From 136f5dacf77fee34162a529e82ee9d8621512613 Mon Sep 17 00:00:00 2001
From: Cyril Danilevski <cydanil@gmail.com>
Date: Thu, 12 Aug 2021 21:33:28 +0200
Subject: [PATCH] Remove driver=core from LPD notebooks
---
notebooks/LPD/Characterize_LPD_GAIN_CI_per_pixel_NBC.ipynb | 4 ++--
notebooks/LPD/LPD_Correct_and_Verify.ipynb | 2 +-
notebooks/LPD/LPD_FlatField_Radial_per_pixel_CI_NBC.ipynb | 2 +-
notebooks/LPD/playground/Characterize_LPD_GAIN_CI.ipynb | 4 ++--
notebooks/LPD/playground/LPDChar_Darks.ipynb | 2 +-
notebooks/LPD/playground/LPD_Batch_Cal.ipynb | 4 ++--
notebooks/LPD/playground/LPD_FlatField_Radial.ipynb | 4 ++--
7 files changed, 11 insertions(+), 11 deletions(-)
diff --git a/notebooks/LPD/Characterize_LPD_GAIN_CI_per_pixel_NBC.ipynb b/notebooks/LPD/Characterize_LPD_GAIN_CI_per_pixel_NBC.ipynb
index e52ca2afa..0cdc02eb4 100644
--- a/notebooks/LPD/Characterize_LPD_GAIN_CI_per_pixel_NBC.ipynb
+++ b/notebooks/LPD/Characterize_LPD_GAIN_CI_per_pixel_NBC.ipynb
@@ -342,7 +342,7 @@
" def read_fun(filename, channel):\n",
" \"\"\" A reader function used by pyDetLib\n",
" \"\"\"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" imarr = infile[\"/data\".format(channel)]\n",
" im = np.array(imarr)\n",
" infile.close()\n",
@@ -1515,7 +1515,7 @@
" def read_fun(filename, channel):\n",
" \"\"\" A reader function used by pyDetLib\n",
" \"\"\"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" imarr = infile[\"/data\".format(channel)]\n",
" im = np.array(imarr)\n",
" infile.close()\n",
diff --git a/notebooks/LPD/LPD_Correct_and_Verify.ipynb b/notebooks/LPD/LPD_Correct_and_Verify.ipynb
index 4c2fafc52..c4ec0d78d 100644
--- a/notebooks/LPD/LPD_Correct_and_Verify.ipynb
+++ b/notebooks/LPD/LPD_Correct_and_Verify.ipynb
@@ -269,7 +269,7 @@
" reason = \"\"\n",
" filename, filename_out, channel, karabo_da, qm = inp\n",
"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" outfile = h5py.File(filename_out, \"w\")\n",
" \n",
" # LPD correction requires path without the leading \"/\"\"\n",
diff --git a/notebooks/LPD/LPD_FlatField_Radial_per_pixel_CI_NBC.ipynb b/notebooks/LPD/LPD_FlatField_Radial_per_pixel_CI_NBC.ipynb
index 33522e672..4075ffbfa 100644
--- a/notebooks/LPD/LPD_FlatField_Radial_per_pixel_CI_NBC.ipynb
+++ b/notebooks/LPD/LPD_FlatField_Radial_per_pixel_CI_NBC.ipynb
@@ -244,7 +244,7 @@
" \n",
" if rf is not None:\n",
" \n",
- " infile = h5py.File(rf, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(rf, \"r\")\n",
" raw.append(np.array(infile[\"/INSTRUMENT/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/data\".format(i)][:max_images,0,...]))\n",
" infile.close()\n",
"\n",
diff --git a/notebooks/LPD/playground/Characterize_LPD_GAIN_CI.ipynb b/notebooks/LPD/playground/Characterize_LPD_GAIN_CI.ipynb
index 523b9f9d1..1e04f5f37 100644
--- a/notebooks/LPD/playground/Characterize_LPD_GAIN_CI.ipynb
+++ b/notebooks/LPD/playground/Characterize_LPD_GAIN_CI.ipynb
@@ -340,7 +340,7 @@
" def read_fun(filename, channel):\n",
" \"\"\" A reader function used by pyDetLib\n",
" \"\"\"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" imarr = infile[\"/data\".format(channel)]\n",
" im = np.array(imarr)\n",
" infile.close()\n",
@@ -1049,7 +1049,7 @@
" def read_fun(filename, channel):\n",
" \"\"\" A reader function used by pyDetLib\n",
" \"\"\"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" imarr = infile[\"/data\".format(channel)]\n",
" im = np.array(imarr)\n",
" infile.close()\n",
diff --git a/notebooks/LPD/playground/LPDChar_Darks.ipynb b/notebooks/LPD/playground/LPDChar_Darks.ipynb
index 73b4eb0fd..919fa13cb 100644
--- a/notebooks/LPD/playground/LPDChar_Darks.ipynb
+++ b/notebooks/LPD/playground/LPDChar_Darks.ipynb
@@ -331,7 +331,7 @@
" filename, filename_out, channel = inp\n",
" thresholds_offset_hard, thresholds_offset_sigma, thresholds_noise_hard, thresholds_noise_sigma = bp_thresh \n",
"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" im = np.array(infile[\"/INSTRUMENT/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/data\".format(channel)][skip_first_ntrains*cells:,...])\n",
" cellid = np.squeeze(np.array(infile[\"/INSTRUMENT/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/cellId\".format(channel)][skip_first_ntrains*cells:,...]))\n",
" infile.close()\n",
diff --git a/notebooks/LPD/playground/LPD_Batch_Cal.ipynb b/notebooks/LPD/playground/LPD_Batch_Cal.ipynb
index 1782700e6..7d83accb6 100644
--- a/notebooks/LPD/playground/LPD_Batch_Cal.ipynb
+++ b/notebooks/LPD/playground/LPD_Batch_Cal.ipynb
@@ -245,7 +245,7 @@
" \n",
" filename, filename_out, channel, offset, rel_gain, mask, flatfield = inp\n",
"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" im = np.array(infile[\"/INSTRUMENT/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/data\".format(channel)][:10*cells, ...])\n",
" cells = np.squeeze(np.array(infile[\"/INSTRUMENT/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/cellId\".format(channel)][:10*cells, ...]))\n",
"\n",
@@ -253,7 +253,7 @@
" dont_copy = [\"INSTRUMENT/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/{}\".format(channel, do)\n",
" for do in dont_copy]\n",
"\n",
- " outfile = h5py.File(filename_out, \"w\", driver=\"core\")\n",
+ " outfile = h5py.File(filename_out, \"w\")\n",
" def visitor(k, item):\n",
" if k not in dont_copy:\n",
" if isinstance(item, h5py.Group):\n",
diff --git a/notebooks/LPD/playground/LPD_FlatField_Radial.ipynb b/notebooks/LPD/playground/LPD_FlatField_Radial.ipynb
index 732ce8cd9..6689f001f 100644
--- a/notebooks/LPD/playground/LPD_FlatField_Radial.ipynb
+++ b/notebooks/LPD/playground/LPD_FlatField_Radial.ipynb
@@ -299,7 +299,7 @@
" \n",
" filename, filename_out, channel, offset, rel_gain, mask = inp\n",
"\n",
- " infile = h5py.File(filename, \"r\", driver=\"core\")\n",
+ " infile = h5py.File(filename, \"r\")\n",
" count = np.squeeze(infile[\"/INDEX/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/count\".format(channel)])\n",
" first = np.squeeze(infile[\"/INDEX/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/first\".format(channel)])\n",
" last_index = int(first[count != 0][-1]+count[count != 0][-1])\n",
@@ -313,7 +313,7 @@
" dont_copy = [\"INSTRUMENT/FXE_DET_LPD1M-1/DET/{}CH0:xtdf/image/{}\".format(channel, do)\n",
" for do in dont_copy]\n",
"\n",
- " outfile = h5py.File(filename_out, \"w\", driver=\"core\")\n",
+ " outfile = h5py.File(filename_out, \"w\")\n",
" def visitor(k, item):\n",
" if k not in dont_copy:\n",
" if isinstance(item, h5py.Group):\n",
--
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