5356c93e2c5a5c349f59d50fb81849ed5b0aa556,lib/prody/sequence/plotting.py,,showShannonEntropy,#Any#Any#,31

Before Change

    xlabel = kwargs.pop("xlabel", None)
    if indices is None:
        length = len(entropy)    
        if msa is not None and False:
            try:
                occ = calcMSAOccupancy(msa, "row")
            except TypeError:
                pass
            else:
                split, msa.split = msa.split, True
                rows = (occ == 1.0).nonzero()[0]
                for row in rows: 
                    //try:
                    label, seq, start, end = msa[row]
                    //except:
                    //    break
                    //else:
                    if end - start - 1 == length:
                        indices = arange(start, end + 1)
                        xlabel = "Residue number ({0:s})".format(label)
                        break
                msa.split = split
            
        if indices is None:  
            indices = arange(1, length + 1)
        xlabel = xlabel or "MSA column index"

After Change

    format = kwargs.pop("format", True)
    import matplotlib.pyplot as plt
    show = plt.bar(indices, entropy, **kwargs)
    if format:
        plt.xlabel(xlabel)
        plt.ylabel(ylabel)
        if title is None:
            if msa is None:  
                title = "Conservation"
            else:
                title = "Conservation: " + str(msa)
        plt.title(title)
    return show


def showMutualInfo(mutinfo, *args, **kwargs):

Instances