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POErrors with matplotlib plot, python
 

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    <p>I get this horrible massive error when trying to plot using matplotlib:</p> <pre><code>Traceback (most recent call last): File "24oct_specanal.py", line 90, in &lt;module&gt; main() File "24oct_specanal.py", line 83, in main plt.plot(Svar,Sav) File "/usr/lib64/python2.6/site-packages/matplotlib/pyplot.py", line 2458, in plot ret = ax.plot(*args, **kwargs) File "/usr/lib64/python2.6/site-packages/matplotlib/axes.py", line 3849, in plot self.add_line(line) File "/usr/lib64/python2.6/site-packages/matplotlib/axes.py", line 1443, in add_line self._update_line_limits(line) File "/usr/lib64/python2.6/site-packages/matplotlib/axes.py", line 1451, in _update_line_limits p = line.get_path() File "/usr/lib64/python2.6/site-packages/matplotlib/lines.py", line 644, in get_path self.recache() File "/usr/lib64/python2.6/site-packages/matplotlib/lines.py", line 392, in recache x = np.asarray(xconv, np.float_) File "/usr/lib64/python2.6/site-packages/numpy/core/numeric.py", line 235, in asarray return array(a, dtype, copy=False, order=order) ValueError: setting an array element with a sequence. </code></pre> <p>This is the code I am using:</p> <pre><code>import numpy as np import numpy.linalg import random import matplotlib.pyplot as plt import pylab from scipy.optimize import curve_fit from array import array def makeAImatrix(n): A=np.zeros((n,n)) I=np.ones((n)) for i in range(0,n): for j in range(i+1,n): A[j,i]=random.random() for i in range(0,n): for j in range(i+1,n): A[i,j] = A[j,i] for i in range(n): A[i,i]=1 return (A, I) def main(): n=5 #number of species t=1 # number of matrices to check Aflat = [] Aflatlist = [] #list of matrices Aflatav = [] Aflatvar = [] Aflatskew = [] remspec = [] Afreeze = [] #this is a LIST OF VECTORS that stores the vector corresponding to each extinct species as #it is taken out. it is NOT the same as the original A matrix as it is only #coherant in one direction. it is also NOT A SQUARE. Sex = [] # (Species extinct) this is a vector that corresponds to the Afreeze matrix. if a species is extinct then #the value stored here will be -1. Sav = [] # (Species average) The average value of the A cooefficiants for each species Svar = [] # (Species variance) for k in range (0,t): allpos = 0 A, I = makeAImatrix(n) while allpos !=1: #while all solutions are not positive x = numpy.linalg.solve(A,I) if any(t&lt;0 for t in x): #if any of the solutions in x are negative p=np.where(x==min(x)) # find the most negative solution, p is the position #now store the A coefficiants of the extinct species in the Afreeze list Afreeze.append(A[p]) Sex.append(-1) #given -1 value as species is extinct. x=np.delete(x, p, 0) A=np.delete(A, p, 0) A=np.delete(A, p, 1) I=np.delete(I, p, 0) else: allpos = 1 #set allpos to one so loop is broken l=len(x) #now fill Afreeze and Sex with the remaining species that have survived for m in range (0, l): Afreeze.append(A[m]) Sex.append(1) # value of 1 as this species has survived #now time to analyse the coefficiants for each species. for m in range (0, len(Sex)): X1 = sum(Afreeze[m])/len(Afreeze[m]) # this is the mean X2 = 0 for p in range (len(Afreeze[m])): X2 = X2 + Afreeze[m][p] X2 = X2/len(Afreeze[m]) Sav.append(X1) Svar.append(X2 - X1*X1) spec = [] for b in range(0,n): spec.append(b) plt.plot(Svar,Sav) plt.show() #plt.scatter(spec, Sav) #plt.show() if __name__ == '__main__': main() </code></pre> <p>I cannot figure this out at all! I think it was working before but then just stopped working. Any ideas?</p>
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    1. COLine 90 is the very last line that says main()
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    2. COI'm afraid your indentation is still messy: `main()` is less indented than the above `if` statement, for example.
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    3. COyes sorry it was terrible... should be ok now
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