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Raw output: denoise_cython.c

 001: 
 002: 
+003: import numpy as np
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 004: cimport numpy as np
 005: cimport cython
 006: 
 007: from libc.math cimport sqrt, abs
 008: 
+009: from PIL import Image
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+011: from pathlib import Path
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 012: 
+013: DTYPE = np.float64
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+015: @cython.boundscheck(False)
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 022:     """Image denoising algorithm following Chambolle's method
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 025:     Note that the scikit-image library also has a reference implementation
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 027: 
 028:     References
 029:     ----------
 030:     .. [1] Antonin Chambolle, An algorithm for total variation minimization
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    __Pyx_XDECREF_SET(__pyx_v_result_channel, __pyx_t_6);
    __PYX_XCLEAR_MEMVIEW(&__pyx_t_12, 1);
    __pyx_t_12.memview = NULL; __pyx_t_12.data = NULL;
    __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
 066: 
+067:         num_iter = 0
    __pyx_v_num_iter = 0;
+068:         while num_iter < max_num_iter:
    while (1) {
      __pyx_t_13 = (__pyx_v_num_iter < __pyx_v_max_num_iter);
      if (!__pyx_t_13) break;
+069:             if num_iter > 0:
      __pyx_t_13 = (__pyx_v_num_iter > 0);
      if (__pyx_t_13) {
/* … */
      }
 070:                 # p_div = p.sum(axis=0)
 071:                 # p_div[1:, :] -= p[0, 0:-1, :]
 072:                 # p_div[:, 1:] -= p[1, :, 0:-1]
+073:                 for i in range(M):
        __pyx_t_14 = __pyx_v_M;
        __pyx_t_15 = __pyx_t_14;
        for (__pyx_t_16 = 0; __pyx_t_16 < __pyx_t_15; __pyx_t_16+=1) {
          __pyx_v_i = __pyx_t_16;
+074:                     for j in range(N):
          __pyx_t_17 = __pyx_v_N;
          __pyx_t_18 = __pyx_t_17;
          for (__pyx_t_19 = 0; __pyx_t_19 < __pyx_t_18; __pyx_t_19+=1) {
            __pyx_v_j = __pyx_t_19;
+075:                         p_div_ij = 0
            __pyx_v_p_div_ij = 0.0;
+076:                         if i < M - 1:
            __pyx_t_13 = (__pyx_v_i < (__pyx_v_M - 1));
            if (__pyx_t_13) {
/* … */
            }
+077:                             p_div_ij += p_view[0, i, j]
              __pyx_t_20 = 0;
              __pyx_t_21 = __pyx_v_i;
              __pyx_t_22 = __pyx_v_j;
              if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[0];
              if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
              if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[2];
              __pyx_v_p_div_ij = (__pyx_v_p_div_ij + (*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_20 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_22 * __pyx_v_p_view.strides[2]) ))));
+078:                         if i > 0:
            __pyx_t_13 = (__pyx_v_i > 0);
            if (__pyx_t_13) {
/* … */
            }
+079:                             p_div_ij -= p_view[0, i-1, j]
              __pyx_t_22 = 0;
              __pyx_t_21 = (__pyx_v_i - 1);
              __pyx_t_20 = __pyx_v_j;
              if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[0];
              if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
              if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[2];
              __pyx_v_p_div_ij = (__pyx_v_p_div_ij - (*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_22 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_20 * __pyx_v_p_view.strides[2]) ))));
+080:                         if j < N - 1:
            __pyx_t_13 = (__pyx_v_j < (__pyx_v_N - 1));
            if (__pyx_t_13) {
/* … */
            }
+081:                             p_div_ij += p_view[1, i, j]
              __pyx_t_20 = 1;
              __pyx_t_21 = __pyx_v_i;
              __pyx_t_22 = __pyx_v_j;
              if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[0];
              if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
              if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[2];
              __pyx_v_p_div_ij = (__pyx_v_p_div_ij + (*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_20 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_22 * __pyx_v_p_view.strides[2]) ))));
+082:                         if j > 0:
            __pyx_t_13 = (__pyx_v_j > 0);
            if (__pyx_t_13) {
/* … */
            }
+083:                             p_div_ij -= p_view[1, i, j-1]
              __pyx_t_22 = 1;
              __pyx_t_21 = __pyx_v_i;
              __pyx_t_20 = (__pyx_v_j - 1);
              if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[0];
              if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
              if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[2];
              __pyx_v_p_div_ij = (__pyx_v_p_div_ij - (*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_22 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_20 * __pyx_v_p_view.strides[2]) ))));
 084: 
+085:                         result_channel_view[i, j] = image_data_view[i, j, channel] - p_div_ij
            __pyx_t_20 = __pyx_v_i;
            __pyx_t_21 = __pyx_v_j;
            __pyx_t_22 = __pyx_v_channel;
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_image_data_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_image_data_view.shape[1];
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_image_data_view.shape[2];
            __pyx_t_23 = __pyx_v_i;
            __pyx_t_24 = __pyx_v_j;
            if (__pyx_t_23 < 0) __pyx_t_23 += __pyx_v_result_channel_view.shape[0];
            if (__pyx_t_24 < 0) __pyx_t_24 += __pyx_v_result_channel_view.shape[1];
            *((double *) ( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_channel_view.data + __pyx_t_23 * __pyx_v_result_channel_view.strides[0]) ) + __pyx_t_24 * __pyx_v_result_channel_view.strides[1]) )) = ((*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_image_data_view.data + __pyx_t_20 * __pyx_v_image_data_view.strides[0]) ) + __pyx_t_21 * __pyx_v_image_data_view.strides[1]) ) + __pyx_t_22 * __pyx_v_image_data_view.strides[2]) ))) - __pyx_v_p_div_ij);
          }
        }
 086: 
 087:                 # result_channel = image_data[:, :, channel] - p_div
 088: 
 089:             # result_gradient[0, 0:-1, :] = np.diff(result_channel, axis=0)
 090:             # result_gradient[1, :, 0:-1] = np.diff(result_channel, axis=1)
+091:             for i in range(M):
      __pyx_t_14 = __pyx_v_M;
      __pyx_t_15 = __pyx_t_14;
      for (__pyx_t_16 = 0; __pyx_t_16 < __pyx_t_15; __pyx_t_16+=1) {
        __pyx_v_i = __pyx_t_16;
+092:                 for j in range(N):
        __pyx_t_17 = __pyx_v_N;
        __pyx_t_18 = __pyx_t_17;
        for (__pyx_t_19 = 0; __pyx_t_19 < __pyx_t_18; __pyx_t_19+=1) {
          __pyx_v_j = __pyx_t_19;
+093:                     if i < M - 1:
          __pyx_t_13 = (__pyx_v_i < (__pyx_v_M - 1));
          if (__pyx_t_13) {
/* … */
          }
+094:                         result_gradient_view[0, i, j] = result_channel_view[i + 1, j] - result_channel_view[i, j]
            __pyx_t_22 = (__pyx_v_i + 1);
            __pyx_t_21 = __pyx_v_j;
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_result_channel_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_result_channel_view.shape[1];
            __pyx_t_20 = __pyx_v_i;
            __pyx_t_24 = __pyx_v_j;
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_result_channel_view.shape[0];
            if (__pyx_t_24 < 0) __pyx_t_24 += __pyx_v_result_channel_view.shape[1];
            __pyx_t_23 = 0;
            __pyx_t_25 = __pyx_v_i;
            __pyx_t_26 = __pyx_v_j;
            if (__pyx_t_23 < 0) __pyx_t_23 += __pyx_v_result_gradient_view.shape[0];
            if (__pyx_t_25 < 0) __pyx_t_25 += __pyx_v_result_gradient_view.shape[1];
            if (__pyx_t_26 < 0) __pyx_t_26 += __pyx_v_result_gradient_view.shape[2];
            *((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_gradient_view.data + __pyx_t_23 * __pyx_v_result_gradient_view.strides[0]) ) + __pyx_t_25 * __pyx_v_result_gradient_view.strides[1]) ) + __pyx_t_26 * __pyx_v_result_gradient_view.strides[2]) )) = ((*((double *) ( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_channel_view.data + __pyx_t_22 * __pyx_v_result_channel_view.strides[0]) ) + __pyx_t_21 * __pyx_v_result_channel_view.strides[1]) ))) - (*((double *) ( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_channel_view.data + __pyx_t_20 * __pyx_v_result_channel_view.strides[0]) ) + __pyx_t_24 * __pyx_v_result_channel_view.strides[1]) ))));
+095:                     if j < N - 1:
          __pyx_t_13 = (__pyx_v_j < (__pyx_v_N - 1));
          if (__pyx_t_13) {
/* … */
          }
        }
      }
+096:                         result_gradient_view[1, i, j] = result_channel_view[i, j + 1] - result_channel_view[i, j]
            __pyx_t_24 = __pyx_v_i;
            __pyx_t_20 = (__pyx_v_j + 1);
            if (__pyx_t_24 < 0) __pyx_t_24 += __pyx_v_result_channel_view.shape[0];
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_result_channel_view.shape[1];
            __pyx_t_21 = __pyx_v_i;
            __pyx_t_22 = __pyx_v_j;
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_result_channel_view.shape[0];
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_result_channel_view.shape[1];
            __pyx_t_26 = 1;
            __pyx_t_25 = __pyx_v_i;
            __pyx_t_23 = __pyx_v_j;
            if (__pyx_t_26 < 0) __pyx_t_26 += __pyx_v_result_gradient_view.shape[0];
            if (__pyx_t_25 < 0) __pyx_t_25 += __pyx_v_result_gradient_view.shape[1];
            if (__pyx_t_23 < 0) __pyx_t_23 += __pyx_v_result_gradient_view.shape[2];
            *((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_gradient_view.data + __pyx_t_26 * __pyx_v_result_gradient_view.strides[0]) ) + __pyx_t_25 * __pyx_v_result_gradient_view.strides[1]) ) + __pyx_t_23 * __pyx_v_result_gradient_view.strides[2]) )) = ((*((double *) ( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_channel_view.data + __pyx_t_24 * __pyx_v_result_channel_view.strides[0]) ) + __pyx_t_20 * __pyx_v_result_channel_view.strides[1]) ))) - (*((double *) ( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_channel_view.data + __pyx_t_21 * __pyx_v_result_channel_view.strides[0]) ) + __pyx_t_22 * __pyx_v_result_channel_view.strides[1]) ))));
 097: 
 098: 
+099:             max_var = 0
      __pyx_v_max_var = 0.0;
+100:             for i in range(M):
      __pyx_t_14 = __pyx_v_M;
      __pyx_t_15 = __pyx_t_14;
      for (__pyx_t_16 = 0; __pyx_t_16 < __pyx_t_15; __pyx_t_16+=1) {
        __pyx_v_i = __pyx_t_16;
+101:                 for j in range(N):
        __pyx_t_17 = __pyx_v_N;
        __pyx_t_18 = __pyx_t_17;
        for (__pyx_t_19 = 0; __pyx_t_19 < __pyx_t_18; __pyx_t_19+=1) {
          __pyx_v_j = __pyx_t_19;
+102:                     for ax in range(2):
          for (__pyx_t_27 = 0; __pyx_t_27 < 2; __pyx_t_27+=1) {
            __pyx_v_ax = __pyx_t_27;
+103:                         tmp = p_view[ax, i, j]
            __pyx_t_22 = __pyx_v_ax;
            __pyx_t_21 = __pyx_v_i;
            __pyx_t_20 = __pyx_v_j;
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[2];
            __pyx_v_tmp = (*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_22 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_20 * __pyx_v_p_view.strides[2]) )));
 104:                         scale = (
+105:                             1.0 + tau / weight * sqrt(
            if (unlikely(__pyx_v_weight == 0)) {
              PyErr_SetString(PyExc_ZeroDivisionError, "float division");
              __PYX_ERR(0, 105, __pyx_L1_error)
            }
/* … */
            __pyx_v_scale = (1.0 + ((((double)__pyx_v_tau) / __pyx_v_weight) * sqrt((pow((*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_gradient_view.data + __pyx_t_20 * __pyx_v_result_gradient_view.strides[0]) ) + __pyx_t_21 * __pyx_v_result_gradient_view.strides[1]) ) + __pyx_t_22 * __pyx_v_result_gradient_view.strides[2]) ))), 2.0) + pow((*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_gradient_view.data + __pyx_t_24 * __pyx_v_result_gradient_view.strides[0]) ) + __pyx_t_23 * __pyx_v_result_gradient_view.strides[1]) ) + __pyx_t_25 * __pyx_v_result_gradient_view.strides[2]) ))), 2.0)))));
+106:                                 result_gradient_view[0, i, j]**2 + result_gradient_view[1, i, j]**2
            __pyx_t_20 = 0;
            __pyx_t_21 = __pyx_v_i;
            __pyx_t_22 = __pyx_v_j;
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_result_gradient_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_result_gradient_view.shape[1];
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_result_gradient_view.shape[2];
            __pyx_t_24 = 1;
            __pyx_t_23 = __pyx_v_i;
            __pyx_t_25 = __pyx_v_j;
            if (__pyx_t_24 < 0) __pyx_t_24 += __pyx_v_result_gradient_view.shape[0];
            if (__pyx_t_23 < 0) __pyx_t_23 += __pyx_v_result_gradient_view.shape[1];
            if (__pyx_t_25 < 0) __pyx_t_25 += __pyx_v_result_gradient_view.shape[2];
 107:                             )
 108:                         )
+109:                         p_view[ax, i, j] = p_view[ax, i, j] - tau * result_gradient_view[ax, i, j]
            __pyx_t_25 = __pyx_v_ax;
            __pyx_t_23 = __pyx_v_i;
            __pyx_t_24 = __pyx_v_j;
            if (__pyx_t_25 < 0) __pyx_t_25 += __pyx_v_p_view.shape[0];
            if (__pyx_t_23 < 0) __pyx_t_23 += __pyx_v_p_view.shape[1];
            if (__pyx_t_24 < 0) __pyx_t_24 += __pyx_v_p_view.shape[2];
            __pyx_t_22 = __pyx_v_ax;
            __pyx_t_21 = __pyx_v_i;
            __pyx_t_20 = __pyx_v_j;
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_result_gradient_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_result_gradient_view.shape[1];
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_result_gradient_view.shape[2];
            __pyx_t_26 = __pyx_v_ax;
            __pyx_t_28 = __pyx_v_i;
            __pyx_t_29 = __pyx_v_j;
            if (__pyx_t_26 < 0) __pyx_t_26 += __pyx_v_p_view.shape[0];
            if (__pyx_t_28 < 0) __pyx_t_28 += __pyx_v_p_view.shape[1];
            if (__pyx_t_29 < 0) __pyx_t_29 += __pyx_v_p_view.shape[2];
            *((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_26 * __pyx_v_p_view.strides[0]) ) + __pyx_t_28 * __pyx_v_p_view.strides[1]) ) + __pyx_t_29 * __pyx_v_p_view.strides[2]) )) = ((*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_25 * __pyx_v_p_view.strides[0]) ) + __pyx_t_23 * __pyx_v_p_view.strides[1]) ) + __pyx_t_24 * __pyx_v_p_view.strides[2]) ))) - (__pyx_v_tau * (*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_result_gradient_view.data + __pyx_t_22 * __pyx_v_result_gradient_view.strides[0]) ) + __pyx_t_21 * __pyx_v_result_gradient_view.strides[1]) ) + __pyx_t_20 * __pyx_v_result_gradient_view.strides[2]) )))));
+110:                         p_view[ax, i, j] = p_view[ax, i, j] / scale
            __pyx_t_20 = __pyx_v_ax;
            __pyx_t_21 = __pyx_v_i;
            __pyx_t_22 = __pyx_v_j;
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[2];
            __pyx_t_30 = (*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_20 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_22 * __pyx_v_p_view.strides[2]) )));
            if (unlikely(__pyx_v_scale == 0)) {
              PyErr_SetString(PyExc_ZeroDivisionError, "float division");
              __PYX_ERR(0, 110, __pyx_L1_error)
            }
            __pyx_t_22 = __pyx_v_ax;
            __pyx_t_21 = __pyx_v_i;
            __pyx_t_20 = __pyx_v_j;
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[2];
            *((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_22 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_20 * __pyx_v_p_view.strides[2]) )) = (__pyx_t_30 / __pyx_v_scale);
+111:                         tmp_var = abs(p_view[ax, i, j] - tmp)
            __pyx_t_20 = __pyx_v_ax;
            __pyx_t_21 = __pyx_v_i;
            __pyx_t_22 = __pyx_v_j;
            if (__pyx_t_20 < 0) __pyx_t_20 += __pyx_v_p_view.shape[0];
            if (__pyx_t_21 < 0) __pyx_t_21 += __pyx_v_p_view.shape[1];
            if (__pyx_t_22 < 0) __pyx_t_22 += __pyx_v_p_view.shape[2];
            __pyx_v_tmp_var = fabs(((*((double *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_p_view.data + __pyx_t_20 * __pyx_v_p_view.strides[0]) ) + __pyx_t_21 * __pyx_v_p_view.strides[1]) ) + __pyx_t_22 * __pyx_v_p_view.strides[2]) ))) - __pyx_v_tmp));
+112:                         if tmp_var > max_var:
            __pyx_t_13 = (__pyx_v_tmp_var > __pyx_v_max_var);
            if (__pyx_t_13) {
/* … */
            }
          }
        }
      }
+113:                             max_var = tmp_var
              __pyx_v_max_var = __pyx_v_tmp_var;
 114: 
 115:             #factors = 1.0 + tau / weight * np.sqrt(
 116:             #    np.power(result_gradient, 2).sum(axis=0)
 117:             #)
 118:             #factors = factors[np.newaxis, ...]
 119:             #p_new = p - tau * result_gradient
 120:             #p_new /= factors
 121: 
 122:             # max_var = np.max(np.abs(p_new - p))
 123:             # if num_iter % 20 == 0:
 124:             #     print(f"Maximal variation: {max_var}")
 125: 
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 134: 
+135:     return Image.fromarray(
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 136:         # (result_image * 255).astype(np.uint8)
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 138:     )
 139: