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using command line tools on Windows

Hello,

I just started working with a couple of other people on firmware for a BT dongle. 

The existing codebase/software build is based on Linux environment using command line tools.

I have a Windows machine and I started working on SES IDE, which seemed to be recommended/popular for Windows.

But now I'm having trouble in integrating the code with other members using Linux and Command Line. 

Being new to the firmware world, I cannot find a good tutorial for using command line tools on Windows(after installing nRF jprog). Is there one available? 

Is there a way to integrate SES based code with Linux command line based environment?

Please advice,

Thanks

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