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Adding SSH Keys for Git Submodules

I'm trying to get submodules working for a Bamboo build plan. The build plan checks out a single repository with the submodules enabled checked I get the following error when the build plan goes to clone the submodules: Permission denied (publickey).
fatal: Could not read from remote repository.
Please make sure you have the correct access rights

This build plan runs on a remote agent (Windows), The bamboo remote agent is running as a service.

I created and ssh key pair on the remote agent and added the .pub key to the submodule repositories.

When I've gotten this error in the past its usually due to the ssh-agent not using the correct private key file. Any idea how to configure the bamboo remote agent service to use the correct private key?

Another idea I had was to use the core.sshCommand in git to configure the ssh command to always use this private key example:

git config --system core.sshCommand "ssh -i <some path>/.ssh/id_rsa" 

Has anyone tried that? 

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