movedimg readers moved to io

bmandracchia · Aug 26, 2024 · 03320d8 · 03320d8
1 parent f3aeb21
commit 03320d8
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Showing 12 changed files with 955 additions and 957 deletions.
diff --git a/bioMONAI/_modidx.py b/bioMONAI/_modidx.py
@@ -5,7 +5,8 @@
                 'doc_host': 'https://bmandracchia.github.io',
                 'git_url': 'https://github.com/bmandracchia/bioMONAI',
                 'lib_path': 'bioMONAI'},
-  'syms': { 'bioMONAI.core': { 'bioMONAI.core._fig_bounds': ('core.html#_fig_bounds', 'bioMONAI/core.py'),
+  'syms': { 'bioMONAI.callbacks': {'bioMONAI.callbacks.foo': ('callbacks.html#foo', 'bioMONAI/callbacks.py')},
+            'bioMONAI.core': { 'bioMONAI.core._fig_bounds': ('core.html#_fig_bounds', 'bioMONAI/core.py'),
                                'bioMONAI.core.attributesFromDict': ('core.html#attributesfromdict', 'bioMONAI/core.py'),
                                'bioMONAI.core.get_gt': ('core.html#get_gt', 'bioMONAI/core.py'),
                                'bioMONAI.core.get_noisy_pair': ('core.html#get_noisy_pair', 'bioMONAI/core.py'),
@@ -38,19 +39,18 @@
                                'bioMONAI.data.Tensor2BioImage': ('data.html#tensor2bioimage', 'bioMONAI/data.py'),
                                'bioMONAI.data.Tensor2BioImage.__init__': ('data.html#tensor2bioimage.__init__', 'bioMONAI/data.py'),
                                'bioMONAI.data.Tensor2BioImage.encodes': ('data.html#tensor2bioimage.encodes', 'bioMONAI/data.py'),
-                               'bioMONAI.data._image_reader': ('data.html#_image_reader', 'bioMONAI/data.py'),
-                               'bioMONAI.data._load_and_preprocess': ('data.html#_load_and_preprocess', 'bioMONAI/data.py'),
-                               'bioMONAI.data._multi_channel': ('data.html#_multi_channel', 'bioMONAI/data.py'),
-                               'bioMONAI.data._preprocess': ('data.html#_preprocess', 'bioMONAI/data.py'),
-                               'bioMONAI.data.czi_reader': ('data.html#czi_reader', 'bioMONAI/data.py'),
-                               'bioMONAI.data.h5_reader': ('data.html#h5_reader', 'bioMONAI/data.py'),
-                               'bioMONAI.data.img_reader': ('data.html#img_reader', 'bioMONAI/data.py'),
-                               'bioMONAI.data.lif_reader': ('data.html#lif_reader', 'bioMONAI/data.py'),
                                'bioMONAI.data.show_batch': ('data.html#show_batch', 'bioMONAI/data.py'),
-                               'bioMONAI.data.show_results': ('data.html#show_results', 'bioMONAI/data.py'),
-                               'bioMONAI.data.tiff_reader': ('data.html#tiff_reader', 'bioMONAI/data.py')},
+                               'bioMONAI.data.show_results': ('data.html#show_results', 'bioMONAI/data.py')},
             'bioMONAI.datasets': {'bioMONAI.datasets.aics_pipeline': ('datasets.html#aics_pipeline', 'bioMONAI/datasets.py')},
-            'bioMONAI.io': {'bioMONAI.io.foo': ('io.html#foo', 'bioMONAI/io.py')},
+            'bioMONAI.io': { 'bioMONAI.io._image_reader': ('io.html#_image_reader', 'bioMONAI/io.py'),
+                             'bioMONAI.io._load_and_preprocess': ('io.html#_load_and_preprocess', 'bioMONAI/io.py'),
+                             'bioMONAI.io._multi_channel': ('io.html#_multi_channel', 'bioMONAI/io.py'),
+                             'bioMONAI.io._preprocess': ('io.html#_preprocess', 'bioMONAI/io.py'),
+                             'bioMONAI.io.czi_reader': ('io.html#czi_reader', 'bioMONAI/io.py'),
+                             'bioMONAI.io.h5_reader': ('io.html#h5_reader', 'bioMONAI/io.py'),
+                             'bioMONAI.io.img_reader': ('io.html#img_reader', 'bioMONAI/io.py'),
+                             'bioMONAI.io.lif_reader': ('io.html#lif_reader', 'bioMONAI/io.py'),
+                             'bioMONAI.io.tiff_reader': ('io.html#tiff_reader', 'bioMONAI/io.py')},
             'bioMONAI.losses': { 'bioMONAI.losses.CombinedLoss': ('losses.html#combinedloss', 'bioMONAI/losses.py'),
                                  'bioMONAI.losses.CombinedLoss.__call__': ('losses.html#combinedloss.__call__', 'bioMONAI/losses.py'),
                                  'bioMONAI.losses.CombinedLoss.__init__': ('losses.html#combinedloss.__init__', 'bioMONAI/losses.py'),
@@ -66,6 +66,7 @@
                                  'bioMONAI.losses.radial_mask': ('losses.html#radial_mask', 'bioMONAI/losses.py'),
                                  'bioMONAI.losses.seventh_fourier_ring_correlation': ( 'losses.html#seventh_fourier_ring_correlation',
                                                                                        'bioMONAI/losses.py')},
+            'bioMONAI.metrics': {'bioMONAI.metrics.foo': ('metrics.html#foo', 'bioMONAI/metrics.py')},
             'bioMONAI.nets': { 'bioMONAI.nets.DnCNN': ('nets.html#dncnn', 'bioMONAI/nets.py'),
                                'bioMONAI.nets.DnCNN.__init__': ('nets.html#dncnn.__init__', 'bioMONAI/nets.py'),
                                'bioMONAI.nets.DnCNN.forward': ('nets.html#dncnn.forward', 'bioMONAI/nets.py'),
@@ -112,4 +113,5 @@
                                      'bioMONAI.transforms.RandRot90.encodes': ( 'transforms.html#randrot90.encodes',
                                                                                 'bioMONAI/transforms.py'),
                                      'bioMONAI.transforms._get_sz': ('transforms.html#_get_sz', 'bioMONAI/transforms.py'),
-                                     'bioMONAI.transforms._process_sz': ('transforms.html#_process_sz', 'bioMONAI/transforms.py')}}}
+                                     'bioMONAI.transforms._process_sz': ('transforms.html#_process_sz', 'bioMONAI/transforms.py')},
+            'bioMONAI.visualize': {'bioMONAI.visualize.foo': ('visualize.html#foo', 'bioMONAI/visualize.py')}}}
diff --git a/bioMONAI/callbacks.py b/bioMONAI/callbacks.py
@@ -0,0 +1,7 @@
+# AUTOGENERATED! DO NOT EDIT! File to edit: ../nbs/07_callbacks.ipynb.
+
+# %% auto 0
+__all__ = ['foo']
+
+# %% ../nbs/07_callbacks.ipynb 3
+def foo(): pass