Fixed the node tracking and a harness bug

src/compiler/program.ts

@@ -1921,6 +1921,7 @@ namespace ts {
                 // If the file was previously found via a node_modules search, but is now being processed as a root file,
                 // then everything it sucks in may also be marked incorrectly, and needs to be checked again.
                 if (file && lookUp(sourceFilesFoundSearchingNodeModules, file.path) && currentNodeModulesDepth == 0) {
+                    sourceFilesFoundSearchingNodeModules[file.path] = false;
                     if (!options.noResolve) {
                         processReferencedFiles(file, getDirectoryPath(fileName), isDefaultLib);
                         processTypeReferenceDirectives(file);
@@ -1953,6 +1954,7 @@ namespace ts {
 
             filesByName.set(path, file);
             if (file) {
+                sourceFilesFoundSearchingNodeModules[path] = (currentNodeModulesDepth > 0);
                 file.path = path;
 
                 if (host.useCaseSensitiveFileNames()) {

src/harness/projectsRunner.ts

@@ -479,17 +479,27 @@ class ProjectRunner extends RunnerBase {
 
                     it("Baseline of emitted result (" + moduleNameToString(moduleKind) + "): " + testCaseFileName, () => {
                         if (testCase.baselineCheck) {
+                            let errs = [];
                             ts.forEach(compilerResult.outputFiles, outputFile => {
-
-                                Harness.Baseline.runBaseline("Baseline of emitted result (" + moduleNameToString(compilerResult.moduleKind) + "): " + testCaseFileName, getBaselineFolder(compilerResult.moduleKind) + outputFile.fileName, () => {
-                                    try {
-                                        return Harness.IO.readFile(getProjectOutputFolder(outputFile.fileName, compilerResult.moduleKind));
-                                    }
-                                    catch (e) {
-                                        return undefined;
-                                    }
-                                });
+                                // There may be multiple files with different baselines. Run all and report at the end, else
+                                // it stops copying the remaining emitted files from 'local/projectOutput' to 'local/project'.
+                                try {
+                                    Harness.Baseline.runBaseline("Baseline of emitted result (" + moduleNameToString(compilerResult.moduleKind) + "): " + testCaseFileName, getBaselineFolder(compilerResult.moduleKind) + outputFile.fileName, () => {
+                                        try {
+                                            return Harness.IO.readFile(getProjectOutputFolder(outputFile.fileName, compilerResult.moduleKind));
+                                        }
+                                        catch (e) {
+                                            return undefined;
+                                        }
+                                    });
+                                }
+                                catch (e) {
+                                    errs.push(e);
+                                }
                             });
+                            if (errs.length) {
+                                throw Error(errs.join("\n     "));
+                            }
                         }
                     });
 

tests/baselines/reference/moduleAugmentationInDependency2.js

@@ -8,6 +8,8 @@ export {};
 //// [app.ts]
 import "A"
 
+//// [index.js]
+"use strict";
 //// [app.js]
 "use strict";
 require("A");

tests/baselines/reference/nodeResolution6.js

@@ -13,7 +13,5 @@ export declare var y;
 import y = require("a"); 
 
 
-//// [ref.js]
-var x = 1;
 //// [b.js]
 "use strict";

tests/baselines/reference/nodeResolution8.js

@@ -12,7 +12,5 @@ export declare var y;
 //// [b.ts]
 import y = require("a");
 
-//// [ref.js]
-var x = 1;
 //// [b.js]
 "use strict";

tests/baselines/reference/pathMappingBasedModuleResolution5_node.js

@@ -31,6 +31,9 @@ exports.x = 1;
 //// [file2.js]
 "use strict";
 exports.y = 1;
+//// [file4.js]
+"use strict";
+exports.z1 = 1;
 //// [file1.js]
 "use strict";
 var file1_1 = require("folder2/file1");

tests/baselines/reference/project/nodeModulesMaxDepthExceeded/amd/nodeModulesMaxDepthExceeded.errors.txt

@@ -14,7 +14,7 @@ maxDepthExceeded/root.ts(4,1): error TS2322: Type 'number' is not assignable to
 ==== relative.js (0 errors) ====
     exports.relativeProp = true;
     
-==== index.js (0 errors) ====
+==== maxDepthExceeded/node_modules/m1/index.js (0 errors) ====
     var m2 = require('m2');
     var rel = require('./relative');
     

tests/baselines/reference/project/nodeModulesMaxDepthExceeded/amd/nodeModulesMaxDepthExceeded.json

@@ -13,6 +13,8 @@
         "maxDepthExceeded/root.ts"
     ],
     "emittedFiles": [
-        "maxDepthExceeded/root.js"
+        "maxDepthExceeded/built/node_modules/m1/relative.js",
+        "maxDepthExceeded/built/node_modules/m1/index.js",
+        "maxDepthExceeded/built/root.js"
     ]
 }

tests/baselines/reference/project/nodeModulesMaxDepthExceeded/node/nodeModulesMaxDepthExceeded.errors.txt

@@ -14,7 +14,7 @@ maxDepthExceeded/root.ts(4,1): error TS2322: Type 'number' is not assignable to
 ==== relative.js (0 errors) ====
     exports.relativeProp = true;
     
-==== index.js (0 errors) ====
+==== maxDepthExceeded/node_modules/m1/index.js (0 errors) ====
     var m2 = require('m2');
     var rel = require('./relative');
     

tests/baselines/reference/project/nodeModulesMaxDepthExceeded/node/nodeModulesMaxDepthExceeded.json

@@ -13,6 +13,8 @@
         "maxDepthExceeded/root.ts"
     ],
     "emittedFiles": [
-        "maxDepthExceeded/root.js"
+        "maxDepthExceeded/built/node_modules/m1/relative.js",
+        "maxDepthExceeded/built/node_modules/m1/index.js",
+        "maxDepthExceeded/built/root.js"
     ]
 }

tests/cases/projects/NodeModulesSearch/maxDepthExceeded/tsconfig.json

@@ -1,5 +1,9 @@
 {
   "compilerOptions": { 
-    "allowJs": true
-  }
+    "allowJs": true,
+    "maxNodeModuleJsDepth": 1, // Note: Module m1 is already included as a root file
+    "outDir": "built"
+  },
+  "include": ["**/*"],
+  "exclude": ["node_modules/m2/**/*"]
 }