reps in repeat_report not matching the ticks

[feroi35]

Hello, I have to measure the time in Netlogo and got this problem. I summed it up to keep the essential:

In Netlogo.

globals [
  time
  step-time
]

to setup
  clear-all
  reset-ticks
  set time 0
  set step-time 0.1
end

to go
  every step-time [
    set time (time + step-time)
    tick
  ]
end

So I have one tick every 0.1s. But when I use pynetlogo with this code:

import pyNetLogo
import matplotlib.pyplot as plt

netlogo = pyNetLogo.NetLogoLink(gui=True)
netlogo_file = "pb_pynetlogo.nlogo"
netlogo.load_model(netlogo_file)
netlogo.command('setup')

t = netlogo.repeat_report(['time'], 10000, go='go') 
plt.figure()
plt.plot(t)
plt.show()

netlogo.kill_workspace()

I get this graph. I'm stuck at tick 2, I don't know what does 10000 correspond to exactly.

Maybe I should put what follows in an another issue, but I tried to use another function to bypass this problem. I used :

t = netlogo.report_while(['time'], 'True', command='go')

And got the error message :

 File "C:\Users\...\lib\site-packages\pyNetLogo\core.py", line 389, in report_while
    result = self.link.doReportWhile(command, netlogo_reporter, condition, max_seconds)
AttributeError: 'NetLogoLinkV61.NetLogoLink' object has no attribute 'doReportWhile'

I thought of updating pynetlogo with the current version on Github but I got another Java error (52 can't run 59 or something like that, I don't seem it is relevant.)

[quaquel]

what version of pynetlogo are you using?

Does the simple netlogo model behave as expected when run within NetLogo?

[feroi35]

I use pynetlogo version '0.4.2'. Yes it works as expected on Netlogo

[quaquel]

Hmm... my hunch is that the every command is the problem. See http://ccl.northwestern.edu/netlogo/docs/dict/every.html. Basically, my hypothesis is that pynetlogo invokes the go function much more often than once every 0.1. second. Is there a possiblity for a sleep in NetLogo (I have never used netlogo myself)?

[feroi35]

Yes, it looks that you're right because I tried this on Netlogo:

to go
  every step-time [
    set time (time + step-time)
    tick
  ]
  set test (test + 1)
end

and if I plot the "test" variable, I get the line y = x. That's what the reps are. Even if I try to change the value of the tick, it keeps in memory the initial value somehow. Nevermind, I can still extract the time and the other variables I need and plot them, it should be fine. There is also a wait function indeed. I didn't try yet it yet, I'll see what's best, thanks.

However, I've seen multiple issues about the other error

AttributeError: 'NetLogoLinkV61.NetLogoLink' object has no attribute 'doReportWhile'

but I still get the error, so I'm not sure what to do about it.

[quaquel]

no, it does not keep it in memory. It just skips the body of the code. every is like an if statement if I read the NetLogo docs correctly.

The AttributeError was fixed with #41 but I apparently still have to update the version on pypi.

[feroi35]

Ok thanks. I tried to correct it by hand by copy pasting the pyNetLogo files in the environment but got this error.

Traceback (most recent call last):
  File "org.jpype.manager.TypeManager.java", line -1, in org.jpype.manager.TypeManager.findClassByName
  File "org.jpype.manager.TypeManager.java", line -1, in org.jpype.manager.TypeManager.lookupByName
  File "java.lang.Class.java", line -1, in java.lang.Class.forName
  File "java.lang.Class.java", line -2, in java.lang.Class.forName0
  File "java.lang.ClassLoader.java", line -1, in java.lang.ClassLoader.loadClass
  File "java.lang.ClassLoader.java", line -1, in java.lang.ClassLoader.loadClass
  File "java.lang.ClassLoader.java", line -1, in java.lang.ClassLoader.loadClass
  File "sun.misc.Launcher$AppClassLoader.java", line -1, in sun.misc.Launcher$AppClassLoader.loadClass
  File "java.lang.ClassLoader.java", line -1, in java.lang.ClassLoader.loadClass
  File "java.net.URLClassLoader.java", line -1, in java.net.URLClassLoader.findClass
  File "java.security.AccessController.java", line -2, in java.security.AccessController.doPrivileged
  File "java.net.URLClassLoader$1.java", line -1, in java.net.URLClassLoader$1.run
  File "java.net.URLClassLoader$1.java", line -1, in java.net.URLClassLoader$1.run
  File "java.net.URLClassLoader.java", line -1, in java.net.URLClassLoader.access$100
  File "java.net.URLClassLoader.java", line -1, in java.net.URLClassLoader.defineClass
  File "java.security.SecureClassLoader.java", line -1, in java.security.SecureClassLoader.defineClass
  File "java.lang.ClassLoader.java", line -1, in java.lang.ClassLoader.defineClass
  File "java.lang.ClassLoader.java", line -2, in java.lang.ClassLoader.defineClass1
Exception: Java Exception

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
  File "C:/Users/.../pb_pynetlogo.py", line 4, in <module>
    netlogo = pyNetLogo.NetLogoLink(gui=True)
  File "C:\Users\...\lib\site-packages\pyNetLogo\core.py", line 275, in __init__
    link = jpype.JClass(class_name[self.netlogo_version])
  File "C:\Users\...\lib\site-packages\jpype\_jclass.py", line 99, in __new__
    return _jpype._getClass(jc)
java.lang.UnsupportedClassVersionError: java.lang.UnsupportedClassVersionError: NetLogoLinkV61/NetLogoLink has been compiled by a more recent version of the Java Runtime (class file version 59.0), this version of the Java Runtime only recognizes class file versions up to 52.0