diff --git a/snapshots/updates.test.js.snap b/snapshots/updates.test.js.snap
index 32fc145..6c39644 100644
--- a/snapshots/updates.test.js.snap
+++ b/snapshots/updates.test.js.snap
@@ -109,6 +109,21 @@ exports[`dual 1`] = `
 }
 `;
 
+exports[`dual 2`] = `
+{
+  "npm": {
+    "dependencies": {
+      "noty": {
+        "age": "5 years",
+        "info": "https://github.com/needim/noty",
+        "new": "3.2.0-beta",
+        "old": "3.1.0",
+      },
+    },
+  },
+}
+`;
+
 exports[`exclude 1`] = `
 {
   "npm": {
@@ -263,7 +278,7 @@ exports[`include 1`] = `
 }
 `;
 
-exports[`include 2 1`] = `
+exports[`include 2`] = `
 {
   "npm": {
     "dependencies": {
@@ -278,7 +293,7 @@ exports[`include 2 1`] = `
 }
 `;
 
-exports[`include 3 1`] = `
+exports[`include 3`] = `
 {
   "npm": {
     "dependencies": {
diff --git a/updates.js b/updates.js
index 41e7c3a..d05c338 100755
--- a/updates.js
+++ b/updates.js
@@ -760,17 +760,17 @@ async function main() {
   for (const file of resolveFiles) {
     const projectDir = dirname(resolve(file));
     const filename = basename(file);
-    let config = {};
 
     let mode;
-    if (filename === "package.json") {
-      mode = "npm";
-    } else {
+    if (filename === "pyproject.toml") {
       mode = "pypi";
+    } else {
+      mode = "npm";
     }
     filePerMode[mode] = file;
     if (!deps[mode]) deps[mode] = {};
 
+    let config = {};
     try {
       config = (await import(join(projectDir, "updates.config.js"))).default;
     } catch {
@@ -779,6 +779,16 @@ async function main() {
       } catch {}
     }
 
+    let includeCli, excludeCli;
+    if (args.include && args.include !== true) { // cli
+      includeCli = (Array.isArray(args.include) ? args.include : [args.include]).flatMap(item => item.split(","));
+    }
+    if (args.exclude && args.exclude !== true) {
+      excludeCli = (Array.isArray(args.exclude) ? args.exclude : [args.exclude]).flatMap(item => item.split(","));
+    }
+    const include = matchersToRegexSet(includeCli, config?.include);
+    const exclude = matchersToRegexSet(excludeCli, config?.exclude);
+
     const agentOpts = {};
     if (mode === "npm") {
       if (npmrc["strict-ssl"] === false) {
@@ -835,17 +845,6 @@ async function main() {
       throw new Error(`Error parsing ${file}: ${err.message}`);
     }
 
-    let includeCli, excludeCli;
-    if (args.include && args.include !== true) { // cli
-      includeCli = (Array.isArray(args.include) ? args.include : [args.include]).flatMap(item => item.split(","));
-    }
-    if (args.exclude && args.exclude !== true) {
-      excludeCli = (Array.isArray(args.exclude) ? args.exclude : [args.exclude]).flatMap(item => item.split(","));
-    }
-
-    const include = matchersToRegexSet(includeCli, config?.include);
-    const exclude = matchersToRegexSet(excludeCli, config?.exclude);
-
     for (const depType of dependencyTypes) {
       let obj;
       if (mode === "npm") {
@@ -872,11 +871,7 @@ async function main() {
     numDependencies += Object.keys(maybeUrlDeps).length;
 
     if (!Object.keys(deps[mode]).length && !Object.keys(maybeUrlDeps).length) {
-      if (include.size || exclude.size) {
-        throw new Error(`No dependencies match the given include/exclude filters`);
-      } else {
-        continue;
-      }
+      continue;
     }
 
     let registry;
@@ -957,7 +952,7 @@ async function main() {
   }
 
   if (numDependencies === 0) {
-    console.info("No dependencies present, nothing to do");
+    console.info("No dependencies found, nothing to do");
     doExit();
   }
 
diff --git a/updates.test.js b/updates.test.js
index a481bca..e215530 100644
--- a/updates.test.js
+++ b/updates.test.js
@@ -171,11 +171,12 @@ test("prerelease", makeTest("-j -g -p"));
 test("release", makeTest("-j -R"));
 test("patch", makeTest("-j -P"));
 test("include", makeTest("-j -i noty"));
-test("include 2", makeTest("-j -i noty -i noty,noty"));
-test("include 3", makeTest("-j -i /^noty/"));
+test("include", makeTest("-j -i noty -i noty,noty"));
+test("include", makeTest("-j -i /^noty/"));
 test("exclude", makeTest("-j -e gulp-sourcemaps,prismjs,svgstore,html-webpack-plugin,noty,jpeg-buffer-orientation,styled-components,@babel/preset-env,versions/updates,react"));
 test("exclude", makeTest("-j -e gulp-sourcemaps -i /react/"));
 test("exclude", makeTest("-j -i gulp*"));
 test("exclude", makeTest("-j -i /^gulp/ -P gulp*"));
 test("pypi", makeTest(`-j -f ${poetryFile}`));
 test("dual", makeTest(`-j -f ${dualFile}`));
+test("dual", makeTest(`-j -f ${dualFile} -i noty`));