Unable to update: You have local changes in `/Users/me/.local/share/nvim/lazy/copilot.lua

[NeckBeardPrince]

I run into this issue every once in a while, and then it will randomly fix itself. I've deleted ~/..local/share/nvim/lazy/copilot.lua and when it re-clones it does the same thing.

  Failed (1)
    ● copilot.lua 78.03ms ✔ build
        You have local changes in `/Users/me/.local/share/nvim/lazy/copilot.lua`:
          * copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
          * copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
        Please remove them to update.
        You can also press `x` to remove the plugin and then `I` to install it again.
        copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
        copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
        You have local changes in `/Users/me/.local/share/nvim/lazy/copilot.lua`:
          * copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
          * copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
        Please remove them to update.
        You can also press `x` to remove the plugin and then `I` to install it again.

[AntoineGS]

If you run git diff from inside the copilot.lua folder it might give us a clue what is going on there.
I have not run into this issue myself though.
Which plugin manager are you using? (Lazyvim, Pack, etc.)

[NeckBeardPrince]

If you run git diff from inside the copilot.lua folder it might give us a clue what is going on there. I have not run into this issue myself though. Which plugin manager are you using? (Lazyvim, Pack, etc.)

Using Lazyvim.

❯ gs
## master...origin/master
 M copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
 M copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js

diff --git a/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js b/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
index 5240303..49f6a55 100644
--- a/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
+++ b/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
@@ -1,39 +1,39 @@
 var emnapi = (function (exports) {
 
-    /******************************************************************************
-    Copyright (c) Microsoft Corporation.
-
-    Permission to use, copy, modify, and/or distribute this software for any
-    purpose with or without fee is hereby granted.
-
-    THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH
-    REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY
-    AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT,
-    INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM
-    LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
-    OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
-    PERFORMANCE OF THIS SOFTWARE.
-    ***************************************************************************** */
-    /* global Reflect, Promise, SuppressedError, Symbol, Iterator */
-
-    var extendStatics = function(d, b) {
-        extendStatics = Object.setPrototypeOf ||
-            ({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
-            function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
-        return extendStatics(d, b);
-    };
-
-    function __extends(d, b) {
-        if (typeof b !== "function" && b !== null)
-            throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
-        extendStatics(d, b);
-        function __() { this.constructor = d; }
-        d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
-    }
-
-    typeof SuppressedError === "function" ? SuppressedError : function (error, suppressed, message) {
-        var e = new Error(message);
-        return e.name = "SuppressedError", e.error = error, e.suppressed = suppressed, e;
+    /******************************************************************************
+    Copyright (c) Microsoft Corporation.
+
+    Permission to use, copy, modify, and/or distribute this software for any
+    purpose with or without fee is hereby granted.
+
+    THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH
+    REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY
+    AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT,
+    INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM
+    LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
+    OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
+    PERFORMANCE OF THIS SOFTWARE.
+    ***************************************************************************** */
+    /* global Reflect, Promise, SuppressedError, Symbol, Iterator */
+
+    var extendStatics = function(d, b) {
+        extendStatics = Object.setPrototypeOf ||
+            ({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
+            function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
+        return extendStatics(d, b);
+    };
+
+    function __extends(d, b) {
+        if (typeof b !== "function" && b !== null)
+            throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
+        extendStatics(d, b);
+        function __() { this.constructor = d; }
+        d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
+    }
+
+    typeof SuppressedError === "function" ? SuppressedError : function (error, suppressed, message) {
+        var e = new Error(message);
+        return e.name = "SuppressedError", e.error = error, e.suppressed = suppressed, e;
     };
 
     var externalValue = new WeakMap();
diff --git a/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js b/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
index 3d68b9a..fb8a183 100644
--- a/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
+++ b/copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
@@ -3,40 +3,40 @@
     typeof define === 'function' && define.amd ? define(['exports'], factory) :
     (global = typeof globalThis !== 'undefined' ? globalThis : global || self, factory(global.emnapi = {}));
 })(this, (function (exports) {
-    /******************************************************************************
-    Copyright (c) Microsoft Corporation.
-
-    Permission to use, copy, modify, and/or distribute this software for any
-    purpose with or without fee is hereby granted.
-
-    THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH
-    REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY
-    AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT,
-    INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM
-    LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
-    OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
-    PERFORMANCE OF THIS SOFTWARE.
-    ***************************************************************************** */
-    /* global Reflect, Promise, SuppressedError, Symbol, Iterator */
-
-    var extendStatics = function(d, b) {
-        extendStatics = Object.setPrototypeOf ||
-            ({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
-            function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
-        return extendStatics(d, b);
-    };
-
-    function __extends(d, b) {
-        if (typeof b !== "function" && b !== null)
-            throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
-        extendStatics(d, b);
-        function __() { this.constructor = d; }
-        d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
-    }
-
-    typeof SuppressedError === "function" ? SuppressedError : function (error, suppressed, message) {
-        var e = new Error(message);
-        return e.name = "SuppressedError", e.error = error, e.suppressed = suppressed, e;
+    /******************************************************************************
+    Copyright (c) Microsoft Corporation.
+
+    Permission to use, copy, modify, and/or distribute this software for any
+    purpose with or without fee is hereby granted.
+
+    THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH
+    REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY
+    AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT,
+    INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM
+    LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
+    OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
+    PERFORMANCE OF THIS SOFTWARE.
+    ***************************************************************************** */
+    /* global Reflect, Promise, SuppressedError, Symbol, Iterator */
+
+    var extendStatics = function(d, b) {
+        extendStatics = Object.setPrototypeOf ||
+            ({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
+            function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
+        return extendStatics(d, b);
+    };
+
+    function __extends(d, b) {
+        if (typeof b !== "function" && b !== null)
+            throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
+        extendStatics(d, b);
+        function __() { this.constructor = d; }
+        d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
+    }
+
+    typeof SuppressedError === "function" ? SuppressedError : function (error, suppressed, message) {
+        var e = new Error(message);
+        return e.name = "SuppressedError", e.error = error, e.suppressed = suppressed, e;
     };
 
     var externalValue = new WeakMap();

[NeckBeardPrince]

Root Cause Analysis

This is a line-ending normalization issue in git, not actual local modifications.

What's happening

The two affected files live under copilot/js/node_modules/@emnapi/runtime/dist/ and were committed with mixed line endings (some lines CRLF, some LF):

$ git ls-files --eol -- copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
i/mixed w/mixed attr/text

The key is attr/text -- git is treating these JS files as text files subject to EOL normalization. The repo's .gitattributes sets:

/copilot/dist/** -whitespace -diff
/dist/** -whitespace -diff
*.lua eol=lf

But there's no rule covering copilot/js/node_modules/**. Git's default text=auto heuristic kicks in, detects the files as text, and flags them for CRLF-to-LF normalization. This makes git status permanently report them as modified even though the content is identical:

$ git diff --ignore-cr-at-eol -- copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js
(empty -- no actual content diff)

Why it's intermittent

The "randomly fixes itself" behavior likely depends on whether git's index cache has been refreshed. Running git checkout -- . or certain git operations can temporarily clear the status, but it comes back because the underlying attr/text + mixed EOL combination persists.

Suggested Fix

Add a rule to .gitattributes to exclude vendored node_modules from text normalization:

copilot/js/node_modules/** -text -diff -whitespace

Then re-normalize the index:

git rm --cached copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
git add copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.iife.js copilot/js/node_modules/@github/copilot/sdk/sharp/node_modules/@emnapi/runtime/dist/emnapi.js
git commit -m "fix: exclude vendored node_modules from EOL normalization"

This would prevent git from ever flagging these files as modified due to line endings, which in turn unblocks lazy.nvim updates.

Workaround (for affected users)

Until this is fixed upstream, you can add a local-only git attributes override that won't show as a modified file:

mkdir -p ~/.local/share/nvim/lazy/copilot.lua/.git/info
echo 'copilot/js/node_modules/**/*.js -text -diff' >> ~/.local/share/nvim/lazy/copilot.lua/.git/info/attributes

[AntoineGS]

Thanks :) You might have to do the reset one more time now that it has been fixed