githubVersion))) {
+        return;
+    }
+    // TODO: Update this changelog URL to the correct one when it's published.
+    const deprecationMoreInformationMessage = "For more information, see https://github.blog/changelog/2024-05-06-code-scanning-will-stop-combining-runs-from-a-single-upload";
+    throw new util_1.ConfigurationError(`The CodeQL Action does not support uploading multiple SARIF runs with the same category. Please update your workflow to upload a single run per category. ${deprecationMoreInformationMessage}`);
+}
+// Checks whether combining SARIF files should be disabled.
+async function shouldDisableCombineSarifFiles(sarifObjects, features, githubVersion) {
+    if (githubVersion.type === util_1.GitHubVariant.GHES) {
+        // Never block on GHES versions before 3.18.
+        if ((0, util_1.satisfiesGHESVersion)(githubVersion.version, "<3.18", true)) {
+            return false;
+        }
+    }
+    else {
+        // Never block when the feature flag is disabled.
+        if (!(await features.getValue(feature_flags_1.Feature.DisableCombineSarifFiles))) {
+            return false;
+        }
+    }
+    if (areAllRunsUnique(sarifObjects)) {
+        // If all runs are unique, we can safely combine them.
+        return false;
+    }
+    // Combining SARIF files is not supported and Code Scanning will return an
+    // error if multiple runs with the same category are uploaded.
+    return true;
+}
 // Takes a list of paths to sarif files and combines them together using the
 // CLI `github merge-results` command when all SARIF files are produced by
 // CodeQL. Otherwise, it will fall back to combining the files in the action.
@@ -157,9 +189,10 @@ async function combineSarifFilesUsingCLI(sarifFiles, gitHubVersion, features, lo
    });
    const deprecationWarningMessage = gitHubVersion.type === util_1.GitHubVariant.GHES
        ? "and will be removed in GitHub Enterprise Server 3.18"
-        : "and will be removed on June 4, 2025";
+        : "and will be removed in July 2025";
    const deprecationMoreInformationMessage = "For more information, see https://github.blog/changelog/2024-05-06-code-scanning-will-stop-combining-runs-from-a-single-upload";
    if (!areAllRunsProducedByCodeQL(sarifObjects)) {
+        await throwIfCombineSarifFilesDisabled(sarifObjects, features, gitHubVersion);
        logger.debug("Not all SARIF files were produced by CodeQL. Merging files in the action.");
        if (await shouldShowCombineSarifFilesDeprecationWarning(sarifObjects, gitHubVersion)) {
            logger.warning(`Uploading multiple SARIF runs with the same category is deprecated ${deprecationWarningMessage}. Please update your workflow to upload a single run per category. ${deprecationMoreInformationMessage}`);
@@ -191,6 +224,7 @@ async function combineSarifFilesUsingCLI(sarifFiles, gitHubVersion, features, lo
        codeQL = initCodeQLResult.codeql;
    }
    if (!(await codeQL.supportsFeature(tools_features_1.ToolsFeature.SarifMergeRunsFromEqualCategory))) {
+        await throwIfCombineSarifFilesDisabled(sarifObjects, features, gitHubVersion);
        logger.warning("The CodeQL CLI does not support merging SARIF files. Merging files in the action.");
        if (await shouldShowCombineSarifFilesDeprecationWarning(sarifObjects, gitHubVersion)) {
            logger.warning(`Uploading multiple CodeQL runs with the same category is deprecated ${deprecationWarningMessage} for CodeQL CLI 2.16.6 and earlier. Please update your CodeQL CLI version or update your workflow to set a distinct category for each CodeQL run. ${deprecationMoreInformationMessage}`);
@@ -324,17 +358,24 @@ function countResultsInSarif(sarif) {
    }
    return numResults;
 }
-// Validates that the given file path refers to a valid SARIF file.
-// Throws an error if the file is invalid.
-function validateSarifFileSchema(sarifFilePath, logger) {
-    logger.info(`Validating ${sarifFilePath}`);
-    let sarif;
+function readSarifFile(sarifFilePath) {
    try {
-        sarif = JSON.parse(fs.readFileSync(sarifFilePath, "utf8"));
+        return JSON.parse(fs.readFileSync(sarifFilePath, "utf8"));
    }
    catch (e) {
        throw new InvalidSarifUploadError(`Invalid SARIF. JSON syntax error: ${(0, util_1.getErrorMessage)(e)}`);
    }
+}
+// Validates the given SARIF object and throws an error if the SARIF object is invalid.
+// The file path is only used in error messages to improve clarity.
+function validateSarifFileSchema(sarif, sarifFilePath, logger) {
+    if (areAllRunsProducedByCodeQL([sarif]) &&
+        // We want to validate CodeQL SARIF in testing environments.
+        !util.getTestingEnvironment()) {
+        logger.debug(`Skipping SARIF schema validation for ${sarifFilePath} as all runs are produced by CodeQL.`);
+        return;
+    }
+    logger.info(`Validating ${sarifFilePath}`);
    // eslint-disable-next-line @typescript-eslint/no-require-imports
    const schema = require("../src/sarif-schema-2.1.0.json");
    const result = new jsonschema.Validator().validate(sarif, schema);
@@ -402,27 +443,28 @@ function buildPayload(commitOid, ref, analysisKey, analysisName, zippedSarif, wo
    return payloadObj;
 }
 /**
- * Uploads a single SARIF file or a directory of SARIF files depending on what `sarifPath` refers
+ * Uploads a single SARIF file or a directory of SARIF files depending on what `inputSarifPath` refers
 * to.
 */
-async function uploadFiles(sarifPath, checkoutPath, category, features, logger) {
-    const sarifFiles = getSarifFilePaths(sarifPath);
+async function uploadFiles(inputSarifPath, checkoutPath, category, features, logger) {
+    const sarifPaths = getSarifFilePaths(inputSarifPath);
    logger.startGroup("Uploading results");
-    logger.info(`Processing sarif files: ${JSON.stringify(sarifFiles)}`);
+    logger.info(`Processing sarif files: ${JSON.stringify(sarifPaths)}`);
    const gitHubVersion = await (0, api_client_1.getGitHubVersion)();
-    try {
+    let sarif;
+    if (sarifPaths.length > 1) {
        // Validate that the files we were asked to upload are all valid SARIF files
-        for (const file of sarifFiles) {
-            validateSarifFileSchema(file, logger);
+        for (const sarifPath of sarifPaths) {
+            const parsedSarif = readSarifFile(sarifPath);
+            validateSarifFileSchema(parsedSarif, sarifPath, logger);
        }
+        sarif = await combineSarifFilesUsingCLI(sarifPaths, gitHubVersion, features, logger);
    }
-    catch (e) {
-        if (e instanceof SyntaxError) {
-            throw new InvalidSarifUploadError(e.message);
-        }
-        throw e;
+    else {
+        const sarifPath = sarifPaths[0];
+        sarif = readSarifFile(sarifPath);
+        validateSarifFileSchema(sarif, sarifPath, logger);
    }
-    let sarif = await combineSarifFilesUsingCLI(sarifFiles, gitHubVersion, features, logger);
    sarif = filterAlertsByDiffRange(logger, sarif);
    sarif = await fingerprints.addFingerprints(sarif, checkoutPath, logger);
    const analysisKey = await api.getAnalysisKey();
@@ -1 +1 @@
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@@ -39,6 +39,7 @@ Object.defineProperty(exports, "__esModule", { value: true });
 const fs = __importStar(require("fs"));
 const path = __importStar(require("path"));
 const ava_1 = __importDefault(require("ava"));
+const feature_flags_1 = require("./feature-flags");
 const logging_1 = require("./logging");
 const testing_utils_1 = require("./testing-utils");
 const uploadLib = __importStar(require("./upload-lib"));
@@ -49,11 +50,11 @@ ava_1.default.beforeEach(() => {
 });
 (0, ava_1.default)("validateSarifFileSchema - valid", (t) => {
    const inputFile = `${__dirname}/../src/testdata/valid-sarif.sarif`;
-    t.notThrows(() => uploadLib.validateSarifFileSchema(inputFile, (0, logging_1.getRunnerLogger)(true)));
+    t.notThrows(() => uploadLib.validateSarifFileSchema(uploadLib.readSarifFile(inputFile), inputFile, (0, logging_1.getRunnerLogger)(true)));
 });
 (0, ava_1.default)("validateSarifFileSchema - invalid", (t) => {
    const inputFile = `${__dirname}/../src/testdata/invalid-sarif.sarif`;
-    t.throws(() => uploadLib.validateSarifFileSchema(inputFile, (0, logging_1.getRunnerLogger)(true)));
+    t.throws(() => uploadLib.validateSarifFileSchema(uploadLib.readSarifFile(inputFile), inputFile, (0, logging_1.getRunnerLogger)(true)));
 });
 (0, ava_1.default)("validate correct payload used for push, PR merge commit, and PR head", async (t) => {
    process.env["GITHUB_EVENT_NAME"] = "push";
@@ -202,7 +203,7 @@ ava_1.default.beforeEach(() => {
        },
    };
    const sarifFile = `${__dirname}/../src/testdata/with-invalid-uri.sarif`;
-    uploadLib.validateSarifFileSchema(sarifFile, mockLogger);
+    uploadLib.validateSarifFileSchema(uploadLib.readSarifFile(sarifFile), sarifFile, mockLogger);
    t.deepEqual(loggedMessages.length, 3);
    t.deepEqual(loggedMessages[1], "Warning: 'not a valid URI' is not a valid URI in 'instance.runs[0].tool.driver.rules[0].helpUri'.", "Warning: 'not a valid URI' is not a valid URI in 'instance.runs[0].results[0].locations[0].physicalLocation.artifactLocation.uri'.");
 });
@@ -223,6 +224,12 @@ ava_1.default.beforeEach(() => {
        version: "3.14.0",
    }));
 });
+(0, ava_1.default)("shouldShowCombineSarifFilesDeprecationWarning when on GHES 3.16 pre", async (t) => {
+    t.true(await uploadLib.shouldShowCombineSarifFilesDeprecationWarning([createMockSarif("abc", "def"), createMockSarif("abc", "def")], {
+        type: util_1.GitHubVariant.GHES,
+        version: "3.16.0.pre1",
+    }));
+});
 (0, ava_1.default)("shouldShowCombineSarifFilesDeprecationWarning with only 1 run", async (t) => {
    t.false(await uploadLib.shouldShowCombineSarifFilesDeprecationWarning([createMockSarif("abc", "def")], {
        type: util_1.GitHubVariant.DOTCOM,
@@ -244,6 +251,81 @@ ava_1.default.beforeEach(() => {
        type: util_1.GitHubVariant.DOTCOM,
    }));
 });
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on dotcom with feature flag", async (t) => {
+    await t.throwsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([feature_flags_1.Feature.DisableCombineSarifFiles]), {
+        type: util_1.GitHubVariant.DOTCOM,
+    }), {
+        message: /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    });
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on dotcom without feature flag", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.DOTCOM,
+    }));
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on GHES 3.13", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.GHES,
+        version: "3.13.2",
+    }));
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on GHES 3.14", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.GHES,
+        version: "3.14.0",
+    }));
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on GHES 3.17", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.GHES,
+        version: "3.17.0",
+    }));
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on GHES 3.18 pre", async (t) => {
+    await t.throwsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.GHES,
+        version: "3.18.0.pre1",
+    }), {
+        message: /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    });
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on GHES 3.18 alpha", async (t) => {
+    await t.throwsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.GHES,
+        version: "3.18.0-alpha.1",
+    }), {
+        message: /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    });
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled when on GHES 3.18", async (t) => {
+    await t.throwsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.GHES,
+        version: "3.18.0",
+    }), {
+        message: /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    });
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled with an invalid GHES version", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([]), {
+        type: util_1.GitHubVariant.GHES,
+        version: "foobar",
+    }));
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled with only 1 run", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([feature_flags_1.Feature.DisableCombineSarifFiles]), {
+        type: util_1.GitHubVariant.DOTCOM,
+    }));
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled with distinct categories", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "def"), createMockSarif("def", "def")], (0, testing_utils_1.createFeatures)([feature_flags_1.Feature.DisableCombineSarifFiles]), {
+        type: util_1.GitHubVariant.DOTCOM,
+    }));
+});
+(0, ava_1.default)("throwIfCombineSarifFilesDisabled with distinct tools", async (t) => {
+    await t.notThrowsAsync(uploadLib.throwIfCombineSarifFilesDisabled([createMockSarif("abc", "abc"), createMockSarif("abc", "def")], (0, testing_utils_1.createFeatures)([feature_flags_1.Feature.DisableCombineSarifFiles]), {
+        type: util_1.GitHubVariant.DOTCOM,
+    }));
+});
 (0, ava_1.default)("shouldConsiderConfigurationError correctly detects configuration errors", (t) => {
    const error1 = [
        "CodeQL analyses from advanced configurations cannot be processed when the default setup is enabled",
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truncated
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Line 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@@ -62,6 +62,7 @@ exports.bundleDb = bundleDb;
 exports.delay = delay;
 exports.isGoodVersion = isGoodVersion;
 exports.isInTestMode = isInTestMode;
+exports.getTestingEnvironment = getTestingEnvironment;
 exports.doesDirectoryExist = doesDirectoryExist;
 exports.listFolder = listFolder;
 exports.tryGetFolderBytes = tryGetFolderBytes;
@@ -76,6 +77,7 @@ exports.getErrorMessage = getErrorMessage;
 exports.prettyPrintPack = prettyPrintPack;
 exports.checkDiskUsage = checkDiskUsage;
 exports.checkActionVersion = checkActionVersion;
+exports.satisfiesGHESVersion = satisfiesGHESVersion;
 exports.cloneObject = cloneObject;
 exports.checkSipEnablement = checkSipEnablement;
 exports.cleanUpGlob = cleanUpGlob;
@@ -577,15 +579,27 @@ async function delay(milliseconds, opts) {
 function isGoodVersion(versionSpec) {
    return !BROKEN_VERSIONS.includes(versionSpec);
 }
-/*
- * Returns whether we are in test mode.
+/**
+ * Returns whether we are in test mode. This is used by CodeQL Action PR checks.
 *
 * In test mode, we don't upload SARIF results or status reports to the GitHub API.
 */
 function isInTestMode() {
    return process.env[environment_1.EnvVar.TEST_MODE] === "true";
 }
-/*
+/**
+ * Get the testing environment.
+ *
+ * This is set if the CodeQL Action is running in a non-production environment.
+ */
+function getTestingEnvironment() {
+    const testingEnvironment = process.env[environment_1.EnvVar.TESTING_ENVIRONMENT] || "";
+    if (testingEnvironment === "") {
+        return undefined;
+    }
+    return testingEnvironment;
+}
+/**
 * Returns whether the path in the argument represents an existing directory.
 */
 function doesDirectoryExist(dirPath) {
@@ -874,6 +888,24 @@ function checkActionVersion(version, githubVersion) {
        }
    }
 }
+/**
+ * This will check whether the given GitHub version satisfies the given range,
+ * taking into account that a range like >=3.18 will also match the GHES 3.18
+ * pre-release/RC versions.
+ *
+ * When the given `githubVersion` is not a GHES version, or if the version
+ * is invalid, this will return `defaultIfInvalid`.
+ */
+function satisfiesGHESVersion(ghesVersion, range, defaultIfInvalid) {
+    const semverVersion = semver.coerce(ghesVersion);
+    if (semverVersion === null) {
+        return defaultIfInvalid;
+    }
+    // We always drop the pre-release part of the version, since anything that
+    // applies to GHES 3.18.0 should also apply to GHES 3.18.0.pre1.
+    semverVersion.prerelease = [];
+    return semver.satisfies(semverVersion, range);
+}
 /**
 * Supported build modes.
 *
@@ -1 +1 @@
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@@ -51,7 +51,6 @@ const zlib_1 = __importDefault(require("zlib"));
 const core = __importStar(require("@actions/core"));
 const yaml = __importStar(require("js-yaml"));
 const api = __importStar(require("./api-client"));
-const environment_1 = require("./environment");
 const util_1 = require("./util");
 function toCodedErrors(errors) {
    return Object.entries(errors).reduce((acc, [code, message]) => {
@@ -274,8 +273,7 @@ function getInputOrThrow(workflow, jobName, actionName, inputName, matrixVars) {
 * This allows us to test workflow parsing functionality as a CodeQL Action PR check.
 */
 function getAnalyzeActionName() {
-    if ((0, util_1.isInTestMode)() ||
-        process.env[environment_1.EnvVar.TESTING_ENVIRONMENT] === "codeql-action-pr-checks") {
+    if ((0, util_1.isInTestMode)() || (0, util_1.getTestingEnvironment)() === "codeql-action-pr-checks") {
        return "./analyze";
    }
    else {
@@ -1 +1 @@
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Line truncated
@@ -1,6 +1,6 @@
 {
  "name": "codeql",
-  "version": "3.28.18",
+  "version": "3.28.20",
  "lockfileVersion": 3,
  "requires": true,
  "packages": {
@@ -1,12 +1,12 @@
 {
  "name": "codeql",
-  "version": "3.28.18",
+  "version": "3.28.20",
  "lockfileVersion": 3,
  "requires": true,
  "packages": {
    "": {
      "name": "codeql",
-      "version": "3.28.18",
+      "version": "3.28.20",
      "license": "MIT",
      "dependencies": {
        "@actions/artifact": "^2.3.1",
@@ -1,6 +1,6 @@
 {
  "name": "codeql",
-  "version": "3.28.18",
+  "version": "3.28.20",
  "private": true,
  "description": "CodeQL action",
  "scripts": {
@@ -26,7 +26,6 @@ import { getRepositoryNwoFromEnv } from "./repository";
 import { DatabaseCreationTimings, EventReport } from "./status-report";
 import { ToolsFeature } from "./tools-features";
 import { endTracingForCluster } from "./tracer-config";
-import { validateSarifFileSchema } from "./upload-lib";
 import * as util from "./util";
 import { BuildMode } from "./util";

@@ -630,7 +629,7 @@ export async function runQueries(
      logger.info(analysisSummary);

      if (await features.getValue(Feature.QaTelemetryEnabled)) {
-        const perQueryAlertCounts = getPerQueryAlertCounts(sarifFile, logger);
+        const perQueryAlertCounts = getPerQueryAlertCounts(sarifFile);

        const perQueryAlertCountEventReport: EventReport = {
          event: "codeql database interpret-results",
@@ -682,11 +681,7 @@ export async function runQueries(
  }

  /** Get an object with all queries and their counts parsed from a SARIF file path. */
-  function getPerQueryAlertCounts(
-    sarifPath: string,
-    log: Logger,
-  ): Record<string, number> {
-    validateSarifFileSchema(sarifPath, log);
+  function getPerQueryAlertCounts(sarifPath: string): Record<string, number> {
    const sarifObject = JSON.parse(
      fs.readFileSync(sarifPath, "utf8"),
    ) as util.SarifFile;
@@ -1 +1 @@
-{"maximumVersion": "3.17", "minimumVersion": "3.12"}
+{"maximumVersion": "3.17", "minimumVersion": "3.13"}
@@ -285,17 +285,17 @@ const CODEQL_MINIMUM_VERSION = "2.15.5";
 /**
 * This version will shortly become the oldest version of CodeQL that the Action will run with.
 */
-const CODEQL_NEXT_MINIMUM_VERSION = "2.15.5";
+const CODEQL_NEXT_MINIMUM_VERSION = "2.16.6";

 /**
 * This is the version of GHES that was most recently deprecated.
 */
-const GHES_VERSION_MOST_RECENTLY_DEPRECATED = "3.11";
+const GHES_VERSION_MOST_RECENTLY_DEPRECATED = "3.12";

 /**
 * This is the deprecation date for the version of GHES that was most recently deprecated.
 */
-const GHES_MOST_RECENT_DEPRECATION_DATE = "2024-12-19";
+const GHES_MOST_RECENT_DEPRECATION_DATE = "2025-04-03";

 /** The CLI verbosity level to use for extraction in debug mode. */
 const EXTRACTION_DEBUG_MODE_VERBOSITY = "progress++";
@@ -1,6 +1,6 @@
 {
-  "bundleVersion": "codeql-bundle-v2.21.2",
-  "cliVersion": "2.21.2",
-  "priorBundleVersion": "codeql-bundle-v2.21.1",
-  "priorCliVersion": "2.21.1"
+  "bundleVersion": "codeql-bundle-v2.21.3",
+  "cliVersion": "2.21.3",
+  "priorBundleVersion": "codeql-bundle-v2.21.2",
+  "priorCliVersion": "2.21.2"
 }
@@ -46,6 +46,7 @@ export enum Feature {
  CppBuildModeNone = "cpp_build_mode_none",
  CppDependencyInstallation = "cpp_dependency_installation_enabled",
  DiffInformedQueries = "diff_informed_queries",
+  DisableCombineSarifFiles = "disable_combine_sarif_files",
  DisableCsharpBuildless = "disable_csharp_buildless",
  DisableJavaBuildlessEnabled = "disable_java_buildless_enabled",
  DisableKotlinAnalysisEnabled = "disable_kotlin_analysis_enabled",
@@ -114,6 +115,11 @@ export const featureConfig: Record<
    envVar: "CODEQL_ACTION_DIFF_INFORMED_QUERIES",
    minimumVersion: "2.21.0",
  },
+  [Feature.DisableCombineSarifFiles]: {
+    defaultValue: false,
+    envVar: "CODEQL_ACTION_DISABLE_COMBINE_SARIF_FILES",
+    minimumVersion: undefined,
+  },
  [Feature.DisableCsharpBuildless]: {
    defaultValue: false,
    envVar: "CODEQL_ACTION_DISABLE_CSHARP_BUILDLESS",
@@ -547,7 +547,8 @@ async function run() {
    );
    core.exportVariable(
      "CODEQL_THREADS",
-      getThreadsFlagValue(getOptionalInput("threads"), logger).toString(),
+      process.env["CODEQL_THREADS"] ||
+        getThreadsFlagValue(getOptionalInput("threads"), logger).toString(),
    );

    // Disable Kotlin extractor if feature flag set
@@ -29,6 +29,7 @@ import {
  assertNever,
  BuildMode,
  getErrorMessage,
+  getTestingEnvironment,
 } from "./util";

 export enum ActionName {
@@ -277,10 +278,10 @@ export async function createStatusReportBase(
    const runnerOs = getRequiredEnvParam("RUNNER_OS");
    const codeQlCliVersion = getCachedCodeQlVersion();
    const actionRef = process.env["GITHUB_ACTION_REF"] || "";
-    const testingEnvironment = process.env[EnvVar.TESTING_ENVIRONMENT] || "";
+    const testingEnvironment = getTestingEnvironment();
    // re-export the testing environment variable so that it is available to subsequent steps,
    // even if it was only set for this step
-    if (testingEnvironment !== "") {
+    if (testingEnvironment) {
      core.exportVariable(EnvVar.TESTING_ENVIRONMENT, testingEnvironment);
    }
    const isSteadyStateDefaultSetupRun =
@@ -303,7 +304,7 @@ export async function createStatusReportBase(
      started_at: workflowStartedAt,
      status,
      steady_state_default_setup: isSteadyStateDefaultSetupRun,
-      testing_environment: testingEnvironment,
+      testing_environment: testingEnvironment || "",
      workflow_name: workflowName,
      workflow_run_attempt: workflowRunAttempt,
      workflow_run_id: workflowRunID,
@@ -3,8 +3,9 @@ import * as path from "path";

 import test from "ava";

+import { Feature } from "./feature-flags";
 import { getRunnerLogger, Logger } from "./logging";
-import { setupTests } from "./testing-utils";
+import { createFeatures, setupTests } from "./testing-utils";
 import * as uploadLib from "./upload-lib";
 import { GitHubVariant, initializeEnvironment, withTmpDir } from "./util";

@@ -17,14 +18,22 @@ test.beforeEach(() => {
 test("validateSarifFileSchema - valid", (t) => {
  const inputFile = `${__dirname}/../src/testdata/valid-sarif.sarif`;
  t.notThrows(() =>
-    uploadLib.validateSarifFileSchema(inputFile, getRunnerLogger(true)),
+    uploadLib.validateSarifFileSchema(
+      uploadLib.readSarifFile(inputFile),
+      inputFile,
+      getRunnerLogger(true),
+    ),
  );
 });

 test("validateSarifFileSchema - invalid", (t) => {
  const inputFile = `${__dirname}/../src/testdata/invalid-sarif.sarif`;
  t.throws(() =>
-    uploadLib.validateSarifFileSchema(inputFile, getRunnerLogger(true)),
+    uploadLib.validateSarifFileSchema(
+      uploadLib.readSarifFile(inputFile),
+      inputFile,
+      getRunnerLogger(true),
+    ),
  );
 });

@@ -314,7 +323,11 @@ test("accept results with invalid artifactLocation.uri value", (t) => {
  } as Logger;

  const sarifFile = `${__dirname}/../src/testdata/with-invalid-uri.sarif`;
-  uploadLib.validateSarifFileSchema(sarifFile, mockLogger);
+  uploadLib.validateSarifFileSchema(
+    uploadLib.readSarifFile(sarifFile),
+    sarifFile,
+    mockLogger,
+  );

  t.deepEqual(loggedMessages.length, 3);
  t.deepEqual(
@@ -359,6 +372,18 @@ test("shouldShowCombineSarifFilesDeprecationWarning when on GHES 3.14", async (t
  );
 });

+test("shouldShowCombineSarifFilesDeprecationWarning when on GHES 3.16 pre", async (t) => {
+  t.true(
+    await uploadLib.shouldShowCombineSarifFilesDeprecationWarning(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      {
+        type: GitHubVariant.GHES,
+        version: "3.16.0.pre1",
+      },
+    ),
+  );
+});
+
 test("shouldShowCombineSarifFilesDeprecationWarning with only 1 run", async (t) => {
  t.false(
    await uploadLib.shouldShowCombineSarifFilesDeprecationWarning(
@@ -405,6 +430,173 @@ test("shouldShowCombineSarifFilesDeprecationWarning when environment variable is
  );
 });

+test("throwIfCombineSarifFilesDisabled when on dotcom with feature flag", async (t) => {
+  await t.throwsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([Feature.DisableCombineSarifFiles]),
+      {
+        type: GitHubVariant.DOTCOM,
+      },
+    ),
+    {
+      message:
+        /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    },
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled when on dotcom without feature flag", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.DOTCOM,
+      },
+    ),
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled when on GHES 3.13", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.GHES,
+        version: "3.13.2",
+      },
+    ),
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled when on GHES 3.14", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.GHES,
+        version: "3.14.0",
+      },
+    ),
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled when on GHES 3.17", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.GHES,
+        version: "3.17.0",
+      },
+    ),
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled when on GHES 3.18 pre", async (t) => {
+  await t.throwsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.GHES,
+        version: "3.18.0.pre1",
+      },
+    ),
+    {
+      message:
+        /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    },
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled when on GHES 3.18 alpha", async (t) => {
+  await t.throwsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.GHES,
+        version: "3.18.0-alpha.1",
+      },
+    ),
+    {
+      message:
+        /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    },
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled when on GHES 3.18", async (t) => {
+  await t.throwsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.GHES,
+        version: "3.18.0",
+      },
+    ),
+    {
+      message:
+        /The CodeQL Action does not support uploading multiple SARIF runs with the same category/,
+    },
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled with an invalid GHES version", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("abc", "def")],
+      createFeatures([]),
+      {
+        type: GitHubVariant.GHES,
+        version: "foobar",
+      },
+    ),
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled with only 1 run", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def")],
+      createFeatures([Feature.DisableCombineSarifFiles]),
+      {
+        type: GitHubVariant.DOTCOM,
+      },
+    ),
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled with distinct categories", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "def"), createMockSarif("def", "def")],
+      createFeatures([Feature.DisableCombineSarifFiles]),
+      {
+        type: GitHubVariant.DOTCOM,
+      },
+    ),
+  );
+});
+
+test("throwIfCombineSarifFilesDisabled with distinct tools", async (t) => {
+  await t.notThrowsAsync(
+    uploadLib.throwIfCombineSarifFilesDisabled(
+      [createMockSarif("abc", "abc"), createMockSarif("abc", "def")],
+      createFeatures([Feature.DisableCombineSarifFiles]),
+      {
+        type: GitHubVariant.DOTCOM,
+      },
+    ),
+  );
+});
+
 test("shouldConsiderConfigurationError correctly detects configuration errors", (t) => {
  const error1 = [
    "CodeQL analyses from advanced configurations cannot be processed when the default setup is enabled",
@@ -6,7 +6,6 @@ import * as core from "@actions/core";
 import { OctokitResponse } from "@octokit/types";
 import fileUrl from "file-url";
 import * as jsonschema from "jsonschema";
-import * as semver from "semver";

 import * as actionsUtil from "./actions-util";
 import { getOptionalInput, getRequiredInput } from "./actions-util";
@@ -16,7 +15,7 @@ import { CodeQL, getCodeQL } from "./codeql";
 import { getConfig } from "./config-utils";
 import { readDiffRangesJsonFile } from "./diff-informed-analysis-utils";
 import { EnvVar } from "./environment";
-import { FeatureEnablement } from "./feature-flags";
+import { Feature, FeatureEnablement } from "./feature-flags";
 import * as fingerprints from "./fingerprints";
 import * as gitUtils from "./git-utils";
 import { initCodeQL } from "./init";
@@ -30,6 +29,7 @@ import {
  getRequiredEnvParam,
  GitHubVariant,
  GitHubVersion,
+  satisfiesGHESVersion,
  SarifFile,
  SarifRun,
 } from "./util";
@@ -132,7 +132,7 @@ export async function shouldShowCombineSarifFilesDeprecationWarning(
  // Do not show this warning on GHES versions before 3.14.0
  if (
    githubVersion.type === GitHubVariant.GHES &&
-    semver.lt(githubVersion.version, "3.14.0")
+    satisfiesGHESVersion(githubVersion.version, "<3.14", true)
  ) {
    return false;
  }
@@ -145,6 +145,58 @@ export async function shouldShowCombineSarifFilesDeprecationWarning(
  );
 }

+export async function throwIfCombineSarifFilesDisabled(
+  sarifObjects: util.SarifFile[],
+  features: FeatureEnablement,
+  githubVersion: GitHubVersion,
+) {
+  if (
+    !(await shouldDisableCombineSarifFiles(
+      sarifObjects,
+      features,
+      githubVersion,
+    ))
+  ) {
+    return;
+  }
+
+  // TODO: Update this changelog URL to the correct one when it's published.
+  const deprecationMoreInformationMessage =
+    "For more information, see https://github.blog/changelog/2024-05-06-code-scanning-will-stop-combining-runs-from-a-single-upload";
+
+  throw new ConfigurationError(
+    `The CodeQL Action does not support uploading multiple SARIF runs with the same category. Please update your workflow to upload a single run per category. ${deprecationMoreInformationMessage}`,
+  );
+}
+
+// Checks whether combining SARIF files should be disabled.
+async function shouldDisableCombineSarifFiles(
+  sarifObjects: util.SarifFile[],
+  features: FeatureEnablement,
+  githubVersion: GitHubVersion,
+) {
+  if (githubVersion.type === GitHubVariant.GHES) {
+    // Never block on GHES versions before 3.18.
+    if (satisfiesGHESVersion(githubVersion.version, "<3.18", true)) {
+      return false;
+    }
+  } else {
+    // Never block when the feature flag is disabled.
+    if (!(await features.getValue(Feature.DisableCombineSarifFiles))) {
+      return false;
+    }
+  }
+
+  if (areAllRunsUnique(sarifObjects)) {
+    // If all runs are unique, we can safely combine them.
+    return false;
+  }
+
+  // Combining SARIF files is not supported and Code Scanning will return an
+  // error if multiple runs with the same category are uploaded.
+  return true;
+}
+
 // Takes a list of paths to sarif files and combines them together using the
 // CLI `github merge-results` command when all SARIF files are produced by
 // CodeQL. Otherwise, it will fall back to combining the files in the action.
@@ -167,11 +219,17 @@ async function combineSarifFilesUsingCLI(
  const deprecationWarningMessage =
    gitHubVersion.type === GitHubVariant.GHES
      ? "and will be removed in GitHub Enterprise Server 3.18"
-      : "and will be removed on June 4, 2025";
+      : "and will be removed in July 2025";
  const deprecationMoreInformationMessage =
    "For more information, see https://github.blog/changelog/2024-05-06-code-scanning-will-stop-combining-runs-from-a-single-upload";

  if (!areAllRunsProducedByCodeQL(sarifObjects)) {
+    await throwIfCombineSarifFilesDisabled(
+      sarifObjects,
+      features,
+      gitHubVersion,
+    );
+
    logger.debug(
      "Not all SARIF files were produced by CodeQL. Merging files in the action.",
    );
@@ -235,6 +293,12 @@ async function combineSarifFilesUsingCLI(
      ToolsFeature.SarifMergeRunsFromEqualCategory,
    ))
  ) {
+    await throwIfCombineSarifFilesDisabled(
+      sarifObjects,
+      features,
+      gitHubVersion,
+    );
+
    logger.warning(
      "The CodeQL CLI does not support merging SARIF files. Merging files in the action.",
    );
@@ -434,18 +498,35 @@ function countResultsInSarif(sarif: string): number {
  return numResults;
 }

-// Validates that the given file path refers to a valid SARIF file.
-// Throws an error if the file is invalid.
-export function validateSarifFileSchema(sarifFilePath: string, logger: Logger) {
-  logger.info(`Validating ${sarifFilePath}`);
-  let sarif;
+export function readSarifFile(sarifFilePath: string): SarifFile {
  try {
-    sarif = JSON.parse(fs.readFileSync(sarifFilePath, "utf8")) as SarifFile;
+    return JSON.parse(fs.readFileSync(sarifFilePath, "utf8")) as SarifFile;
  } catch (e) {
    throw new InvalidSarifUploadError(
      `Invalid SARIF. JSON syntax error: ${getErrorMessage(e)}`,
    );
  }
+}
+
+// Validates the given SARIF object and throws an error if the SARIF object is invalid.
+// The file path is only used in error messages to improve clarity.
+export function validateSarifFileSchema(
+  sarif: SarifFile,
+  sarifFilePath: string,
+  logger: Logger,
+) {
+  if (
+    areAllRunsProducedByCodeQL([sarif]) &&
+    // We want to validate CodeQL SARIF in testing environments.
+    !util.getTestingEnvironment()
+  ) {
+    logger.debug(
+      `Skipping SARIF schema validation for ${sarifFilePath} as all runs are produced by CodeQL.`,
+    );
+    return;
+  }
+
+  logger.info(`Validating ${sarifFilePath}`);
  // eslint-disable-next-line @typescript-eslint/no-require-imports
  const schema = require("../src/sarif-schema-2.1.0.json") as jsonschema.Schema;

@@ -551,41 +632,44 @@ export function buildPayload(
 }

 /**
- * Uploads a single SARIF file or a directory of SARIF files depending on what `sarifPath` refers
+ * Uploads a single SARIF file or a directory of SARIF files depending on what `inputSarifPath` refers
 * to.
 */
 export async function uploadFiles(
-  sarifPath: string,
+  inputSarifPath: string,
  checkoutPath: string,
  category: string | undefined,
  features: FeatureEnablement,
  logger: Logger,
 ): Promise<UploadResult> {
-  const sarifFiles = getSarifFilePaths(sarifPath);
+  const sarifPaths = getSarifFilePaths(inputSarifPath);

  logger.startGroup("Uploading results");
-  logger.info(`Processing sarif files: ${JSON.stringify(sarifFiles)}`);
+  logger.info(`Processing sarif files: ${JSON.stringify(sarifPaths)}`);

  const gitHubVersion = await getGitHubVersion();

-  try {
+  let sarif: SarifFile;
+
+  if (sarifPaths.length > 1) {
    // Validate that the files we were asked to upload are all valid SARIF files
-    for (const file of sarifFiles) {
-      validateSarifFileSchema(file, logger);
+    for (const sarifPath of sarifPaths) {
+      const parsedSarif = readSarifFile(sarifPath);
+      validateSarifFileSchema(parsedSarif, sarifPath, logger);
    }
-  } catch (e) {
-    if (e instanceof SyntaxError) {
-      throw new InvalidSarifUploadError(e.message);
-    }
-    throw e;
+
+    sarif = await combineSarifFilesUsingCLI(
+      sarifPaths,
+      gitHubVersion,
+      features,
+      logger,
+    );
+  } else {
+    const sarifPath = sarifPaths[0];
+    sarif = readSarifFile(sarifPath);
+    validateSarifFileSchema(sarif, sarifPath, logger);
  }

-  let sarif = await combineSarifFilesUsingCLI(
-    sarifFiles,
-    gitHubVersion,
-    features,
-    logger,
-  );
  sarif = filterAlertsByDiffRange(logger, sarif);
  sarif = await fingerprints.addFingerprints(sarif, checkoutPath, logger);

@@ -750,8 +750,8 @@ export function isGoodVersion(versionSpec: string) {
  return !BROKEN_VERSIONS.includes(versionSpec);
 }

-/*
- * Returns whether we are in test mode.
+/**
+ * Returns whether we are in test mode. This is used by CodeQL Action PR checks.
 *
 * In test mode, we don't upload SARIF results or status reports to the GitHub API.
 */
@@ -759,7 +759,20 @@ export function isInTestMode(): boolean {
  return process.env[EnvVar.TEST_MODE] === "true";
 }

-/*
+/**
+ * Get the testing environment.
+ *
+ * This is set if the CodeQL Action is running in a non-production environment.
+ */
+export function getTestingEnvironment(): string | undefined {
+  const testingEnvironment = process.env[EnvVar.TESTING_ENVIRONMENT] || "";
+  if (testingEnvironment === "") {
+    return undefined;
+  }
+  return testingEnvironment;
+}
+
+/**
 * Returns whether the path in the argument represents an existing directory.
 */
 export function doesDirectoryExist(dirPath: string): boolean {
@@ -1119,6 +1132,31 @@ export function checkActionVersion(
  }
 }

+/**
+ * This will check whether the given GitHub version satisfies the given range,
+ * taking into account that a range like >=3.18 will also match the GHES 3.18
+ * pre-release/RC versions.
+ *
+ * When the given `githubVersion` is not a GHES version, or if the version
+ * is invalid, this will return `defaultIfInvalid`.
+ */
+export function satisfiesGHESVersion(
+  ghesVersion: string,
+  range: string,
+  defaultIfInvalid: boolean,
+): boolean {
+  const semverVersion = semver.coerce(ghesVersion);
+  if (semverVersion === null) {
+    return defaultIfInvalid;
+  }
+
+  // We always drop the pre-release part of the version, since anything that
+  // applies to GHES 3.18.0 should also apply to GHES 3.18.0.pre1.
+  semverVersion.prerelease = [];
+
+  return semver.satisfies(semverVersion, range);
+}
+
 /**
 * Supported build modes.
 *
@@ -7,9 +7,12 @@ import * as yaml from "js-yaml";

 import * as api from "./api-client";
 import { CodeQL } from "./codeql";
-import { EnvVar } from "./environment";
 import { Logger } from "./logging";
-import { getRequiredEnvParam, isInTestMode } from "./util";
+import {
+  getRequiredEnvParam,
+  getTestingEnvironment,
+  isInTestMode,
+} from "./util";

 export interface WorkflowJobStep {
  name?: string;
@@ -358,10 +361,7 @@ function getInputOrThrow(
 * This allows us to test workflow parsing functionality as a CodeQL Action PR check.
 */
 function getAnalyzeActionName() {
-  if (
-    isInTestMode() ||
-    process.env[EnvVar.TESTING_ENVIRONMENT] === "codeql-action-pr-checks"
-  ) {
+  if (isInTestMode() || getTestingEnvironment() === "codeql-action-pr-checks") {
    return "./analyze";
  } else {
    return "github/codeql-action/analyze";
Author	SHA1	Message	Date
Koen Vlaswinkel	07bb2b932c	Update changelog and version for v3.28.20	2025-07-21 11:24:11 +02:00
Koen Vlaswinkel	f6c7f63bda	Ignore pre-release parts when comparing GHES versions	2025-07-21 11:19:24 +02:00
Koen Vlaswinkel	6370c01206	Move comment to JSDoc	2025-07-21 11:19:07 +02:00
Koen Vlaswinkel	dd627a9af6	Fix parsing of GHES pre-release versions	2025-07-21 11:19:02 +02:00
Koen Vlaswinkel	bcdb4ecb96	Unconditionally disable combining SARIF files for GHES 3.18	2025-07-21 11:18:49 +02:00
Koen Vlaswinkel	c0809df981	Remove support for combining SARIF runs with non-unique categories	2025-07-21 11:18:34 +02:00
Chris Smowton	ff0a06e83c	Merge pull request #2896 from github/update-v3.28.18-b86edfc27 Merge main into releases/v3	2025-05-16 11:14:47 +01:00
github-actions[bot]	a41e0844be	Update changelog for v3.28.18	2025-05-16 09:36:50 +00:00
Chris Smowton	b86edfc27a	Merge pull request #2893 from github/update-bundle/codeql-bundle-v2.21.3 Update default bundle to 2.21.3	2025-05-15 12:40:00 +01:00
Henry Mercer	e93b90025f	Merge branch 'main' into update-bundle/codeql-bundle-v2.21.3	2025-05-14 19:57:41 +01:00
Henry Mercer	510dfa3460	Merge pull request #2894 from github/henrymercer/skip-validating-codeql-sarif Skip validating SARIF produced by CodeQL	2025-05-14 19:55:03 +01:00
Henry Mercer	492d783245	Merge branch 'main' into henrymercer/skip-validating-codeql-sarif	2025-05-14 19:16:54 +01:00
Henry Mercer	83bdf3b7f9	Merge pull request #2859 from github/update-supported-enterprise-server-versions Update supported GitHub Enterprise Server versions	2025-05-14 19:15:31 +01:00
Andrew Eisenberg	cffc916774	Merge pull request #2891 from austinpray-mixpanel/patch-1 Allow configuring CODEQL_THREADS with an env var	2025-05-14 14:00:23 -04:00
Henry Mercer	4420887272	Add deprecation warning for CodeQL 2.16.5 and earlier	2025-05-14 17:13:10 +01:00
Henry Mercer	4e178c5841	Update supported versions table in README	2025-05-14 17:12:44 +01:00
Henry Mercer	05446e4bbf	Merge branch 'main' into update-supported-enterprise-server-versions	2025-05-14 16:58:40 +01:00
Austin Pray	bb9fc01aa6	Update CHANGELOG.md	2025-05-14 10:44:35 -05:00
Austin Pray	3dce55ac70	rebuild	2025-05-14 15:41:39 +00:00
github-actions[bot]	bacf5fe7c2	Rebuild	2025-05-14 14:23:08 +00:00
Henry MercerandCopilot	15f19ac220	Improve docstring Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>	2025-05-14 15:21:38 +01:00
Henry Mercer	f7ab654551	Add changelog note	2025-05-14 15:12:22 +01:00
Henry Mercer	2f70a988e7	Skip validating SARIF produced by CodeQL	2025-05-14 15:11:16 +01:00
Henry Mercer	f681ad69a7	Add utility function to get testing environment	2025-05-14 14:10:19 +01:00
github-actions[bot]	15447f393e	Add changelog note	2025-05-13 22:28:13 +00:00
github-actions[bot]	ded79fc5fd	Update default bundle to codeql-bundle-v2.21.3	2025-05-13 22:28:10 +00:00
Austin Pray	77ae18dc82	Revert "threads defaults to CODEQL_THREADS env var" This reverts commit `df7d681f04`.	2025-05-13 22:19:47 +00:00
Austin Pray	df7d681f04	threads defaults to CODEQL_THREADS env var	2025-05-13 20:13:00 +00:00
Austin Pray	c41b278fa8	Allow configuring CODEQL_THREADS with an env var ref https://github.com/github/codeql-action/issues/2890	2025-05-05 21:28:43 -05:00
github-actions[bot]	d1c7d49753	Update supported GitHub Enterprise Server versions	2025-04-11 00:16:14 +00:00