Your local changes to the following files would be overwritten by merge

[Emblaze3523]

Hello.

I am trying to update bookstack (v0.28.3 > v0.29.3) using the following command from wiki:
sudo git pull origin release && composer install --no-dev && sudo php artisan migrate

I get an error telling me the following:
error: Your local changes to the following files would be overwritten by merge:
.env.example.complete
.github/translators.txt
.github/workflows/phpunit.yml
app/Actions/Activity.php
app/Actions/ActivityService.php
app/Actions/Comment.php
app/Actions/CommentRepo.php
app/Api/ApiDocsGenerator.php
app/Api/ListingResponseBuilder.php
app/Auth/Access/Guards/LdapSessionGuard.php
app/Auth/Access/RegistrationService.php
app/Auth/User.php
app/Config/snappy.php
app/Console/Commands/ClearViews.php
app/Console/Commands/CopyShelfPermissions.php
app/Console/Commands/DeleteUsers.php
app/Console/Commands/RegeneratePermissions.php
app/Console/Commands/RegenerateSearch.php
app/Entities/Book.php
app/Entities/Bookshelf.php
app/Entities/Repos/BookshelfRepo.php
app/Exceptions/NotifyException.php
app/Http/Controllers/Auth/ForgotPasswordController.php
app/Http/Controllers/Auth/LoginController.php
app/Http/Controllers/Auth/ResetPasswordController.php
app/Http/Controllers/BookController.php
app/Http/Controllers/BookshelfController.php
app/Http/Controllers/CommentController.php
app/Http/Controllers/Controller.php
app/Http/Controllers/HomeController.php
app/Http/Controllers/Images/DrawioImageController.php
app/Http/Controllers/UserController.php
app/Http/Kernel.php
app/Ownable.php
app/Providers/AppServiceProvider.php
app/Uploads/ImageRepo.php
composer.json
composer.lock
dev/api/responses/books-read.json
package-lock.json
package.json
public/.htaccess
public/dist/app.js
public/dist/export-styles.css
public/dist/print-styles.css
public/dist/styles.css
public/libs/tinymce/plugins/help/plugin.min.js
public/libs/tinymce/plugins/image/plugin.min.js
public/libs/tinymce/plugins/imagetools/plugin.min.js
public/libs/tinymce/plugins/lists/plugin.min.js
public/libs/tinymce/plugins/paste/plugin.min.js
public/libs/tinymce/plugins/print/plugin.min.js
public/libs/tinymce/plugins/table/plugin.min.js
public/libs/tinymce/plugins/textpattern/plugin.min.js
public/libs/tinymce/plugins/visualchars/plugin.min.js
public/libs/tinymce/plugins/wordcount/plugin.min.js
public/libs/tinymce/skins/lightgray/content.inline.min.css
public/libs/tinymce/skins/lightgray/content.min.css
public/libs/tinymce/tinymce.min.js
resources/js/components/book-sort.js
resources/js/components/dropdown.js
resources/js/components/markdown-editor.js
resources/js/components/notification.js
resources/js/components/page-comments.js
resources/js/components/template-manager.js
resources/js/components/wysiwyg-editor.js
resources/js/services/code.js
resources/js/services/drawio.js
resources/js/vues/code-editor.js
resources/js/vues/components/autosuggest.js
resources/js/vues/page-editor.js
resources/lang/ar/auth.php
resources/lang/ar/common.php
resources/lang/ar/passwords.php
resources/lang/cs/auth.php
resources/lang/cs/common.php
resources/lang/cs/passwords.php
resources/lang/cs/settings.php
resources/lang/da/auth.php
resources/lang/da/common.php
resources/lang/da/passwords.php
resources/lang/da/settings.php
resources/lang/de/auth.php
resources/lang/de/common.php
resources/lang/de/errors.php
resources/lang/de/passwords.php
resources/lang/de/settings.php
resources/lang/de_informal/auth.php
resources/lang/de_informal/common.php
resources/lang/de_informal/errors.php
resources/lang/de_informal/passwords.php
resources/lang/de_informal/settings.php
resources/lang/en/auth.php
resources/lang/en/common.php
resources/lang/en/passwords.php
resources/lang/es/auth.php
resources/lang/es/common.php
resources/lang/es/passwords.php
resources/lang/es/settings.php
resources/lang/es_AR/auth.php
resources/lang/es_AR/common.php
resources/lang/es_AR/passwords.php
resources/lang/es_AR/settings.php
resources/lang/fa/auth.php
resources/lang/fa/common.php
resources/lang/fa/passwords.php
resources/lang/fa/settings.php
resources/lang/fr/auth.php
resources/lang/fr/common.php
resources/lang/fr/errors.php
resources/lang/fr/passwords.php
resources/lang/fr/settings.php
resources/lang/he/auth.php
resources/lang/he/common.php
resources/lan
Aborting

I tried searching for this issue online, and found something on stackoverflow. Knowing I had a working backup lying around, I tried running:
git reset --hard.
Turns out it cleared the user file (along with many other), so I reverted the server from backup.

It does look like I can use git checkout (FILE), but that would first off take some time to go through, and secondly (not too good with the git command), wouldn't that delete some stuff I need?

Have I done something wrong?

[ssddanbrown]

Hi @7uppi ,

This can often be due to permissions. You could try telling git to ignore these files by running git config core.fileMode false in your BookStack install folder. That may fix this by itself. Otherwise, if not, running `git diff package.json may provide some clues as to what's changed.

Turns out it cleared the user file (along with many other), so I reverted the server from backup.

I would be surprised by git reset clearing out any files unless you've added files into this folder. You can always backup the directly, perform a hard reset, then copy back in any non-repo files/folders.

[Emblaze3523]

You could try telling git to ignore these files by running git config core.fileMode false...

Thank you very much @ssddanbrown. After running the first git command, it went through with the update.
Everything still seems to be there, so I am going to close this.
Have a great day.