It turns out that while I was running Ubuntu 17.10, it had been upgraded from 17.04 and that upgrade had left the Unity UI installed and active. So the reason why I was not seeing the GNOME shell extension options in the tweaker tool was due to the fact that it was actually Unity and GNOME I was in. One hell of a noob mistake.
Once I switched to GNOME, it was all working and I am much happier with GNOME over Unity.
It finished, but with these errors:
Step 4: Cleaning up old cached files:
--------------------------------------------------------
-- No bootstrap/cache/compiled.php, so nothing to delete.
-- Deleting bootstrap/cache/services.php. It it no longer used.
-- Deleting bootstrap/cache/config.php. It it no longer used.
--
In ProviderRepository.php line 208:
Class 'PragmaRX\Google2FALaravel\ServiceProvider' not found
--
In ProviderRepository.php line 208:
Class 'PragmaRX\Google2FALaravel\ServiceProvider' not found
--
In ProviderRepository.php line 208:
Class 'PragmaRX\Google2FALaravel\ServiceProvider' not found
--
In ProviderRepository.php line 208:
Class 'PragmaRX\Google2FALaravel\ServiceProvider' not found
And
--------------------------------------------------------
Step 5: Updating composer dependencies:
(This may take an moment.)
--------------------------------------------------------
-- We couldn't find a local composer.phar - trying globally.
Cannot create cache directory /home/jcoombes/.composer/cache/repo/https---repo.packagist.org/, or directory is not writable. Proceeding without cache
Cannot create cache directory /home/jcoombes/.composer/cache/files/, or directory is not writable. Proceeding without cache
<snip>
Generating optimized autoload files
> Illuminate\Foundation\ComposerScripts::postAutoloadDump
> @php artisan package:discover
In ProviderRepository.php line 208:
Class 'PragmaRX\Google2FALaravel\ServiceProvider' not found
<snip>
Package manifest generated successfully.
But other than that it appears to have worked out just fine.
Are there any security concerns with the .git files now being owned by www-data with 755 permissions?