correctly shallow copy nested element for includes

src/command/render/freeze.ts

@@ -53,8 +53,10 @@ export function freezeExecuteResult(
   result: ExecuteResult,
 ) {
   // resolve includes within executeResult
+  // nb: Beware to not modify the original result object
   const innerResult = {
     ...result,
+    includes: result.includes ? { ...result.includes } : undefined,
   } as ExecuteResult;
   const resolveIncludes = (
     name: "include-in-header" | "include-before-body" | "include-after-body",

tests/.gitignore

@@ -1,8 +1,8 @@
 # Python Environments
 .env
 .venv
-env/
-venv/
+/env/
+/venv/
 ENV/
 env.bak/
 venv.bak/

tests/docs/smoke-all/2024/06/19/9208.qmd

@@ -8,8 +8,8 @@ _quarto:
     html:
       noErrors: true
       printsMessage:
-        - WARN
-        - 'code-link.*ignored'
+        level: WARN
+        regex: 'code-link.*ignored'
       ensureHtmlElements:
         - []
         - ['pre.downlit']

tests/docs/smoke-all/2024/08/30/10291/latex-hyphen-lang-es-no-install.qmd

@@ -7,8 +7,8 @@ _quarto:
     pdf:
       noErrors: true 
       printsMessage:
-        - WARN
-        - 'missing hyphenation.*hyphen-spanish'
+        level: WARN
+        regex: 'missing hyphenation.*hyphen-spanish'
 ---
 
 ```{r}

tests/docs/smoke-all/2024/09/30/10931-2.qmd

@@ -5,8 +5,8 @@ _quarto:
   tests:
     pptx:
       printsMessage:
-        - INFO
-        - 'WARNING.*FloatRefTargets require'
+        level: INFO
+        regex: 'WARNING.*FloatRefTargets require'
       ensurePptxXpath:
       - 
         - 2

tests/docs/smoke-all/2025/03/05/12204/.gitignore

@@ -0,0 +1 @@
+/.quarto/

tests/docs/smoke-all/2025/03/05/12204/_quarto.yml

@@ -0,0 +1,2 @@
+project:
+  type: default

tests/docs/smoke-all/2025/03/05/12204/index.qmd

@@ -0,0 +1,15 @@
+---
+format: html
+engine: julia
+_quarto:
+  tests: 
+    html:
+      printsMessage:
+        level: INFO
+        regex: 'FATAL[\s\S]*Error resolving header-includes'
+        negate: true
+---
+
+```{julia}
+?for
+```

tests/docs/smoke-all/crossrefs/float/latex/latex-raw-table-env-no-tbl-label.qmd

@@ -9,8 +9,8 @@ _quarto:
         - ['[\s\S]+\\begin\{table\}\[htbp\][\s\S]+', '[\s\S]+\\caption\{\\label\{mod\}']
         - []
       printsMessage:
-        - INFO
-        - 'WARNING(.*)Raw LaTeX table found with non-tbl label:' 
+        level: INFO
+        regex: 'WARNING(.*)Raw LaTeX table found with non-tbl label:' 
 ---
 
 This document has a raw LaTeX table with no intent to use quarto crossref. It uses a label with `tbl-` id.

tests/smoke/env/check.test.ts

@@ -12,6 +12,6 @@ testQuartoCmd(
   [],
   [
     noErrorsOrWarnings,
-    printsMessage("INFO", /Version: 99\.9\.9/),
+    printsMessage({level: "INFO", regex: /Version: 99\.9\.9/}),
   ],
 );

tests/smoke/env/install.test.ts

@@ -12,8 +12,8 @@ testQuartoCmd(
   ["list"],
   [
     noErrorsOrWarnings,
-    printsMessage("INFO", /tinytex\s+/),
-    // printsMessage("INFO", /chromium\s+/),
+    printsMessage({level: "INFO", regex: /tinytex\s+/}),
+    // printsMessage({level: "INFO", regex: /chromium\s+/}),
     // temporarily disabled until we get puppeteer back
   ],
 );

tests/smoke/jupyter/cache.test.ts

@@ -41,7 +41,7 @@ test({
   verify: [
     folderExists(cacheFolder),
     // this will check only for the second render that should be read from cache
-    printsMessage("INFO", /Notebook read from cache/)
+    printsMessage({ level: "INFO", regex: /Notebook read from cache/})
   ],
   type: "smoke",
 });
@@ -82,7 +82,7 @@ test({
   verify: [
     folderExists(cacheFolder2),
     // this will check only for the second render that should be read from cache
-    printsMessage("INFO", /Notebook read from cache/)
+    printsMessage({level: "INFO", regex: /Notebook read from cache/})
   ],
   type: "smoke",
 });

tests/smoke/project/project-prepost.test.ts

@@ -36,7 +36,7 @@ testQuartoCmd(
 
 
 
-// Tests that if the pre-renderf script mutates the output directory
+// Tests that if the pre-render script mutates the output directory
 // we throw an error that complains about this.
 const mutateRenderDir = docs("project/prepost/invalid-mutate");
 const mutateRenderDirAbs = join(Deno.cwd(), mutateRenderDir);
@@ -45,7 +45,7 @@ const mutateRenderOutDir = join(mutateRenderDirAbs, "_site");
 testQuartoCmd(
   "render",
   [mutateRenderDir],
-  [printsMessage("ERROR", /output-dir may not be mutated/gm)],
+  [printsMessage({level: "ERROR", regex: /output-dir may not be mutated/gm})],
   {
     teardown: async () => {
       const mdClean = join(mutateRenderDirAbs, "_metadata.yml");

tests/smoke/smoke-all.test.ts

@@ -160,7 +160,7 @@ function resolveTestSpecs(
               verifyFns.push(verifyMap[key](outputFile.outputPath, ...value));
             }
           } else if (key === "printsMessage") {
-            verifyFns.push(verifyMap[key](...value));
+            verifyFns.push(verifyMap[key](value));
           } else if (verifyMap[key]) {
             // FIXME: We should find another way that having this requirement of keep-* in the metadata
             if (key === "ensureTypstFileRegexMatches") {
@@ -325,7 +325,7 @@ Promise.all(testFilesPromises).then(() => {
   for (const project of testedProjects) {
     // Clean project output directory
     const projectOutDir = join(project, findProjectOutputDir(project));
-    if (safeExistsSync(projectOutDir)) {
+    if (projectOutDir !== project && safeExistsSync(projectOutDir)) {
       safeRemoveSync(projectOutDir, { recursive: true });
     }
     // Clean hidden .quarto directory

tests/smoke/use/template.test.ts

@@ -39,7 +39,7 @@ ensureDirSync(nonEmptyWorkingDir);
 testQuartoCmd(
   "use",
   ["template", "quarto-journals/jasa", "--no-prompt"],
-  [printsMessage("ERROR", /directory isn't empty/), directoryContainsOnlyAllowedPaths(nonEmptyWorkingDir, [nonEmptyFileName])],
+  [printsMessage({level: "ERROR", regex: /directory isn't empty/}), directoryContainsOnlyAllowedPaths(nonEmptyWorkingDir, [nonEmptyFileName])],
   {
     setup: () => {
       Deno.writeTextFileSync(join(nonEmptyWorkingDir, nonEmptyFileName), "Just making a non-empty file!");

tests/smoke/yaml-intelligence/yaml-intelligence-code-cell-options.test.ts

@@ -8,7 +8,7 @@ const testYamlValidationFails = (file: string) => {
   testQuartoCmd(
     "render",
     [yamlDocs(file, "html").input, "--to", "html", "--quiet"],
-    [printsMessage("ERROR", /Validation of YAML cell metadata failed/)],
+    [printsMessage({level: "ERROR", regex: /Validation of YAML cell metadata failed/})],
   );
 };
 

tests/smoke/yaml/config-yaml-validation.test.ts

@@ -14,5 +14,5 @@ const input = docs("yaml/bad-config-yaml/subfolder/bad-config-yaml.qmd");
 testQuartoCmd(
   "render",
   [input],
-  [printsMessage("ERROR", /bad-config-yaml[\/\\]+_quarto[.]yml validation failed/)]
+  [printsMessage({level: "ERROR", regex: /bad-config-yaml[\/\\]+_quarto[.]yml validation failed/})]
 );

tests/verify.ts

@@ -133,20 +133,26 @@ export const noErrorsOrWarnings: Verify = {
   },
 };
 
-export const printsMessage = (
-  level: "DEBUG" | "INFO" | "WARN" | "ERROR",
-  regex: RegExp | string,
-): Verify => {
+export const printsMessage = (options: {
+  level: "DEBUG" | "INFO" | "WARN" | "ERROR";
+  regex: string | RegExp;
+  negate?: boolean;
+}): Verify => {
+  const { level, regex: regexPattern, negate = false } = options;  // Set default here
   return {
-    name: `${level} matches ${String(regex)}`,
+    name: `${level} matches ${String(regexPattern)}`,
     verify: (outputs: ExecuteOutput[]) => {
-      if (typeof regex === "string") {
-        regex = new RegExp(regex);
-      }
+      const regex = typeof regexPattern === "string" 
+      ? new RegExp(regexPattern) 
+      : regexPattern;
+
       const printedMessage = outputs.some((output) => {
         return output.levelName === level && output.msg.match(regex);
       });
-      assert(printedMessage, `Missing ${level} ${String(regex)}`);
+      assert(
+        negate ? !printedMessage : printedMessage, 
+        `${negate ? "Found" : "Missing"} ${level} ${String(regex)}`
+      );
       return Promise.resolve();
     },
   };