created bio node, added rqt-graph to flake

flake.nix

@@ -39,6 +39,7 @@
               buildEnv {
                 paths = [
                   ros-core
+                  rqt-graph
                   ros2cli
                   ros2run
                   ros2bag

src/bio_pkg/bio_pkg/bio_node.py

@@ -1,20 +1,29 @@
-import rclpy
+import signal
-from rclpy.node import Node
-import serial
 import sys
 import threading
-import os
-import glob
 import time
-import atexit
+
-import signal
+import rclpy
-from std_msgs.msg import String
+from rclpy.action import ActionServer
-from astra_msgs.msg import BioControl
+from rclpy.node import Node
-from astra_msgs.msg import BioFeedback
+from std_msgs.msg import Header, String
+
+from astra_msgs.action import BioVacuum
+from astra_msgs.msg import BioControl, BioDistributor, BioFeedback, VicCAN
+from astra_msgs.srv import BioTestTube
 
 serial_pub = None
 thread = None
 
+# used to verify the length of an incoming VicCAN feedback message
+# key is VicCAN command_id, value is expected length of data list
+viccan_citadel_msg_len_dict = {
+    # empty because not expecting any VicCAN from citadel atm
+}
+viccan_lance_msg_len_dict = {
+    # empty because not sure what VicCAN commands LANCE sends
+}
+
 
 class SerialRelay(Node):
     def __init__(self):
@@ -22,172 +31,55 @@ class SerialRelay(Node):
         super().__init__("bio_node")
 
         # Get launch mode parameter
-        self.declare_parameter("launch_mode", "bio")
+        self.declare_parameter("launch_mode")
         self.launch_mode = self.get_parameter("launch_mode").value
         self.get_logger().info(f"bio launch_mode is: {self.launch_mode}")
 
-        # Create publishers
+        # Anchor Topics
-        self.debug_pub = self.create_publisher(String, "/bio/feedback/debug", 10)
+        if self.launch_mode == "anchor":
-        self.feedback_pub = self.create_publisher(BioFeedback, "/bio/feedback", 10)
+            self.anchor_fromvic_sub_ = self.create_subscription(
-
+                VicCAN, "/anchor/from_vic/bio", self.relay_fromvic, 20
-        # Create subscribers
+            )
-        self.control_sub = self.create_subscription(
+            self.anchor_tovic_pub_ = self.create_publisher(
-            BioControl, "/bio/control", self.send_control, 10
+                VicCAN, "/anchor/to_vic/relay", 20
             )
 
-        # Create a publisher for telemetry
-        self.telemetry_pub_timer = self.create_timer(1.0, self.publish_feedback)
-
-        # Topics used in anchor mode
-        if self.launch_mode == "anchor":
             self.anchor_sub = self.create_subscription(
                 String, "/anchor/bio/feedback", self.anchor_feedback, 10
             )
             self.anchor_pub = self.create_publisher(String, "/anchor/relay", 10)
 
-        self.bio_feedback = BioFeedback()
+            self.distributor_sub = self.create_subscription(
-
+                BioDistributor,
-        # Search for ports IF in 'arm' (standalone) and not 'anchor' mode
+                "/bio/control/distributor",
-        if self.launch_mode == "bio":
+                self.distributor_callback,
-            # Loop through all serial devices on the computer to check for the MCU
+                10,
-            self.port = None
-            for i in range(2):
-                try:
-                    # connect and send a ping command
-                    set_port = (
-                        "/dev/ttyACM0"  # MCU is controlled through GPIO pins on the PI
             )
-                    ser = serial.Serial(set_port, 115200, timeout=1)
-                    # print(f"Checking port {port}...")
-                    ser.write(b"ping\n")
-                    response = ser.read_until("\n")
 
-                    # if pong is in response, then we are talking with the MCU
+        # Services
-                    if b"pong" in response:
-                        self.port = set_port
-                        self.get_logger().info(f"Found MCU at {set_port}!")
-                        break
-                except:
-                    pass
 
-            if self.port is None:
+        self.test_tube_service = self.create_service(
-                self.get_logger().info(
+            BioTestTube, "/bio/control/test_tube", self.test_tube_callback
-                    "Unable to find MCU... please make sure it is connected."
         )
-                time.sleep(1)
-                sys.exit(1)
 
-            self.ser = serial.Serial(self.port, 115200)
+        # Actions
-            atexit.register(self.cleanup)
+        self._action_server = ActionServer(
+            self, BioVacuum, "/bio/actions/vacuum", self.execute_vacuum
+        )
 
     def run(self):
         global thread
         thread = threading.Thread(target=rclpy.spin, args=(self,), daemon=True)
         thread.start()
 
-        # if in arm mode, will need to read from the MCU
-
         try:
             while rclpy.ok():
-                if self.launch_mode == "bio":
-                    if self.ser.in_waiting:
-                        self.read_mcu()
-                    else:
                 time.sleep(0.1)
         except KeyboardInterrupt:
             pass
-        finally:
-            self.cleanup()
-
-    # Currently will just spit out all values over the /arm/feedback/debug topic as strings
-    def read_mcu(self):
-        try:
-            output = str(self.ser.readline(), "utf8")
-            if output:
-                self.get_logger().info(f"[MCU] {output}")
-                msg = String()
-                msg.data = output
-                self.debug_pub.publish(msg)
-        except serial.SerialException:
-            self.get_logger().info("SerialException caught... closing serial port.")
-            if self.ser.is_open:
-                self.ser.close()
-            pass
-        except TypeError as e:
-            self.get_logger().info(f"TypeError: {e}")
-            print("Closing serial port.")
-            if self.ser.is_open:
-                self.ser.close()
-            pass
-        except Exception as e:
-            print(f"Exception: {e}")
-            print("Closing serial port.")
-            if self.ser.is_open:
-                self.ser.close()
-            pass
-
-    def send_ik(self, msg):
-        pass
 
     def send_control(self, msg: BioControl):
-        # CITADEL Control Commands
+        print("todo")
-        ################
-
-        # Chem Pumps, only send if not zero
-        if msg.pump_id != 0:
-            command = (
-                "can_relay_tovic,citadel,27,"
-                + str(msg.pump_id)
-                + ","
-                + str(msg.pump_amount)
-                + "\n"
-            )
-            self.send_cmd(command)
-        # Fans, only send if not zero
-        if msg.fan_id != 0:
-            command = (
-                "can_relay_tovic,citadel,40,"
-                + str(msg.fan_id)
-                + ","
-                + str(msg.fan_duration)
-                + "\n"
-            )
-            self.send_cmd(command)
-        # Servos, only send if not zero
-        if msg.servo_id != 0:
-            command = (
-                "can_relay_tovic,citadel,25,"
-                + str(msg.servo_id)
-                + ","
-                + str(int(msg.servo_state))
-                + "\n"
-            )
-            self.send_cmd(command)
-
-        # LSS (SCYTHE)
-        command = "can_relay_tovic,citadel,24," + str(msg.bio_arm) + "\n"
-        # self.send_cmd(command)
-
-        # Vibration Motor
-        command += "can_relay_tovic,citadel,26," + str(msg.vibration_motor) + "\n"
-        # self.send_cmd(command)
-
-        # FAERIE Control Commands
-        ################
-
-        # To be reviewed before use#
-
-        # Laser
-        command += "can_relay_tovic,digit,28," + str(msg.laser) + "\n"
-        # self.send_cmd(command)
-
-        # Drill (SCABBARD)
-        command += f"can_relay_tovic,digit,19,{msg.drill:.2f}\n"
-        # self.send_cmd(command)
-
-        # Bio linear actuator
-        command += "can_relay_tovic,digit,42," + str(msg.drill_arm) + "\n"
-        self.send_cmd(command)
 
     def send_cmd(self, msg: str):
         if (
@@ -196,46 +88,129 @@ class SerialRelay(Node):
             output = String()
             output.data = msg
             self.anchor_pub.publish(output)
-        elif self.launch_mode == "bio":  # if in standalone mode, send to MCU directly
+
-            self.get_logger().info(f"[Bio to MCU] {msg}")
+    def relay_fromvic(self, msg: VicCAN):
-            self.ser.write(bytes(msg, "utf8"))
+        # self.get_logger().info(msg)
+        if msg.mcu_name == "citadel":
+            self.process_fromvic_citadel(msg)
+
+    def process_fromvic_citadel(self, msg: VicCAN):
+        if msg.mcu_name != "citadel":
+            return
+
+        # Check message len to prevent crashing on bad data
+        if msg.command_id in viccan_citadel_msg_len_dict:
+            expected_len = viccan_citadel_msg_len_dict[msg.command_id]
+            if len(msg.data) != expected_len:
+                self.get_logger().warning(
+                    f"Ignoring VicCAN message with id {msg.command_id} due to unexpected data length (expected {expected_len}, got {len(msg.data)})"
+                )
+                return
 
     def anchor_feedback(self, msg: String):
         output = msg.data
         parts = str(output.strip()).split(",")
-        # self.get_logger().info(f"[Bio Anchor] {msg.data}")
+        self.get_logger().info(f"[Bio Anchor] {msg.data}")
+        # no data planned to be received from citadel, not sure about lance
 
-        if output.startswith(
+    def distributor_callback(self, msg: BioDistributor):
-            "can_relay_fromvic,citadel,54"
+        distributor_arr = msg.distributor_id
-        ):  # bat, 12, 5, Voltage readings * 100
+        vic_cmd = VicCAN(
-            self.bio_feedback.bat_voltage = float(parts[3]) / 100.0
+            header=Header(stamp=self.get_clock().now().to_msg()),
-            self.bio_feedback.voltage_12 = float(parts[4]) / 100.0
+            mcu_name="citadel",
-            self.bio_feedback.voltage_5 = float(parts[5]) / 100.0
+            command_id=40,
-        elif output.startswith("can_relay_fromvic,digit,57"):
+            data=[
-            self.bio_feedback.drill_temp = float(parts[3])
+                to_short(distributor_arr[0]),
-            self.bio_feedback.drill_humidity = float(parts[4])
+                to_short(distributor_arr[1]),
+                to_short(distributor_arr[2]),
+                0,
+            ],
+        )
+        self.anchor_tovic_pub_.publish(vic_cmd)
 
-    def publish_feedback(self):
+    def test_tube_callback(self, request, response):
-        self.feedback_pub.publish(self.bio_feedback)
+        tubes_cmd = VicCAN(
+            header=Header(stamp=self.get_clock().now().to_msg()),
+            mcu_name="citadel",
+            command_id=40,
+            data=[
+                float(int.from_bytes(request.tube_id)),
+                float(request.milliliters),
+            ],
+        )
+        self.anchor_tovic_pub_.publish(tubes_cmd)
+        return response
 
-    @staticmethod
+    def execute_vacuum(self, goal_handle):
-    def list_serial_ports():
+        valve_id = int.from_bytes(goal_handle.request.valve_id)
-        return glob.glob("/dev/ttyUSB*") + glob.glob("/dev/ttyACM*")
+        duty = int.from_bytes(goal_handle.request.fan_duty_cycle_percent)
-        # return glob.glob("/dev/tty[A-Za-z]*")
+        total = goal_handle.request.fan_time_ms
 
-    def cleanup(self):
+        # open valve
-        print("Cleaning up...")
+        self.anchor_tovic_pub_.publish(
-        try:
+            VicCAN(
-            if self.ser.is_open:
+                header=Header(stamp=self.get_clock().now().to_msg()),
-                self.ser.close()
+                mcu_name="citadel",
-        except Exception as e:
+                command_id=40,
-            exit(0)
+                data=[float(valve_id)],
+            )
+        )
+
+        # set fan duty cycle
+        self.anchor_tovic_pub_.publish(
+            VicCAN(
+                header=Header(stamp=self.get_clock().now().to_msg()),
+                mcu_name="citadel",
+                command_id=19,
+                data=[float(duty)],
+            )
+        )
+
+        feedback = BioVacuum.Feedback()
+        start = time.time()
+
+        while True:
+            elapsed = int((time.time() - start) * 1000)
+            remaining = max(0, total - elapsed)
+
+            feedback.fan_time_remaining_ms = remaining
+            goal_handle.publish_feedback(feedback)
+
+            if remaining == 0:
+                break
+
+            time.sleep(0.1)
+
+        # stop fan
+        self.anchor_tovic_pub_.publish(
+            VicCAN(
+                header=Header(stamp=self.get_clock().now().to_msg()),
+                mcu_name="citadel",
+                command_id=19,
+                data=[0.0],
+            )
+        )
+
+        # close valve
+        self.anchor_tovic_pub_.publish(
+            VicCAN(
+                header=Header(stamp=self.get_clock().now().to_msg()),
+                mcu_name="citadel",
+                command_id=40,
+                data=[-1.0],
+            )
+        )
+
+        goal_handle.succeed()
+        return BioVacuum.Result()
+
+
+def to_short(x: int) -> int:
+    return max(-32768, min(32767, x))
 
 
 def myexcepthook(type, value, tb):
     print("Uncaught exception:", type, value)
-    if serial_pub:
-        serial_pub.cleanup()
 
 
 def main(args=None):