brendan helped me add this stuff

quad/xsdk_workspace/modular_quad_pid/.cproject

@@ -108,9 +108,7 @@
 							<tool id="xilinx.gnu.arm.c.toolchain.compiler.release.85270120" name="ARM gcc compiler" superClass="xilinx.gnu.arm.c.toolchain.compiler.release">
 								<option defaultValue="gnu.c.optimization.level.more" id="xilinx.gnu.compiler.option.optimization.level.515686013" name="Optimization Level" superClass="xilinx.gnu.compiler.option.optimization.level" valueType="enumerated"/>
 								<option id="xilinx.gnu.compiler.option.debugging.level.1121150517" name="Debug Level" superClass="xilinx.gnu.compiler.option.debugging.level" value="gnu.c.debugging.level.none" valueType="enumerated"/>
-								<option id="xilinx.gnu.compiler.inferred.swplatform.includes.687694973" name="Software Platform Include Path" superClass="xilinx.gnu.compiler.inferred.swplatform.includes" valueType="includePath">
-									<listOptionValue builtIn="false" value="../../system_bsp/ps7_cortexa9_0/include"/>
-								</option>
+								<option id="xilinx.gnu.compiler.inferred.swplatform.includes.687694973" name="Software Platform Include Path" superClass="xilinx.gnu.compiler.inferred.swplatform.includes" valueType="includePath"/>
 								<option id="xilinx.gnu.compiler.symbols.defined.1562495938" name="Defined symbols (-D)" superClass="xilinx.gnu.compiler.symbols.defined" valueType="definedSymbols">
 									<listOptionValue builtIn="false" value="NDEBUG=1"/>
 								</option>
@@ -119,6 +117,7 @@
 									<listOptionValue builtIn="false" value="&quot;${workspace_loc:/modular_quad_pid/ext/computation_graph}&quot;"/>
 									<listOptionValue builtIn="false" value="&quot;${workspace_loc:/modular_quad_pid/ext/quad_app}&quot;"/>
 									<listOptionValue builtIn="false" value="&quot;${workspace_loc:/modular_quad_pid/ext/queue}&quot;"/>
+									<listOptionValue builtIn="false" value="&quot;${workspace_loc:/modular_quad_pid/ext/commands}&quot;"/>
 								</option>
 								<inputType id="xilinx.gnu.arm.c.compiler.input.846429887" name="C source files" superClass="xilinx.gnu.arm.c.compiler.input"/>
 							</tool>

quad/xsdk_workspace/modular_quad_pid/.project

@@ -25,6 +25,11 @@
 		<nature>org.eclipse.cdt.managedbuilder.core.ScannerConfigNature</nature>
 	</natures>
 	<linkedResources>
+		<link>
+			<name>ext/commands</name>
+			<type>2</type>
+			<location>/local/ucart/MicroCART_17-18/quad/src/commands</location>
+		</link>
 		<link>
 			<name>ext/computation_graph</name>
 			<type>2</type>

quad/xsdk_workspace/modular_quad_pid/Release/ext/commands/subdir.mk

+################################################################################
+# Automatically-generated file. Do not edit!
+################################################################################
+
+# Add inputs and outputs from these tool invocations to the build variables 
+C_SRCS += \
+/local/ucart/MicroCART_17-18/quad/src/commands/commands.c 
+
+OBJS += \
+./ext/commands/commands.o 
+
+C_DEPS += \
+./ext/commands/commands.d 
+
+
+# Each subdirectory must supply rules for building sources it contributes
+ext/commands/commands.o: /local/ucart/MicroCART_17-18/quad/src/commands/commands.c
+	@echo 'Building file: $<'
+	@echo 'Invoking: ARM gcc compiler'
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	@echo 'Finished building: $<'
+	@echo ' '
+
+

quad/xsdk_workspace/modular_quad_pid/Release/ext/computation_graph/subdir.mk

@@ -35,49 +35,49 @@ C_DEPS += \
 ext/computation_graph/computation_graph.o: /local/ucart/MicroCART_17-18/quad/src/computation_graph/computation_graph.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 
 ext/computation_graph/node_accumulator.o: /local/ucart/MicroCART_17-18/quad/src/computation_graph/node_accumulator.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 
 ext/computation_graph/node_add.o: /local/ucart/MicroCART_17-18/quad/src/computation_graph/node_add.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 
 ext/computation_graph/node_constant.o: /local/ucart/MicroCART_17-18/quad/src/computation_graph/node_constant.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 
 ext/computation_graph/node_gain.o: /local/ucart/MicroCART_17-18/quad/src/computation_graph/node_gain.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 
 ext/computation_graph/node_mult.o: /local/ucart/MicroCART_17-18/quad/src/computation_graph/node_mult.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 
 ext/computation_graph/node_pow.o: /local/ucart/MicroCART_17-18/quad/src/computation_graph/node_pow.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 

quad/xsdk_workspace/modular_quad_pid/Release/ext/queue/subdir.mk

@@ -17,7 +17,7 @@ C_DEPS += \
 ext/queue/queue.o: /local/ucart/MicroCART_17-18/quad/src/queue/queue.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '
 

quad/xsdk_workspace/modular_quad_pid/Release/makefile

@@ -12,6 +12,7 @@ RM := rm -rf
 -include ext/queue/subdir.mk
 -include ext/quad_app/subdir.mk
 -include ext/computation_graph/subdir.mk
+-include ext/commands/subdir.mk
 -include subdir.mk
 -include objects.mk
 

quad/xsdk_workspace/modular_quad_pid/Release/sources.mk

@@ -20,4 +20,5 @@ src \
 ext/queue \
 ext/quad_app \
 ext/computation_graph \
+ext/commands \
 

quad/xsdk_workspace/modular_quad_pid/Release/src/subdir.mk

@@ -53,7 +53,7 @@ C_DEPS += \
 src/%.o: ../src/%.c
 	@echo 'Building file: $<'
 	@echo 'Invoking: ARM gcc compiler'
-	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -c -fmessage-length=0 -I../../system_bsp/ps7_cortexa9_0/include -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
+	arm-xilinx-eabi-gcc -DNDEBUG=1 -Wall -O2 -I../../system_bsp/ps7_cortexa9_0/include -I"/local/ucart/MicroCART_17-18/quad/src/computation_graph" -I"/local/ucart/MicroCART_17-18/quad/src/quad_app" -I"/local/ucart/MicroCART_17-18/quad/src/queue" -I"/local/ucart/MicroCART_17-18/quad/src/commands" -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@:%.o=%.d)" -o "$@" "$<"
 	@echo 'Finished building: $<'
 	@echo ' '