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Stuck on Python "KeyError: <exception str() failed>" in BFS code of a water jug scenario

Intended Function of code: Takes a user input for the volume of 3 jars(1-9) and output the volumes with one of the jars containing the target length. jars can be Emptied/Filled a jar, or poured from one jar to another until one is empty or full.
With the code I have, i'm stuck on a key exception error .
Target length is 4 for this case
Code:
`
class Graph:
class GraphNode:
def __init__(self, jar1 = 0, jar2 = 0, jar3 = 0, color = "white", pi = None):
self.jar1 = jar1
self.jar2 = jar2
self.jar3 = jar3
self.color = color
self.pi = pi
def __repr__(self):
return str(self)
def __init__(self, jl1 = 0, jl2 = 0, jl3 = 0, target = 0):
self.jl1 = jl1
self.jl2 = jl2
self.jl3 = jl3
self.target = target
self.V = {}
for x in range(jl1 + 1):
for y in range(jl2 + 1):
for z in range(jl3 + 1):
node = Graph.GraphNode(x, y, z, "white", None)
self.V[node] = None
def isFound(self, a: GraphNode) -> bool:
if self.target in [a.jar1, a.jar2, a.jar3]:
return True
return False
pass
def isAdjacent(self, a: GraphNode, b: GraphNode) -> bool:
if self.V[a]==b:
return True
return False
pass
def BFS(self) -> [] :
start = Graph.GraphNode(0, 0, 0, "white")
queue=[]
queue.append(start)
while len(queue)>0:
u=queue.pop(0)
for v in self.V:
if self.isAdjacent(u,v):
if v.color =="white":
v.color == "gray"
v.pi=u
if self.isFound(v):
output=[]
while v.pi is not None:
output.insert(0,v)
v=v.pi
return output
else:
queue.append(v)
u.color="black"
return []
#######################################################
j1 = input("Size of first jar: ")
j2 = input("Size of second jar: ")
j3 = input("Size of third jar: ")
t = input("Size of target: ")
jar1 = int(j1)
jar2 = int(j2)
jar3 = int(j3)
target = int(t)
graph1 = Graph(jar1, jar2, jar3, target)
output = graph1.BFS()
print(output)
`
**Error: **
line 37, in isAdjacent
if self.V[a]==b:
KeyError: <exception str() failed>

Strange but when I first ran this in the IPython interpreter I got a different exception:
... :35, in Graph.isAdjacent(self, a, b)
34 def isAdjacent(self, a: GraphNode, b: GraphNode) -> bool:
---> 35 if self.V[a]==b:
36 return True
37 return False
<class 'str'>: (<class 'RecursionError'>, RecursionError('maximum recursion depth exceeded while getting the str of an object'))
When I run it as a script or in the normal interpreter I do get the same one you had:
... line 35, in isAdjacent
if self.V[a]==b:
KeyError: <exception str() failed>
I'm not sure what this means so I ran the debugger and got this:
File "/Users/.../stackoverflow/bfs1.py", line 1, in <module>
class Graph:
File "/Users/.../stackoverflow/bfs1.py", line 47, in BFS
if self.isAdjacent(u,v):
File "/Users/.../stackoverflow/bfs1.py", line 35, in isAdjacent
if self.V[a]==b:
KeyError: <unprintable KeyError object>
Uncaught exception. Entering post mortem debugging
Running 'cont' or 'step' will restart the program
> /Users/.../stackoverflow/bfs1.py(35)isAdjacent()
-> if self.V[a]==b:
(Pdb) type(a)
<class '__main__.Graph.GraphNode'>
(Pdb) str(a)
*** RecursionError: maximum recursion depth exceeded while calling a Python object
So it does seem like a maximum recursion error. (The error message you originally got is not very helpful). But the words <unprintable KeyError object> are a clue. It looks like it was not able to display the KeyError exception...
The culprit is this line in your class definition:
def __repr__(self):
return str(self)
What were you trying to do here?
The __repr__ function is called when the class is asked to produce a string representation of itself. But yours calls the string function on the instance of the class so it will call itself! So I think you actually generated a second exception while the debugger was trying to display the first!!!.
I replaced these lines with
def __repr__(self):
return f"GraphNode({self.jar1}, {self.jar2}, {self.jar3}, {self.color}, {self.pi})"
and I don't get the exception now:
Size of first jar: 1
Size of second jar: 3
Size of third jar: 6
Size of target: 4
Traceback (most recent call last):
File "/Users/.../stackoverflow/bfs1.py", line 77, in <module>
output = graph1.BFS()
File "/Users/.../stackoverflow/bfs1.py", line 45, in BFS
if self.isAdjacent(u,v):
File "/Users/.../stackoverflow/bfs1.py", line 33, in isAdjacent
if self.V[a]==b:
KeyError: GraphNode(0, 0, 0, white, None)
This exception is easier to interpret. Now it's over to you to figure out why this GraphNode was not found in the keys of self.V!

Need Suggestion.

How to debug "NameError: global name 'X' is not defined" in Python? I am pretty much new in Python. I am using jupyter_notebook with Python 2.7 to execute code. I am facing following error.
My code:
logFile = "NASAlog.txt"
def parseLogs():
parsed_logs=(sc
.textFile(logFile)
.map(parseApacheLogLine)
.cache())
access_logs = (parsed_logs
.filter(lambda s: s[1] == 1)
.map(lambda s: s[0])
.cache())
failed_logs = (parsed_logs
.filter(lambda s: s[1] == 0)
.map(lambda s: s[0]))
failed_logs_count = failed_logs.count()
if failed_logs_count > 0:
print 'Number of invalid logline: %d' % failed_logs.count()
for line in failed_logs.take(20):
print 'Invalid logline: %s' % line
print 'Read %d lines, successfully parsed %d lines, failed to parse %d lines' % (parsed_logs.count(), access_logs.count(), failed_logs.count())
return parsed_logs, access_logs, failed_logs
parsed_logs, access_logs, failed_logs = parseLogs()
ERROR
> NameError Traceback (most recent call last)
> <ipython-input-18-b365aa793252> in <module>()
> 24 return parsed_logs, access_logs, failed_logs
> 25
> ---> 26 parsed_logs, access_logs, failed_logs = parseLogs()
>
> <ipython-input-18-b365aa793252> in parseLogs()
> 2
> 3 def parseLogs():
> ----> 4 parsed_logs=(sc
> 5 .textFile(logFile)
> 6 .map(parseApacheLogLine)
>
> NameError: global name 'sc' is not defined

The problem is that you did never define sc. Therefore python can't find it. (Makes sense, doesn't it?)
Now there are several possible reasons:
- python is case-sensitive. Did you somewhere define SC instead of sc? ... Or Sc instead of sc?
You defined sc in another function (-> you defined it in a function outside parseLogs()). If you only define it there the variable will be local and just be available to the code inside the function. Add the line global sc to the first line of your function to make it accessible everywhere in you whole code.
You simply did not define sc.

AttributeError: 'bool' object has no attribute 'items'

I'm a beginner in python. I'm currently try to deal with use the IK to move the robot arm. When I try to run my program the arm was able to move to the my setted starting position but when it's going to next step it shows me this error:AttributeError: 'bool' object has no attribute 'items'
This is my program:
class Pick_Place (object):
#def __init__(self,limb,hover_distance = 0.15):
def __init__(self,limb):
self._limb = baxter_interface.Limb(limb)
self._gripper = baxter_interface.Gripper(limb)
self._gripper.calibrate(limb)
#self.gripper_open()
#self._verbose = verbose
ns = "ExternalTools/" + limb + "/PositionKinematicsNode/IKService"
self._iksvc = rospy.ServiceProxy(ns,SolvePositionIK)
rospy.wait_for_service(ns, 5.0)
def move_to_start (self,start_angles = None):
print ("moving.....")
if not start_angles:
print ("it is 0")
start_angles = dict(zip(self._joint_names, [0]*7))
self._guarded_move_to_joint_position(start_angles)
self.gripper_open()
rospy.sleep(1.0)
print ("moved!!!")
#########################IK_Server################################################
def ik_request (self,pose):
hdr = Header(stamp=rospy.Time.now(),frame_id='base')
ikreq = SolvePositionIKRequest()
ikreq.pose_stamp.append(PoseStamped(header=hdr, pose=pose))
try:
resp = self._iksvc (ikreq)
except (rospy.ServiceException, rospy.ROSException), e:
rospy.logerr("Service call failed: %s" % (e,))
return False
limb_joints = {}
limb_joints = dict(zip(resp.joints[0].name, resp.joints[0].position))
return limb_joints
###################################################################################
def _guarded_move_to_joint_position(self,joint_angles):
print ("joint position.....")
self._limb.move_to_joint_positions(joint_angles)
def gripper_open (self):
self._gripper.open()
rospy.sleep(1.0)
def gripper_close (self):
self._gripper.close()
rospy.sleep(1.0)
#################################Individual_Motion####################################
def _approach (self, pose):
print ("\nApproaching.....")
approach = copy.deepcopy(pose)
approach.position.z = approach.position.z #+ self._hover_distance
joint_angles = self.ik_request(approach)
self._guarded_move_to_joint_position(joint_angles)
print ("\nApproached.....")
def _retract (self):
print ("\nRetracting.....")
current_pose = self._limb.endpoint_pose()
ik_pose = Pose()
ik_pose.position.x = current_pose['position'].x
ik_pose.position.y = current_pose['position'].y
ik_pose.position.z = current_pose['position'].z #+ self._hover_distance
ik_pose.orientation.x = current_pose['orientation'].x
ik_pose.orientation.y = current_pose['orientation'].y
ik_pose.orientation.z = current_pose['orientation'].z
ik_pose.orientation.w = current_pose['orientation'].w
joint_angles = self.ik_request(ik_pose)
self._guarded_move_to_joint_position(joint_angles)
print ("\nRetracted......")
def _servo_to_pose (self, pose):
print ("\nPosing.....")
joint_angles = self.ik_request(pose)
self._guarded_move_to_joint_position(joint_angles)
print ("\nPosed.....")
##########################Motion_of_pick_and_place#####################################
def pick (self,pose):
print ("\nPicking_1.....")
# open the gripper
self.gripper_open()
# servo above pose
self._approach(pose)
# servo to pose
self._servo_to_pose(pose)
# close gripper
self.gripper_close()
# retract to clear object
self._retract()
print ("\nPicked")
def place (self,pose):
print ("\nPlacing_1.....")
# servo above pose
self._approach(pose)
# servo to pose
self._servo_to_pose(pose)
# open the gripper
self.gripper_open()
# retract to clear object
self._retract()
print ("\nPlaced")
###########################Main_Program############################################
def main():
print ("Initializing....")
rospy.init_node("ylj_ik_traTest")
print("Getting the robot state.....")
rs= baxter_interface.RobotEnable()
print ("Enabling....")
rs.enable()
limb = 'left'
#hover_distance = 0.15
starting_joint_angles = {'left_s0': -0.50,
'left_s1': -1.30,
'left_e0': -0.60,
'left_e1': 1.30,
'left_w0': 0.20,
'left_w1': 1.60,
'left_w2': -0.30}
#pnp = Pick_Place(limb,hover_distance)
pnp = Pick_Place(limb)
overhead_orientation = Quaternion(
x=-0.0249590815779,
y=0.999649402929,
z=0.00737916180073,
w=0.00486450832011)
ball_poses = list()
#1st ball point
ball_poses.append(Pose(
position = Point(x=0.7, y=0.15, z=-0.1),
orientation = overhead_orientation))
#2nd ball point
ball_poses.append(Pose(
position = Point(x=0.75, y=0.0, z=-0.1),
orientation = overhead_orientation))
pnp.move_to_start(starting_joint_angles)
idx = 0
while not rospy.is_shutdown():
print ("\nPicking.....")
pnp.pick(ball_poses[idx])
print ("\nPlacing.....")
idx = (idx+1) % len(ball_poses)#?????
pnp.place(ball_poses[idx])
return 0
if __name__ == '__main__':
sys.exit(main())
And this is the error shows me:
Initializing....
Getting the robot state.....
Enabling....
[INFO] [WallTime: 1466477391.621678] Robot Enabled
moving.....
joint position.....
moved!!!
Picking.....
Picking_1.....
Approaching.....
joint position.....
Traceback (most recent call last):
File "/home/baxter/ros_ws/src/baxter_examples/scripts/ylj_research/ylj_ik_traTest.py", line 197, in <module>
sys.exit(main())
File "/home/baxter/ros_ws/src/baxter_examples/scripts/ylj_research/ylj_ik_traTest.py", line 188, in main
pnp.pick(ball_poses[idx])
File "/home/baxter/ros_ws/src/baxter_examples/scripts/ylj_research/ylj_ik_traTest.py", line 122, in pick
self._approach(pose)
File "/home/baxter/ros_ws/src/baxter_examples/scripts/ylj_research/ylj_ik_traTest.py", line 88, in _approach
self._guarded_move_to_joint_position(joint_angles)
File "/home/baxter/ros_ws/src/baxter_examples/scripts/ylj_research/ylj_ik_traTest.py", line 72, in _guarded_move_to_joint_position
self._limb.move_to_joint_positions(joint_angles)
File "/home/baxter/ros_ws/src/baxter_interface/src/baxter_interface/limb.py", line 368, in move_to_joint_positions
diffs = [genf(j, a) for j, a in positions.items() if
AttributeError: 'bool' object has no attribute 'items'
Does anyone had met this kind of error before? Please help me, thank you.

The error tells you that booleans (either True or False) don't have an attribute "items".
When you call
self._limb.move_to_joint_positions(joint_angles) you are passing the argument "joint_angles" which becomes "positions" in the function
move_to_joint_positions().
Looking into the source code of the library you're using, it tells you what it wants positions to be:
#type positions: dict({str:float})
In short, it wants joint_angles to be a dictionary mapping strings to floats and you passed a boolean. Let's look into how you got joint_angles:
joint_angles = self.ik_request(ik_pose)
In the body of your method, you return False every time:
def ik_request (self,pose):
...
except (rospy.ServiceException, rospy.ROSException), e:
rospy.logerr("Service call failed: %s" % (e,))
return False
Returning a boolean is clearly not what you want to do, and it is the cause of this error.

You're trying to access the elements of a boolean value, which is not allowed. In your example, positions is a true/false value and not what you're expecting it to be. There's some section of the code where positions is being assigned to a boolean. You should walk through your code and look for any line that contains positions = something.

Non positive semi-definiteness error when creating time series in Python

I am receiving an error when I try to fit some data I have to a VAR Time series model in Python via statsmodels, the documentation of which is available here:
The data I have is available in a dataframe df_IBM_training which can be seen below:
date sym open high low close newscount
6 2014.08.05 IBM 189.30 189.3000 186.4100 187.0800 4
9 2014.08.06 IBM 185.80 186.8800 184.4400 185.9000 0
12 2014.08.07 IBM 186.56 186.8800 1.0000 184.2800 2
15 2014.08.08 IBM 183.32 186.6800 183.3200 186.5499 18
The model VAR I want to build looks like this, the regressors of which I try to create in the code below. I also try to search for the ideal model order in the code below, which is where I get the error. Each coefficient in the equation below, examples include α1,1, γ1,11 is associated with a regressor in the code:
Δlog(C_t) = α1,1(log(C_t - 1) − log(O_t-1))
+ α1,2(log‌​(C_t - 1) − log(H_t-1))
+ α1,3(log(C_t - 1) − log(L_t-1))
+ γ1,11Δlog(C_t − 1)
+ γ1,12Δlog(O_t − 1)
+ γ1,13Δlog(H_t − 1)
+ γ1,14Δlog(L_t − 1)
+ εt
My code is as follows. For some reason, I get the following error in the line model.select_order(8):
numpy.linalg.linalg.linalgerror 7-th leading minor not positive semi-definite
#VAR regressors
df_IBM_training['log_ret0'] = np.log(df_IBM_training.close) - np.log(df_IBM_training.close.shift(1))
df_IBM_training['log_ret1'] = np.log(df_IBM_training.open) - np.log(df_IBM_training.open.shift(1))
df_IBM_training['log_ret2'] = np.log(df_IBM_training.high) - np.log(df_IBM_training.high.shift(1))
df_IBM_training['log_ret3'] = np.log(df_IBM_training.low) - np.log(df_IBM_training.low.shift(1))
df_IBM_training = df_IBM_training[np.isfinite(df_IBM_training['log_ret3'])]
regressor_1 = np.log(df_IBM_training['close']) - np.log(df_IBM_training['open'])
regressor_2 = np.log(df_IBM_training['close']) - np.log(df_IBM_training['high'])
regressor_3 = np.log(df_IBM_training['close']) - np.log(df_IBM_training['low'])
regressor_4 = df_IBM_training['log_ret0']
regressor_5 = df_IBM_training['log_ret1']
regressor_6 = df_IBM_training['log_ret2']
regressor_7 = df_IBM_training['log_ret3']
X_IBM = [regressor_1, regressor_2, regressor_3, regressor_4,regressor_5, regressor_6, regressor_7]
X_IBM = np.array(X_IBM)
X_IBM = X_IBM.T
model = statsmodels.tsa.api.VAR(X_IBM)
#The line below is where the error arises
model.select_order(8)
Edit: Traceback Error below:
Traceback (most recent call last):
File "TimeSeries.py", line 70, in <module>
model.select_order(8)
File "C:\Python34\lib\site-packages\statsmodels\tsa\vector_ar\var_model.py", line 505, in select_order
for k, v in iteritems(result.info_criteria):
File "C:\Python34\lib\site-packages\statsmodels\base\wrapper.py", line 35, in __getattribute__
obj = getattr(results, attr)
File "C:\Python34\lib\site-packages\statsmodels\tools\decorators.py", line 94, in __get__
_cachedval = self.fget(obj)
File "C:\Python34\lib\site-packages\statsmodels\tsa\vector_ar\var_model.py", line 1468, in info_criteria
ld = logdet_symm(self.sigma_u_mle)
File "C:\Python34\lib\site-packages\statsmodels\tools\linalg.py", line 213, in logdet_symm
c, _ = linalg.cho_factor(m, lower=True)
File "C:\Python34\lib\site-packages\scipy\linalg\decomp_cholesky.py", line 132, in cho_factor
check_finite=check_finite)
File "C:\Python34\lib\site-packages\scipy\linalg\decomp_cholesky.py", line 30, in _cholesky
raise LinAlgError("%d-th leading minor not positive definite" % info)
numpy.linalg.linalg.LinAlgError: 5-th leading minor not positive definite

R DTW multivariate series with asymmetric step fails to compute alignment

I'm using the DTW implementation found in R along with the python bindings in order to verify the effects of changing different parameters(like local constraint, local distance function and others) for my data. The data represents feature vectors that an audio processing frontend outputs(MFCC). Because of this I am dealing with multivariate time series, each feature vector has a size of 8. The problem I'm facing is when I try to use certain local constraints ( or step patterns ) I get the following error:
Error in if (is.na(gcm$distance)) { : argument is of length zero
Traceback (most recent call last):
File "r_dtw_simplified.py", line 32, in <module>
alignment = R.dtw(canDist, rNull, "Euclidean", stepPattern, "none", True, Fa
lse, True, False )
File "D:\Python27\lib\site-packages\rpy2\robjects\functions.py", line 86, in _
_call__
return super(SignatureTranslatedFunction, self).__call__(*args, **kwargs)
File "D:\Python27\lib\site-packages\rpy2\robjects\functions.py", line 35, in _
_call__
res = super(Function, self).__call__(*new_args, **new_kwargs)
rpy2.rinterface.RRuntimeError: Error in if (is.na(gcm$distance)) { : argument is
of length zero
Because the process of generating and adapting the input data is complicated I only made a simplified script to ilustrate the error i'm receiving.
#data works
#reference = [[-0.126678, -1.541763, 0.29985, 1.719757, 0.755798, -3.594681, -1.492798, 3.493042], [-0.110596, -1.638184, 0.128174, 1.638947, 0.721085, -3.247696, -0.920013, 3.763977], [-0.022415, -1.643539, -0.130692, 1.441742, 1.022064, -2.882172, -0.952225, 3.662842], [0.071259, -2.030411, -0.531891, 0.835114, 1.320419, -2.432281, -0.469116, 3.871094], [0.070526, -2.056702, -0.688293, 0.530396, 1.962128, -1.681915, -0.368973, 4.542419], [0.047745, -2.005127, -0.798203, 0.616028, 2.146988, -1.895874, 0.371597, 4.090881], [0.013962, -2.162796, -1.008545, 0.363495, 2.062866, -0.856613, 0.543884, 4.043335], [0.066757, -2.152969, -1.087097, 0.257263, 2.592697, -0.422424, -0.280533, 3.327576], [0.123123, -2.061035, -1.012863, 0.389282, 2.50206, 0.078186, -0.887711, 2.828247], [0.157455, -2.060425, -0.790344, 0.210419, 2.542114, 0.016983, -0.959274, 1.916504], [0.029648, -2.128204, -1.047318, 0.116547, 2.44899, 0.166534, -0.677551, 2.49231], [0.158554, -1.821365, -1.045044, 0.374207, 2.426712, 0.406952, -1.055084, 2.543762], [0.077026, -1.863235, -1.14827, 0.277069, 2.669067, 0.362549, -1.294342, 1.66748], [0.101822, -1.800293, -1.126801, 0.364594, 2.503815, 0.294846, -0.881302, 1.281616], [0.166138, -1.627762, -0.866013, 0.494476, 2.450668, 0.569, -1.392868, 0.651184], [0.225006, -1.596069, -1.07634, 0.550049, 2.167435, 0.554123, -1.432983, 1.166931], [0.114777, -1.462769, -0.793167, 0.565704, 2.183792, 0.345978, -1.410919, 0.708679], [0.144028, -1.444458, -0.831985, 0.536652, 2.222366, 0.330368, -0.715149, 0.517212], [0.147888, -1.450577, -0.809372, 0.479584, 2.271378, 0.250763, -0.540359, -0.036072], [0.090714, -1.485474, -0.888153, 0.268768, 2.001221, 0.412537, -0.698868, 0.17157], [0.11972, -1.382767, -0.890457, 0.218414, 1.666519, 0.659592, -0.069641, 0.914307], [0.189774, -1.18428, -0.785797, 0.106659, 1.429977, 0.195236, 0.627029, 0.503296], [0.194702, -1.098068, -0.956818, 0.020386, 1.369247, 0.10437, 0.641724, 0.410767], [0.215134, -1.069092, -1.11644, 0.283234, 1.313507, 0.110962, 0.600861, 0.752869], [0.216766, -1.065338, -1.047974, 0.080231, 1.500702, -0.113388, 0.712646, 0.914307], [0.259933, -0.964386, -0.981369, 0.092224, 1.480667, -0.00238, 0.896255, 0.665344], [0.265991, -0.935257, -0.93779, 0.214966, 1.235275, 0.104782, 1.33754, 0.599487], [0.266098, -0.62619, -0.905792, 0.131409, 0.402908, 0.103363, 1.352814, 1.554688], [0.273468, -0.354691, -0.709579, 0.228027, 0.315125, -0.15564, 0.942123, 1.024292], [0.246429, -0.272522, -0.609924, 0.318604, -0.007355, -0.165756, 1.07019, 1.087708], [0.248596, -0.232468, -0.524887, 0.53009, -0.476334, -0.184479, 1.088089, 0.667358], [0.074478, -0.200455, -0.058411, 0.662811, -0.111923, -0.686462, 1.205154, 1.271912], [0.063065, -0.080765, 0.065552, 0.79071, -0.569946, -0.899506, 0.875687, 0.095215], [0.117706, -0.270584, -0.021027, 0.723694, -0.200073, -0.365158, 0.892624, -0.152466], [0.00148, -0.075348, 0.017761, 0.757507, 0.719299, -0.355362, 0.749329, 0.315247], [0.035034, -0.110794, 0.038559, 0.949677, 0.478699, 0.005951, 0.097305, -0.388245], [-0.101944, -0.392487, 0.401886, 1.154938, 0.199127, 0.117371, -0.070007, -0.562439], [-0.083282, -0.388657, 0.449066, 1.505951, 0.46405, -0.566208, 0.216293, -0.528076], [-0.152054, -0.100113, 0.833054, 1.746857, 0.085861, -1.314102, 0.294632, -0.470947], [-0.166672, -0.183777, 0.988373, 1.925262, -0.202057, -0.961441, 0.15242, 0.594421], [-0.234573, -0.227707, 1.102112, 1.802002, -0.382492, -1.153336, 0.29335, 0.074036], [-0.336426, 0.042435, 1.255096, 1.804535, -0.610153, -0.810745, 1.308441, 0.599854], [-0.359344, 0.007248, 1.344543, 1.441559, -0.758286, -0.800079, 1.0233, 0.668213], [-0.321823, 0.027618, 1.1521, 1.509827, -0.708267, -0.668152, 1.05722, 0.710571], [-0.265335, 0.012344, 1.491501, 1.844971, -0.584137, -1.042419, -0.449188, 0.5354], [-0.302399, 0.049698, 1.440643, 1.674866, -0.626633, -1.158554, -0.906937, 0.405579], [-0.330276, 0.466675, 1.444153, 0.855499, -0.645447, -0.352158, 0.730423, 0.429932], [-0.354721, 0.540207, 1.570786, 0.626648, -0.897446, -0.007416, 0.174042, 0.100525], [-0.239609, 0.669983, 0.978851, 0.85321, -0.156784, 0.107986, 0.915054, 0.114197], [-0.189346, 0.930756, 0.824295, 0.516083, -0.339767, -0.206314, 0.744049, -0.36377]]
#query = [[0.387268, -1.21701, -0.432266, -1.394104, -0.458984, -1.469788, 0.12764, 2.310059], [0.418091, -1.389526, -0.150146, -0.759155, -0.578003, -2.123199, 0.276001, 3.022339], [0.264694, -1.526886, -0.238907, -0.511108, -0.90683, -2.699249, 0.692032, 2.849854], [0.246628, -1.675171, -0.533432, 0.070007, -0.392151, -1.739227, 0.534485, 2.744019], [0.099335, -1.983826, -0.985291, 0.428833, 0.26535, -1.285583, -0.234451, 2.4729], [0.055893, -2.108063, -0.401825, 0.860413, 0.724106, -1.959137, -1.360458, 2.350708], [-0.131592, -1.928314, -0.056213, 0.577698, 0.859146, -1.812286, -1.21669, 2.2052], [-0.162796, -2.149933, 0.467239, 0.524231, 0.74913, -1.829498, -0.741913, 1.616577], [-0.282745, -1.971008, 0.837616, 0.56427, 0.198288, -1.826935, -0.118027, 1.599731], [-0.497223, -1.578705, 1.277298, 0.682983, 0.055084, -2.032562, 0.64151, 1.719238], [-0.634232, -1.433258, 1.760513, 0.550415, -0.053787, -2.188568, 1.666687, 1.611938], [-0.607498, -1.302826, 1.960556, 1.331726, 0.417633, -2.271973, 2.095001, 0.9823], [-0.952957, -0.222076, 0.772064, 2.062256, -0.295258, -1.255371, 3.450974, -0.047607], [-1.210587, 1.00061, 0.036392, 1.952209, 0.470123, 0.231628, 2.670502, -0.608276], [-1.213287, 0.927002, -0.414825, 2.104065, 1.160126, 0.088898, 1.32959, -0.018311], [-1.081558, 1.007751, -0.337509, 1.7146, 0.653687, 0.297089, 1.916733, -0.772461], [-1.064804, 1.284302, -0.393585, 2.150635, 0.132294, 0.443298, 1.967575, 0.775513], [-0.972366, 1.039734, -0.588135, 1.413818, 0.423813, 0.781494, 1.977509, -0.556274], [-0.556381, 0.591309, -0.678314, 1.025635, 1.094284, 2.234711, 1.504013, -1.71875], [-0.063477, 0.626129, 0.360489, 0.149902, 0.92804, 0.936493, 1.203018, 0.264282], [0.162003, 0.577698, 0.956863, -0.477051, 1.081161, 0.817749, 0.660843, -0.428711], [-0.049515, 0.423615, 0.82489, 0.446228, 1.323853, 0.562775, -0.144196, 1.145386], [-0.146851, 0.171906, 0.304871, 0.320435, 1.378937, 0.673004, 0.188416, 0.208618], [0.33992, -2.072418, -0.447968, 0.526794, -0.175858, -1.400299, -0.452454, 1.396606], [0.226089, -2.183441, -0.301071, -0.475159, 0.834961, -2.191864, -1.092361, 2.434814], [0.279556, -2.073181, -0.517639, -0.766479, 0.974808, -2.070374, -2.003891, 2.706421], [0.237961, -1.9245, -0.708435, -0.582153, 1.285934, -1.75882, -2.146164, 2.369995], [0.149658, -1.703705, -0.539749, -0.215332, 1.369705, -1.484802, -1.506256, 1.04126], [0.078735, -1.719543, 0.157013, 0.382385, 1.100998, -0.223755, 0.021683, -0.545654], [0.106003, -1.404358, 0.372345, 1.881165, -0.292511, -0.263855, 1.579529, -1.426025], [0.047729, -1.198608, 0.600769, 1.901123, -1.106949, 0.128815, 1.293701, -1.364258], [0.110748, -0.894348, 0.712601, 1.728699, -1.250381, 0.674377, 0.812302, -1.428833], [0.085754, -0.662903, 0.794312, 1.102844, -1.234283, 1.084442, 0.986938, -1.10022], [0.140823, -0.300323, 0.673508, 0.669983, -0.551453, 1.213074, 1.449326, -1.567261], [0.03743, 0.550293, 0.400909, -0.174622, 0.355301, 1.325867, 0.875854, 0.126953], [-0.084885, 1.128906, 0.292099, -0.248779, 0.722961, 0.873871, -0.409515, 0.470581], [0.019684, 0.947754, 0.19931, -0.306274, 0.176849, 1.431702, 1.091507, 0.701416], [-0.094162, 0.895203, 0.687378, -0.229065, 0.549088, 1.376953, 0.892303, -0.642334], [-0.727692, 0.626495, 0.848877, 0.521362, 1.521912, -0.443481, 1.247238, 0.197388], [-0.82048, 0.117279, 0.975174, 1.487244, 1.085281, -0.567993, 0.776093, -0.381592], [-0.009827, -0.553009, -0.213135, 0.837341, 0.482712, -0.939423, 0.140884, 0.330566], [-0.018127, -1.362335, -0.199265, 1.260742, 0.005188, -1.445068, -1.159653, 1.220825], [0.186172, -1.727814, -0.246552, 1.544128, 0.285416, 0.081848, -1.634003, -0.47522], [0.193649, -1.144043, -0.334854, 1.220276, 1.241302, 1.554382, 0.57048, -1.334961], [0.344604, -1.647461, -0.720749, 0.993774, 0.585709, 0.953522, -0.493042, -1.845703], [0.37471, -1.989471, -0.518555, 0.555908, -0.025787, 0.148132, -1.463425, -0.844849], [0.34523, -1.821625, -0.809418, 0.59137, -0.577927, 0.037903, -2.067764, -0.519531], [0.413193, -1.503876, -0.752243, 0.280396, -0.236206, 0.429932, -1.684097, -0.724731], [0.331299, -1.349243, -0.890121, -0.178589, -0.285721, 0.809875, -2.012329, -0.157227], [0.278946, -1.090057, -0.670441, -0.477539, -0.267105, 0.446045, -1.95668, 0.501343], [0.127304, -0.977112, -0.660324, -1.011658, -0.547409, 0.349182, -1.357574, 1.045654], [0.217728, -0.793182, -0.496262, -1.259949, -0.128937, 0.38855, -1.513306, 1.863647], [0.240143, -0.891541, -0.619995, -1.478577, -0.361481, 0.258362, -1.630585, 1.841064], [0.241547, -0.758453, -0.515442, -1.370605, -0.428238, 0.23996, -1.469406, 1.307617], [0.289948, -0.714661, -0.533798, -1.574036, 0.017929, -0.368317, -1.290283, 0.851563], [0.304916, -0.783752, -0.459915, -1.523621, -0.107651, -0.027649, -1.089905, 0.969238], [0.27179, -0.795593, -0.352432, -1.597656, -0.001678, -0.06189, -1.072495, 0.637329], [0.301956, -0.823578, -0.152115, -1.637634, 0.2034, -0.214508, -1.315491, 0.773071], [0.282486, -0.853271, -0.162094, -1.561096, 0.15686, -0.289307, -1.076874, 0.673706], [0.299881, -0.97052, -0.051086, -1.431152, -0.074692, -0.32428, -1.385452, 0.684326], [0.220886, -1.072266, -0.269531, -1.038269, 0.140533, -0.711273, -1.7453, 1.090332], [0.177628, -1.229126, -0.274292, -0.943481, 0.483246, -1.214447, -2.026321, 0.719971], [0.176987, -1.137543, -0.007645, -0.794861, 0.965118, -1.084717, -2.37677, 0.598267], [0.135727, -1.36795, 0.09462, -0.776367, 0.946655, -1.157959, -2.794403, 0.226074], [0.067337, -1.648987, 0.535721, -0.665833, 1.506119, -1.348755, -3.092728, 0.281616], [-0.038101, -1.437347, 0.983917, -0.280762, 1.880722, -1.351318, -3.002258, -0.599609], [-0.152573, -1.146027, 0.717545, -0.60321, 2.126541, -0.59198, -2.282028, -1.048584], [-0.113525, -0.629669, 0.925323, 0.465393, 2.368698, -0.352661, -1.969391, -0.915161], [-0.140121, -0.311951, 0.884262, 0.809021, 1.557693, -0.552429, -1.776062, -0.925537], [-0.189423, -0.117767, 0.975174, 1.595032, 1.284485, -0.698639, -2.007202, -1.307251], [-0.048874, -0.176941, 0.820679, 1.306519, 0.584259, -0.913147, -0.658066, -0.630981], [-0.127594, 0.33313, 0.791336, 1.400696, 0.685577, -1.500275, -0.657959, -0.207642], [-0.044128, 0.653351, 0.615326, 0.476685, 1.099625, -0.902893, -0.154449, 0.325073], [-0.150223, 1.059845, 1.208405, -0.038635, 0.758667, 0.458038, -0.178909, -0.998657], [-0.099854, 1.127197, 0.789871, -0.013611, 0.452805, 0.736176, 0.948273, -0.236328], [-0.250275, 1.188568, 0.935989, 0.34314, 0.130463, 0.879913, 1.669037, 0.12793], [-0.122818, 1.441223, 0.670029, 0.389526, -0.15274, 1.293549, 1.22908, -1.132568]]
#this one doesn't
reference = [[-0.453598, -2.439209, 0.973587, 1.362091, -0.073654, -1.755112, 1.090057, 4.246765], [-0.448502, -2.621201, 0.723282, 1.257324, 0.26619, -1.375351, 1.328735, 4.46991], [-0.481247, -2.29718, 0.612854, 1.078033, 0.309708, -2.037506, 1.056305, 3.181702], [-0.42482, -2.306702, 0.436157, 1.529907, 0.50708, -1.930069, 0.653198, 3.561768], [-0.39032, -2.361343, 0.589294, 1.965607, 0.611801, -2.417084, 0.035675, 3.381104], [-0.233444, -2.281525, 0.703171, 2.17868, 0.519257, -2.474442, -0.502808, 3.569153], [-0.174652, -1.924591, 0.180267, 2.127075, 0.250626, -2.208527, -0.396591, 2.565552], [-0.121078, -1.53801, 0.234344, 2.221039, 0.845367, -1.516205, -0.174149, 1.298645], [-0.18631, -1.047806, 0.629654, 2.073303, 0.775024, -1.931076, 0.382706, 2.278442], [-0.160477, -0.78743, 0.694214, 1.917572, 0.834885, -1.574707, 0.780045, 2.370422], [-0.203659, -0.427246, 0.726486, 1.548767, 0.465698, -1.185379, 0.555206, 2.619629], [-0.208298, -0.393707, 0.771881, 1.646484, 0.612946, -0.996277, 0.658539, 2.499146], [-0.180679, -0.166656, 0.689209, 1.205994, 0.3918, -1.051483, 0.771072, 1.854553], [-0.1978, 0.082764, 0.723541, 1.019104, 0.165405, -0.127533, 1.0522, 0.552368], [-0.171127, 0.168533, 0.529541, 0.584839, 0.702011, -0.36525, 0.711792, 1.029114], [-0.224243, 0.38765, 0.916031, 0.45108, 0.708923, -0.059326, 1.016312, 0.437561], [-0.217072, -0.981766, 1.67363, 1.864014, 0.050812, -2.572815, -0.22937, 0.757996], [-0.284714, -0.784927, 1.720383, 1.782379, -0.093414, -2.492111, 0.623398, 0.629028], [-0.261169, -0.427979, 1.680038, 1.585358, 0.067093, -1.8181, 1.276291, 0.838989], [-0.183075, -0.08197, 1.094147, 1.120392, -0.117752, -0.86142, 1.94194, 0.966858], [-0.188919, 0.121521, 1.277664, 0.90979, 0.114288, -0.880875, 1.920517, 0.95752], [-0.226868, 0.338455, 0.78067, 0.803009, 0.347092, -0.387955, 0.641296, 0.374634], [-0.206329, 0.768158, 0.759537, 0.264099, 0.15979, 0.152618, 0.911636, -0.011597], [-0.230453, 0.495941, 0.547165, 0.137604, 0.36377, 0.594406, 1.168839, 0.125916], [0.340851, -0.382736, -1.060455, -0.267792, 1.1306, 0.595047, -1.544922, -1.6828], [0.341492, -0.325836, -1.07164, -0.215607, 0.895645, 0.400177, -0.773956, -1.827515], [0.392075, -0.305389, -0.885422, -0.293427, 0.993225, 0.66655, -1.061218, -1.730713], [0.30191, -0.339005, -0.877853, 0.153992, 0.986588, 0.711823, -1.100525, -1.648376], [0.303574, -0.491241, -1.000183, 0.075378, 0.686295, 0.752792, -1.192123, -1.744568], [0.315781, -0.629456, -0.996063, 0.224731, 1.074173, 0.757736, -1.170807, -2.08313], [0.313675, -0.804688, -1.00325, 0.431641, 0.685883, 0.538879, -0.988373, -2.421326], [0.267181, -0.790329, -0.726974, 0.853027, 1.369629, -0.213638, -1.708023, -1.977844], [0.304459, -0.935257, -0.778061, 1.042633, 1.391861, -0.296768, -1.562164, -2.014099], [0.169754, -0.792953, -0.481842, 1.404236, 0.766983, -0.29805, -1.587265, -1.25531], [0.15918, -0.9814, -0.197662, 1.748718, 0.888367, -0.880234, -1.64949, -1.359802], [0.028244, -0.772934, -0.186172, 1.594238, 0.863571, -1.224701, -1.153183, -0.292664], [-0.020401, -0.461578, 0.368088, 1.000366, 1.079636, -0.389603, -0.144409, 0.651733], [0.018555, -0.725418, 0.632599, 1.707336, 0.535049, -1.783859, -0.916122, 1.557007], [-0.038971, -0.797668, 0.820419, 1.483093, 0.350494, -1.465073, -0.786453, 1.370361], [-0.244888, -0.469513, 1.067978, 1.028809, 0.4879, -1.796585, -0.77887, 1.888977], [-0.260193, -0.226593, 1.141754, 1.21228, 0.214005, -1.200943, -0.441177, 0.532715], [-0.165283, 0.016129, 1.263016, 0.745514, -0.211288, -0.802368, 0.215698, 0.316406], [-0.353134, 0.053787, 1.544189, 0.21106, -0.469086, -0.485367, 0.767761, 0.849548], [-0.330215, 0.162704, 1.570053, 0.304718, -0.561172, -0.410294, 0.895126, 0.858093], [-0.333847, 0.173904, 1.56958, 0.075531, -0.5569, -0.259552, 1.276764, 0.749084], [-0.347107, 0.206665, 1.389832, 0.50473, -0.721664, -0.56955, 1.542618, 0.817444], [-0.299057, 0.140244, 1.402924, 0.215363, -0.62767, -0.550461, 1.60788, 0.506958], [-0.292084, 0.052063, 1.463348, 0.290497, -0.462875, -0.497452, 1.280609, 0.261841], [-0.279877, 0.183548, 1.308609, 0.305756, -0.6483, -0.374771, 1.647781, 0.161865], [-0.28389, 0.27916, 1.148636, 0.466736, -0.724442, -0.21991, 1.819901, -0.218872], [-0.275528, 0.309753, 1.192856, 0.398163, -0.828781, -0.268066, 1.763672, 0.116089], [-0.275284, 0.160019, 1.200623, 0.718628, -0.925552, -0.026596, 1.367447, 0.174866], [-0.302795, 0.383438, 1.10556, 0.441833, -0.968323, -0.137375, 1.851791, 0.357971], [-0.317078, 0.22876, 1.272217, 0.462219, -0.855789, -0.294296, 1.593994, 0.127502], [-0.304932, 0.207718, 1.156189, 0.481506, -0.866776, -0.340027, 1.670105, 0.657837], [-0.257217, 0.155655, 1.041428, 0.717926, -0.761597, -0.17244, 1.114151, 0.653503], [-0.321426, 0.292358, 0.73848, 0.422607, -0.850754, -0.057907, 1.462357, 0.697754], [-0.34642, 0.361526, 0.69722, 0.585175, -0.464508, -0.26651, 1.860596, 0.106201], [-0.339844, 0.584229, 0.542603, 0.184937, -0.341263, 0.085648, 1.837311, 0.160461], [-0.32338, 0.661224, 0.512833, 0.319702, -0.195572, 0.004028, 1.046799, 0.233704], [-0.346329, 0.572388, 0.385986, 0.118988, 0.057556, 0.039001, 1.255081, -0.18573], [-0.383392, 0.558395, 0.553391, -0.358612, 0.443573, -0.086014, 0.652878, 0.829956], [-0.420395, 0.668991, 0.64856, -0.021271, 0.511475, 0.639221, 0.860474, 0.463196], [-0.359039, 0.748672, 0.522964, -0.308899, 0.717194, 0.218811, 0.681396, 0.606812], [-0.323914, 0.942627, 0.249069, -0.418365, 0.673599, 0.797974, 0.162674, 0.120361], [-0.411301, 0.92775, 0.493332, -0.286346, 0.165054, 0.63446, 1.085571, 0.120789], [-0.346191, 0.632309, 0.635056, -0.402496, 0.143814, 0.785614, 0.952164, 0.482727], [-0.203812, 0.789261, 0.240433, -0.47699, -0.12912, 0.91832, 1.145493, 0.052002], [-0.048203, 0.632095, 0.009583, -0.53833, 0.232727, 1.293045, 0.308151, 0.188904], [-0.062393, 0.732315, 0.06694, -0.697144, 0.126221, 0.864578, 0.581635, -0.088379]]
query = [[-0.113144, -3.316223, -1.101563, -2.128418, 1.853867, 3.61972, 1.218185, 1.71228], [-0.128952, -3.37915, -1.152237, -2.033081, 1.860199, 4.008179, 0.445938, 1.665894], [-0.0392, -2.976654, -0.888245, -1.613953, 1.638641, 3.849518, 0.034073, 0.768188], [-0.146042, -2.980713, -1.044113, -1.44397, 0.954514, 3.20929, -0.232422, 1.050781], [-0.155029, -2.997192, -1.064438, -1.369873, 0.67688, 2.570709, -0.855347, 1.523438], [-0.102341, -2.686401, -1.029648, -1.00531, 0.950089, 1.933228, -0.526367, 1.598633], [-0.060272, -2.538727, -1.278259, -0.65332, 0.630875, 1.459717, -0.264038, 1.872925], [0.064087, -2.592682, -1.112823, -0.775024, 0.848618, 0.810883, 0.298965, 2.312134], [0.111557, -2.815277, -1.203506, -1.173584, 0.54863, 0.46756, -0.023071, 3.029053], [0.266068, -2.624786, -1.089066, -0.864136, 0.055389, 0.619446, -0.160965, 2.928589], [0.181488, -2.31073, -1.307785, -0.720276, 0.001297, 0.534668, 0.495499, 2.989502], [0.216202, -2.25354, -1.288193, -0.902039, -0.152283, -0.060791, 0.566315, 2.911621], [0.430084, -2.0289, -1.099594, -1.091736, -0.302505, -0.087799, 0.955963, 2.677002], [0.484253, -1.412842, -0.881882, -1.087158, -1.064072, -0.145935, 1.437683, 2.606567], [0.339081, -1.277222, -1.24498, -1.048279, -0.219498, 0.448517, 1.168625, 0.563843], [0.105728, 0.138275, -1.01413, -0.489868, 1.319275, 1.604645, 1.634003, -0.94812], [-0.209061, 1.025665, 0.180405, 0.955566, 1.527405, 0.91745, 1.951233, -0.40686], [-0.136993, 1.332275, 0.639862, 1.277832, 1.277313, 0.361267, 0.390717, -0.728394], [-0.217758, 1.416718, 1.080002, 0.816101, 0.343933, -0.154175, 1.10347, -0.568848]]
reference = np.array( reference )
query = np.array( query )
rpy2.robjects.numpy2ri.activate()
# Set up our R namespaces
R = rpy2.robjects.r
rNull = R("NULL")
rprint = rpy2.robjects.globalenv.get("print")
rplot = rpy2.robjects.r('plot')
distConstr = rpy2.robjects.r('proxy::dist')
DTW = importr('dtw')
stepName = "asymmetricP05"
stepPattern = rpy2.robjects.r( stepName )
canDist = distConstr( reference, query, "Euclidean" ) #
alignment = R.dtw(canDist, rNull, "Euclidean", stepPattern, "none", True, False, True, False )
For some series the script doesn't generate the error but there are some which do. See the commented lines for examples. It is worth noting that for the classic constraint this error does not appear. I am thinking that perhaps I have not set-up something correct but I am no expert in python nor in R so that is why I was hoping that others who have used the R DTW can help me on this. I am sorry for the long lines for reference and query (the data is from outputting the MFCC's of a 2 second wav file).

One of the two series is too short to be compatible with the fancy step pattern you chose. Use the common symmetric2 pattern, which does not restrict slopes, before the more exotic ones.