def shuffleCluster(i_bins, c_bins, tracks_map, groups,
                   difference, s_max, i, clusters_dict,
                   s_bins_max, s_bins_min, s_bins_width):
    s_bins = range(s_bins_min, s_bins_max+1, s_bins_width, )

    counts = np.zeros((len(i_bins)+1, len(c_bins)+1, len(s_bins)+1))

    indices = {(key1, key2, key3): []
               for key1 in np.digitize(i_bins, i_bins)
               for key2 in np.digitize(c_bins, c_bins)
               for key3 in np.digitize(s_bins, s_bins)}

    for iteration in range(0,  i):
        E.info("performing shuffling iteration number %i.." % (iteration + 1))
        for size in s_bins:
            group1_mean = []
            group2_mean = []
            g1_rand_s = []
            g2_rand_s = []
            g1_rand = np.random.permutation(clusters_dict.keys())
            g2_rand = np.random.permutation(clusters_dict.keys())
            for perm in range(0, len(g1_rand)):
                cluster1 = clusters_dict[g1_rand[perm]].ix[
                    :, tracks_map[groups[0]]]
                cluster2 = clusters_dict[g2_rand[perm]].ix[
                    :, tracks_map[groups[1]]]
                c1_rand_s = random.randint(
                    min(cluster1.index), max(cluster1.index)-size)
                c1_e = int(c1_rand_s + size)
                c2_rand_s = random.randint(
                    min(cluster2.index), max(cluster2.index)-size)
                c2_e = int(c2_rand_s + size)

                c1_mean = np.mean(np.mean(cluster1.ix[c1_rand_s: c1_e]))
                c2_mean = np.mean(np.mean(cluster2.ix[c2_rand_s: c2_e]))
                group1_mean.append(c1_mean)
                group2_mean.append(c2_mean)
                g1_rand_s.append(c1_rand_s)
                g2_rand_s.append(c2_rand_s)

            change_idx, initial_idx,  = means2idxarrays(
                group1_mean, group2_mean, i_bins,
                c_bins,  difference)
            size_idx = np.digitize([size]*len(initial_idx), s_bins)
            for idx, coord in enumerate(zip(
                    initial_idx, change_idx, size_idx)):
                if counts[coord] < s_max:
                    counts[coord] += 1
                    cluster1_ix = clusters_dict[g1_rand[idx]].index.values
                    cluster1_start = cluster1_ix[0]
                    cluster1_end = cluster1_ix[-1]
                    cluster2_ix = clusters_dict[g2_rand[idx]].index.values
                    cluster2_start = cluster2_ix[0]
                    cluster2_end = cluster2_ix[-1]
                    c1_rand_s = g1_rand_s[idx]
                    c1_rand_e = int(c1_rand_s + size)
                    c2_rand_s = g2_rand_s[idx]
                    c2_rand_e = int(c2_rand_s + size)
                    indices[coord].append((
                        cluster1_start, cluster1_end, cluster2_start,
                        cluster2_end, c1_rand_s, c1_rand_e, c2_rand_s,
                        c2_rand_e))
    return indices, counts
If a name in the base list of a class definition is undefined, a warning is emitted.
dataset/ETHPy150Open CGATOxford/cgat/CGAT/Counts.py/shuffleCluster--crossover with--dataset/ETHPy150Open timothycrosley/frosted/frosted/test/test_other.py/test_undefinedBaseClass