Unable to build command based program

[Oldgoer]

Our team is moving towards a new command based program for our future robots and are having an issue that makes no sense. when we attempt to build ANY command based program (including a new unaltered void project) we get a fatal error:

Info: Internal Builder is used for build
arm-frc-linux-gnueabi-g++ -std=c++1y "-IC:\\Users\\PiBotics/wpilib/cpp/current/include" "-IC:\\Users\\PiBotics\\workspace\\null command based\\src" -O0 -g3 -Wall -c -fmessage-length=0 -o "src\\OI.o" "..\\src\\OI.cpp"
In file included from ..\src\OI.h:4:0,
from ..\src\OI.cpp:1:
C:\Users\PiBotics/wpilib/cpp/current/include/WPILib.h:14:28: fatal error: ../CommandBase.h: No such file or directory
#include "../CommandBase.h"
^
compilation terminated.

I am unable to see why this error is occurring. it looks like it is pointing to not finding the CommandBase.h file which is clearly in the src folder of the project project