diff --git a/notebooks/AGIPD/Characterize_AGIPD_Gain_Darks_NBC.ipynb b/notebooks/AGIPD/Characterize_AGIPD_Gain_Darks_NBC.ipynb
index 58aaf3e526a2241897dc50d5a115bc3288551c8e..9dc02f12d81f3453a601beaa1fe3ca37819efc3a 100644
--- a/notebooks/AGIPD/Characterize_AGIPD_Gain_Darks_NBC.ipynb
+++ b/notebooks/AGIPD/Characterize_AGIPD_Gain_Darks_NBC.ipynb
@@ -135,7 +135,7 @@
"gains = np.arange(3)\n",
"\n",
"max_cells = mem_cells\n",
- " \n",
+ "\n",
"offset_runs = OrderedDict()\n",
"offset_runs[\"high\"] = run_high\n",
"offset_runs[\"med\"] = run_med\n",
@@ -203,7 +203,7 @@
" gsettings.append(get_gain_setting(control_fname, h5path_ctrl))\n",
" if not all(g == gsettings[0] for g in gsettings):\n",
" raise ValueError(f\"Different gain settings for the 3 input runs {gsettings}\")\n",
- " gain_setting = gsettings[0] \n",
+ " gain_setting = gsettings[0]\n",
" except Exception as e:\n",
" print(f'Error while reading gain setting from: \\n{control_fname}')\n",
" print(f'Error: {e}')\n",
@@ -228,7 +228,7 @@
"h5path = h5path.format(karabo_id, receiver_id)\n",
"h5path_idx = h5path_idx.format(karabo_id, receiver_id)\n",
"\n",
- "if bias_voltage == 0: \n",
+ "if bias_voltage == 0:\n",
" # Read the bias voltage from files, if recorded.\n",
" # If not available, make use of the historical voltage the detector is running at\n",
" bias_voltage = get_bias_voltage(control_names[0], karabo_id_control)\n",
@@ -620,15 +620,15 @@
" acquisition_rate=acq_rate,\n",
" gain_setting=gain_setting)\n",
" if db_output:\n",
- " md = send_to_db(db_module, karabo_id, dconst, condition, file_loc, \n",
+ " md = send_to_db(db_module, karabo_id, dconst, condition, file_loc,\n",
" report, cal_db_interface, creation_time=creation_time,\n",
" timeout=cal_db_timeout)\n",
"\n",
" if local_output:\n",
- " md = save_const_to_h5(db_module, karabo_id, dconst, condition, dconst.data, \n",
+ " md = save_const_to_h5(db_module, karabo_id, dconst, condition, dconst.data,\n",
" file_loc, report, creation_time, out_folder)\n",
" print(f\"Calibration constant {const} is stored locally.\\n\")\n",
- " \n",
+ "\n",
" print(\"Constants parameter conditions are:\\n\")\n",
" print(f\"• memory_cells: {max_cells}\\n• bias_voltage: {bias_voltage}\\n\"\n",
" f\"• acquisition_rate: {acq_rate}\\n• gain_setting: {gain_setting}\\n\"\n",
@@ -723,18 +723,18 @@
" BadPixels.OFFSET_OUT_OF_THRESHOLD.value: (BadPixels.OFFSET_OUT_OF_THRESHOLD.name, '#00FF0080'),\n",
" BadPixels.GAIN_THRESHOLDING_ERROR.value: (BadPixels.GAIN_THRESHOLDING_ERROR.name, '#FF40FF40'),\n",
" BadPixels.OFFSET_OUT_OF_THRESHOLD.value | BadPixels.NOISE_OUT_OF_THRESHOLD.value: ('OFFSET_OUT_OF_THRESHOLD + NOISE_OUT_OF_THRESHOLD', '#DD00DD80'),\n",
- " BadPixels.OFFSET_OUT_OF_THRESHOLD.value | BadPixels.NOISE_OUT_OF_THRESHOLD.value | \n",
+ " BadPixels.OFFSET_OUT_OF_THRESHOLD.value | BadPixels.NOISE_OUT_OF_THRESHOLD.value |\n",
" BadPixels.GAIN_THRESHOLDING_ERROR.value: ('MIXED', '#BFDF009F')}\n",
"\n",
"if high_res_badpix_3d:\n",
" display(Markdown(\"\"\"\n",
- " \n",
+ "\n",
" ## Global Bad Pixel Behaviour ##\n",
"\n",
- " The following plots show the results of bad pixel evaluation for all evaluated memory cells. \n",
- " Cells are stacked in the Z-dimension, while pixels values in x/y are rebinned with a factor of 2. \n",
- " This excludes single bad pixels present only in disconnected pixels. \n",
- " Hence, any bad pixels spanning at least 4 pixels in the x/y-plane, or across at least two memory cells are indicated. \n",
+ " The following plots show the results of bad pixel evaluation for all evaluated memory cells.\n",
+ " Cells are stacked in the Z-dimension, while pixels values in x/y are rebinned with a factor of 2.\n",
+ " This excludes single bad pixels present only in disconnected pixels.\n",
+ " Hence, any bad pixels spanning at least 4 pixels in the x/y-plane, or across at least two memory cells are indicated.\n",
" Colors encode the bad pixel type, or mixed type.\n",
"\n",
" \"\"\"))\n",
@@ -847,10 +847,10 @@
" for bit in bits:\n",
" l_data_old.append(np.count_nonzero(old_const['BadPixelsDark'][:, :, :, gain] & bit.value))\n",
"\n",
- " l_data_name = ['All bad pixels', 'NOISE_OUT_OF_THRESHOLD', \n",
+ " l_data_name = ['All bad pixels', 'NOISE_OUT_OF_THRESHOLD',\n",
" 'OFFSET_OUT_OF_THRESHOLD', 'OFFSET_NOISE_EVAL_ERROR', 'GAIN_THRESHOLDING_ERROR']\n",
"\n",
- " l_threshold = ['', f'{thresholds_noise_sigma}' f'{thresholds_noise_hard[gain]}', \n",
+ " l_threshold = ['', f'{thresholds_noise_sigma}' f'{thresholds_noise_hard[gain]}',\n",
" f'{thresholds_offset_sigma}' f'{thresholds_offset_hard[gain]}',\n",
" '', f'{thresholds_gain_sigma}']\n",
"\n",
@@ -873,9 +873,9 @@
"\n",
"'''))\n",
"if len(table)>0:\n",
- " md = display(Latex(tabulate.tabulate(table, tablefmt='latex', \n",
- " headers=[\"Pixel type\", \"Threshold\", \n",
- " \"New constant\", \"Old constant\"]))) "
+ " md = display(Latex(tabulate.tabulate(table, tablefmt='latex',\n",
+ " headers=[\"Pixel type\", \"Threshold\",\n",
+ " \"New constant\", \"Old constant\"])))"
]
},
{
@@ -884,9 +884,9 @@
"metadata": {},
"outputs": [],
"source": [
- "header = ['Parameter', \n",
- " \"New constant\", \"Old constant \", \n",
- " \"New constant\", \"Old constant \", \n",
+ "header = ['Parameter',\n",
+ " \"New constant\", \"Old constant \",\n",
+ " \"New constant\", \"Old constant \",\n",
" \"New constant\", \"Old constant \",\n",
" \"New constant\", \"Old constant \"]\n",
"\n",
@@ -896,15 +896,15 @@
" ['Offset', 'Noise', 'ThresholdsDark']\n",
"\n",
"for const in constants:\n",
- " \n",
+ "\n",
" if const == 'ThresholdsDark':\n",
" table = [['','HG-MG threshold', 'HG-MG threshold', 'MG-LG threshold', 'MG-LG threshold']]\n",
- " else: \n",
+ " else:\n",
" table = [['','High gain', 'High gain', 'Medium gain', 'Medium gain', 'Low gain', 'Low gain']]\n",
"\n",
" for qm in res.keys():\n",
" data = np.copy(res[qm][const])\n",
- " \n",
+ "\n",
" if const == 'ThresholdsDark':\n",
" data[...,0][res[qm]['BadPixelsDark'][...,0]>0] = np.nan\n",
" data[...,1][res[qm]['BadPixelsDark'][...,1]>0] = np.nan\n",
@@ -937,7 +937,7 @@
" table.append(line)\n",
"\n",
" display(Markdown('### {} [ADU], good pixels only ###'.format(const)))\n",
- " md = display(Latex(tabulate.tabulate(table, tablefmt='latex', headers=header))) "
+ " md = display(Latex(tabulate.tabulate(table, tablefmt='latex', headers=header)))"
]
}
],