You could for example try using:
git add .
git diff head >> mychanges.diff
to save your changes just incase something goes wrong.
Also take up the commit you are on at the moment for example from the server startup or .server info or with git log command in git.
Then try pulling again. so git pull
Use the SQL files generated to the update folders to your DB (only the new SQLs, see created date for example)
recompile, fix compile errors.
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