bioMatrix.py

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class bioMatrix(object):
    
    def __init__(self, dim, names, values):
        
        self.dim = dim
        self.names = names
        j = 0 
        self.keys = {}
        for i in names:
            self.keys[i] = j
            j += 1 
        # initialize matrix and fill with zeroes
        self.matrix = []
        for i in names:
            ea_row = []
            for j in range(dim):
                ea_row.append(values[self.keys[i]][j])
            self.matrix.append(ea_row)
 
    
    def setvalue(self, rowname, colname, v):
        self.matrix[self.keys[colname]][self.keys[rowname]] = v
        self.matrix[self.keys[rowname]][self.keys[colname]] = v
 
    
    def getvalue(self, rowname, colname):
        return self.matrix[self.keys[colname]][self.keys[rowname]] 

    
    def __str__(self):
        outStr = ""
        for k in self.names:
            outStr += '%s: %s\n' % (k,self.matrix[self.keys[k]])
        return outStr