Git repository setup error 'This operation must be run in a work tree'

[requarks]

Git repository setup error 'This operation must be run in a work tree'

[NGPixel]

There's indeed an issue when using SSH authentication. I'll look into a fix asap. In the meantime, you can use basic authentication (using github personal access tokens) to get started.

Also, check your /home/wiki/wikijs/repo/ folder permissions/group. Wiki.js is unable to create the uploads sub-folder during initialization.

[cbebry]

Thanks for the quick reply! I look forward to the SSH auth solution :)

Oddly enough it looks like the upload folder was created fine even with the error. I checked the permissions and they're all default owned to the repository user.

[NGPixel]

You're right, I just verified that permissions check function call and there was a typo in the folder name. You can manually create a folder named "upload" (without a "s") as a temporary workaround to silence that error.

[NGPixel]

SSH authentication should now be working. Upgrade to Beta 4.

Note that you will need to delete your local repo folder before starting the app again. It will then be created again using the correct config.

You must also remove the "publicKey" entry from your config.yml. Also make sure your private key is not encrypted with a passphrase. The connection will fail otherwise, unless you have configured your ssh-agent to handle the passphrase prompt.

Nick

[cbebry]

Thanks for looking into and programming something for the issue so fast.

I trashed my wiki folder and downloaded the latest (beta5). However I had some git issues appear still, and it looks similar to my original issue.

wiki@service:~/wikijs$ node server.js
2017-02-13T05:17:23.833Z - info: [SERVER] Wiki.js is initializing...
2017-02-13T05:17:24.183Z - info: [SERVER.Local] Checking data directories...
2017-02-13T05:17:24.185Z - info: [SERVER.Local] Data and Repository directories are OK.
2017-02-13T05:17:24.567Z - info: [SERVER.Git] Checking Git repository...
2017-02-13T05:17:25.472Z - info: [SERVER] Starting HTTP/WS server on port 6467...
2017-02-13T05:17:25.490Z - info: [SERVER] HTTP/WS server started successfully! [RUNNING]
2017-02-13T05:17:25.530Z - info: [SERVER.Search] Search index flushed and ready.
2017-02-13T05:17:25.599Z - info: [AGENT] Background Agent is initializing...
2017-02-13T05:17:25.614Z - info: [SERVER.Git] Git repository is OK.
2017-02-13T05:17:26.344Z - info: [AGENT.Git] Checking Git repository...
2017-02-13T05:17:26.675Z - info: [AGENT] Running all jobs...
2017-02-13T05:17:26.747Z - info: [AGENT.Git] Git repository is OK.
2017-02-13T05:17:26.761Z - info: [AGENT.Git] Performing pull from remote repository...
2017-02-13T05:17:27.061Z - error: [AGENT.Git] Unable to fetch from git origin!
2017-02-13T05:17:27.061Z - error: [AGENT][GIT] Unable to push changes to remote!
2017-02-13T05:17:27.063Z - error: [AGENT] One or more jobs have failed:  
{ code: 128,
  message: '`git --git-dir=repo/.git --work-tree=repo pull origin master` failed with code 128',
  stderr: 'From github.com:spectrumbranch/edu.spectrumbranch.com\n * branch            master     -> FETCH_HEAD\nfatal: This operation must be run in a work tree\n',
  stdout: '' }

I modified my config file as you mentioned, so here is its current state:

git:
  url: [email protected]:spectrumbranch/edu.spectrumbranch.com.git
  branch: master
  auth:
    type: ssh
    privateKey: /home/wiki/.ssh/id_rsa
    sslVerify: true
  signature:
    name: omitted
    email: omitted

Could there be anything else that I am doing wrong?

By the way I no longer see the upload folder error so that is positive!
Thanks again.

[NGPixel]

In your wikijs/repo folder, do you have a .git subfolder?
If yes, can you paste the contents of wikijs/repo/.git/config?

Thanks

[cbebry]

Yes and yes:

wiki@service:~/wikijs/repo/.git$ cat config
[core]
	repositoryformatversion = 0
	filemode = true
	bare = false
	logallrefupdates = true
	sshCommand = ssh -i \"/home/wiki/.ssh/id_rsa\" -o StrictHostKeyChecking=no
[user]
	name = omitted
	email = omitted
[http]
	sslVerify = true
[remote "origin"]
	url = [email protected]:spectrumbranch/edu.spectrumbranch.com.git
	fetch = +refs/heads/*:refs/remotes/origin/*

[NGPixel]

Can you try something?

1. Add a new file to your repo (e.g. test.md) on github.com, via the web UI, with random content.
2. Delete the repo folder in your wikijs folder.
3. Start Wiki.js

Any change in the logs?

Thanks

[cbebry]

1.) https://github.com/spectrumbranch/edu.spectrumbranch.com/blob/master/test.md
2 + 3)

wiki@service:~/wikijs$ rm -Rf repo/
wiki@service:~/wikijs$ node server.js 
2017-02-13T05:50:31.118Z - info: [SERVER] Wiki.js is initializing...
2017-02-13T05:50:31.464Z - info: [SERVER.Local] Checking data directories...
2017-02-13T05:50:31.466Z - info: [SERVER.Local] Data and Repository directories are OK.
2017-02-13T05:50:31.853Z - info: [SERVER.Git] Checking Git repository...
2017-02-13T05:50:32.768Z - info: [SERVER] Starting HTTP/WS server on port 6467...
2017-02-13T05:50:32.786Z - info: [SERVER] HTTP/WS server started successfully! [RUNNING]
2017-02-13T05:50:32.827Z - info: [SERVER.Search] Search index flushed and ready.
2017-02-13T05:50:32.895Z - info: [AGENT] Background Agent is initializing...
2017-02-13T05:50:32.944Z - info: [SERVER.Git] Git repository is OK.
2017-02-13T05:50:33.648Z - info: [AGENT.Git] Checking Git repository...
2017-02-13T05:50:33.993Z - info: [AGENT] Running all jobs...
2017-02-13T05:50:34.063Z - info: [AGENT.Git] Git repository is OK.
2017-02-13T05:50:34.064Z - info: [AGENT.Git] Performing pull from remote repository...
2017-02-13T05:50:34.406Z - error: [AGENT.Git] Unable to fetch from git origin!
2017-02-13T05:50:34.407Z - error: [AGENT][GIT] Unable to push changes to remote!
2017-02-13T05:50:34.408Z - error: [AGENT] One or more jobs have failed:  
{ code: 128,
  message: '`git --git-dir=repo/.git --work-tree=repo pull origin master` failed with code 128',
  stderr: 'From github.com:spectrumbranch/edu.spectrumbranch.com\n * branch            master     -> FETCH_HEAD\n * [new branch]      master     -> origin/master\nfatal: This operation must be run in a work tree\n',
  stdout: '' }

[NGPixel]

Which distro/version of linux are you using? I'll setup a VM to try to reproduce your issue, as I can't replicate it from my windows machine.

[cbebry]

I'm currently running a headless Debian "jessie"

wiki@service:~$ cat /etc/debian_version 
8.7
wiki@service:~$ git --version
git version 2.1.4

By the way, thank you. You've invested a lot of time into my issue already and I want to make sure you know I appreciate it.

[NGPixel]

Can you try upgrading git to latest version 2.11.1 ?

Thanks,
Nick

[cbebry]

Interesting! The latest that debian jessie was providing was 2.1.4, so I installed the latest git from debian testing (2.11.0) and I no longer get the git error on startup!

wiki@service:~/wikijs$ node server.js 
2017-02-14T03:55:14.314Z - info: [SERVER] Wiki.js is initializing...
2017-02-14T03:55:14.662Z - info: [SERVER.Local] Checking data directories...
2017-02-14T03:55:14.664Z - info: [SERVER.Local] Data and Repository directories are OK.
2017-02-14T03:55:15.053Z - info: [SERVER.Git] Checking Git repository...
2017-02-14T03:55:15.964Z - info: [SERVER] Starting HTTP/WS server on port 6467...
2017-02-14T03:55:15.982Z - info: [SERVER] HTTP/WS server started successfully! [RUNNING]
2017-02-14T03:55:16.022Z - info: [SERVER.Search] Search index flushed and ready.
2017-02-14T03:55:16.093Z - info: [AGENT] Background Agent is initializing...
2017-02-14T03:55:16.139Z - info: [SERVER.Git] Git repository is OK.
2017-02-14T03:55:16.842Z - info: [AGENT.Git] Checking Git repository...
2017-02-14T03:55:17.172Z - info: [AGENT] Running all jobs...
2017-02-14T03:55:17.254Z - info: [AGENT.Git] Git repository is OK.
2017-02-14T03:55:17.255Z - info: [AGENT.Git] Performing pull from remote repository...
2017-02-14T03:55:17.597Z - info: [AGENT.Git] Pull completed.
2017-02-14T03:55:17.601Z - info: [AGENT.Git] Push skipped. Repository is already in sync.
2017-02-14T03:55:17.682Z - info: [AGENT] All jobs completed successfully! Going to sleep for now.

Thanks for all of your time. I'm looking forward to testing the wiki out :)

[NGPixel]

Glad we could sort this out! Looks like I'll add some more notes to the documentation in regards to the Git version.