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ary directory (this step might not be necessary since I've seen Unity recreating the Library directory even if you don't hold down any key).

Make git ignore the Library and Temp directories so that they won’t be pushed to the server. Add them to the .gitignore file and push the ignore to the server. Remember that you'll only commit the Assets and ProjectSettings directories.
And here's my own .gitignore recipe for my Unity projects (I work on a Macbook):

# =============== #
# Unity generated #
# =============== #
Temp/
Obj/
UnityGenerated/
Library/
Assets/AssetStoreTools*

# ===================================== #
# Visual Studio / MonoDevelop generated #
# ===================================== #
ExportedObj/
*.svd
*.userprefs
*.csproj
*.pidb
*.suo
*.sln
*.user
*.unityproj
*.booproj

# ============ #
# OS generated #
# ============ #
.DS_Store
.DS_Store?
._*
.Spotlight-V100
.Trashes
Icon?
ehthumbs.db
Thumbs.db