fix: file not synced after switch sync method -[INS-4347]

[CurryYangxx]

Issue detail
Sometimes after switch sync method. The file has become not synced.

Root cause
When using models.xx.update function, sometimes will update model by stale data. After switch to Insomnia Sync, we will delete gitRepositoryId in workspaceMeta and delete the corresponding gitrepository. But the workspaceMeta will be overwritten by the stale data, so there is gitRepositoryId in meta but no
gitrepository data.

[CurryYangxx]

I think we need try to use updateByParentId rather than update in most case.