We Keep Coding

AssertionError after trying to convert .sbml file to ode using sbmltoodepy

I am trying to run a simple example using sbmltoodepy and I am receiving the following error.
Traceback (most recent call last):
File "C:\Users\AppData\Roaming\JetBrains\PyCharm2021.2\scratches\scratch_79.py", line 8, in
ParseAndCreateModel(inputFilePath)#, jsonFilePath=None, outputFilePath=None)#, className="SBMLmodel")
File "C:\Users\AppData\Roaming\Python\Python39\site-packages\sbmltoodepy\utilities.py", line 66, in ParseAndCreateModel
modelData = ParseSBMLFile(inputFilePath)
File "C:\Users\AppData\Roaming\Python\Python39\site-packages\sbmltoodepy\parse.py", line 284, in ParseSBMLFile
assert(doc.getNumErrors() == 0)
AssertionError
Here is the code that I used.
import sbmltoodepy
from sbmltoodepy import ParseAndCreateModel
inputFilePath = "E:/Borisov2009_insulin_EGF.xml"
ParseAndCreateModel(inputFilePath, jsonFilePath=None, outputFilePath=None, className="SBMLmodel")
model = sbmltoodepy.SBMLmodel()
model.RunSimulation(1, absoluteTolerance = 1e-12, relativeTolerance = 1e-6)
Thank you in advance for your time.

Getting the error while removing the duplicates in python AzureML classification problem

I'm getting this error while calling drop.duplicate function:
Traceback (most recent call last):
File "train.py", line 159, in <module>
orders_dfx = preprocess_orders(orders_df)
File "train.py", line 20, in preprocess_orders
ao = ao.drop_duplicates(subset=['order_id'], keep='last')
AttributeError: 'TabularDataset' object has no attribute 'drop_duplicates'
Here is a part of train.py code
def preprocess_orders(ao):
ao = ao.drop_duplicates(subset=['order_id'], keep='last')
ao['order_id'] = ao['order_id'].astype('str')
ao['class'] = ao['class'].astype('int')
ao['age'] = ao['age'].astype('float').fillna(ao['age'].mean()).round(2)
return ao
orders_df = Dataset.get_by_name(ws, name='class_cancelled_orders')
orders_df.to_pandas_dataframe()
# Doing processing
orders_dfx = preprocess_orders(orders_df)
I'm getting the data from the datasets in azureml studio. The job.py file is used for running experiment as:
# submit job
run = Experiment(ws, experiment_name).submit(src)
run.wait_for_completion(show_output=True)

The to_pandas_dataframe()method returns a pandas DataFrame, so you need to assign it back your variable:
orders_df = orders_df.to_pandas_dataframe()

K means clustering using weka python

from weka.clusterers import Clusterer
import weka.core.converters as converters
data = converters.load_any_file("/home/ubuntu/test.csv")
data.class_is_last()
clusterer = Clusterer(classname="weka.clusterers.SimpleKMeans", options=["-N", "3"])
clusterer.build_clusterer(data)
print(clusterer)
# cluster the data
for inst in data:
cl = clusterer.cluster_instance(inst) # 0-based cluster index
dist = clusterer.distribution_for_instance(inst) # cluster membership distribution
print("cluster=" + str(cl) + ", distribution=" + str(dist))
I used the above code for doing k means custering i am not able to execute the program
The following are the errors I get
Traceback (most recent call last):
File "clus.py", line 6, in <module>
data = converters.load_any_file("/home/ubuntu/hello.csv")
File "/usr/local/lib/python2.7/dist-packages/weka/core/converters.py", line 255, in load_any_file
loader = loader_for_file(filename)
File "/usr/local/lib/python2.7/dist-packages/weka/core/converters.py", line 239, in loader_for_file
"(Ljava/lang/String;)Lweka/core/converters/AbstractFileLoader;", filename)
File "/usr/local/lib/python2.7/dist-packages/javabridge/jutil.py", line 932, in static_call
fn = make_static_call(class_name, method_name, sig)
File "/usr/local/lib/python2.7/dist-packages/javabridge/jutil.py", line 903, in make_static_call
klass = env.find_class(class_name)
AttributeError: 'NoneType' object has no attribute 'find_class'
I don't know why I am getting these errors. Can someone help me with this?

As described in the python-weka-wrapper API you have to import and start the Java Virtual Machine:
import weka.core.jvm as jvm
jvm.start()
It should solve your problem.

I am using a basic script in Python but am getting the following error. What does it mean?

arcpy.env.workspace("C:/Student/PythonGP10_0/Data/SanJuan.gdb")
arcpy.env.overwriteOutput = True
fcList = arcpy.ListFeatureClasses()
bufferList = []
for fc in fcList:
if fc == "Lakes" or fc == "Streams":
arcpy.Buffer_analysis(fc, fc + "Buffer", "1000 meters")
bufferList.append(fc + "Buffer")
arcpy.Union_analysis(bufferList, "WaterBuffers")
Followed by this error when I run the script:
Traceback (most recent call last):
File "C:\Python27\ArcGIS10.2\Lib\site-packages\pythonwin\pywin\framework\scriptutils.py", line 326, in RunScript
exec codeObject in __main__.__dict__
File "C:\Student\PythonGP10_0\Scripts\BufferWater.py", line 3, in <module>
arcpy.env.workspace("C:/Student/PythonGP10_0/Data/SanJuan.gdb")
TypeError: 'unicode' object is not callable

According to the ArcGIS Help, arcpy.env.workspace should be set, not to be called:
arcpy.env.workspace = "C:/Student/PythonGP10_0/Data/SanJuan.gdb"

from sympy import Plot fail

I am using three different ways to import Plot function. All fail.
1:
from sympy import *
if __name__ == '__main__':
pp1,pp2,el1,el2=insline(0,0,4,0,1.5,1,1.5,1)
print pp1.evalf(),pp2.evalf()
p=Plot()
p[0]=el1
p[1]=el2
p[2]=Segment(pp1,pp2)
p.show()
Shows:
Traceback (most recent call last):
File "C:\Users\Erdong\workspace\Gungeo\src\gungeo.py", line 39, in <module>
p=Plot()
NameError: name 'Plot' is not defined
2:
from sympy import Point, Ellipse, intersection, Segment,plot
import math
def
...
if __name__ == '__main__':
pp1,pp2,el1,el2=insline(0,0,4,0,1.5,1,1.5,1)
print pp1.evalf(),pp2.evalf()
p=plot.Plot()
p[0]=el1
p[1]=el2
p[2]=Segment(pp1,pp2)
p.show()
Shows:
Traceback (most recent call last):
File "C:\Users\Erdong\workspace\Gungeo\src\gungeo.py", line 39, in <module>
p=plot.Plot()
AttributeError: 'function' object has no attribute 'Plot'
3.
from sympy import Plot
Shows:
Traceback (most recent call last):
File "E:\Project\Build up\programming\learn\learn.py", line 7, in <module>
from sympy import Plot
ImportError: cannot import name Plot
Please help how to import Plot from sympy-0.7.6.
I also tried:
from sympy.plotting.pygletplot import PygletPlot as Plot
But got error also:
{
Traceback (most recent call last):
File "C:\Users\Erdong\workspace\Gungeo\src\gungeo.py", line 92, in
p=Plot(el1)
File "C:\Python27\lib\site-packages\sympy\plotting\pygletplot__init__.py", line 139, in PygletPlot
import plot
File "C:\Python27\lib\site-packages\sympy\plotting\pygletplot\plot.py", line 16, in
from plot_axes import PlotAxes
File "C:\Python27\lib\site-packages\sympy\plotting\pygletplot\plot_axes.py", line 7, in
from util import strided_range, billboard_matrix
File "C:\Python27\lib\site-packages\sympy\plotting\pygletplot\util.py", line 8, in
def get_model_matrix(array_type=c_float, glGetMethod=glGetFloatv):
NameError: name 'c_float' is not defined
}

Have a look at http://docs.sympy.org/latest/modules/plotting.html. It should be
from sympy import symbols
from sympy.plotting import plot
x = symbols('x')
p = plot(x)

Maybe you want the old Plot that uses pyglet:
from sympy.plotting.pygletplot import PygletPlot as Plot