biomedisa 24.8.7__py3-none-any.whl → 24.8.8__py3-none-any.whl

biomedisa/deeplearning.py

@@ -369,7 +369,7 @@ if __name__ == '__main__':
     parser.add_argument('path_to_images', type=str, metavar='PATH_TO_IMAGES',
                         help='Location of image data (tarball, directory, or file)')
     parser.add_argument('path', type=str, metavar='PATH',
-                        help='Location of label data during training (tarball, directory, or file) or model for prediction (h5)')
+                        help='Location of label data for training (tarball, directory, or file) or model for prediction (.h5)')
 
     # optional arguments
     g.add_argument('-p','--predict', action='store_true', default=False,
@@ -498,6 +498,8 @@ if __name__ == '__main__':
                         help='Refine segmentation on full size data')
     parser.add_argument('-ext','--extension', type=str, default=None,
                         help='Save data in formats like NRRD or TIFF using --extension=".nrrd"')
+    parser.add_argument('-ptm','--path_to_model', type=str, metavar='PATH', default=None,
+                        help='Specify the model location for training')
     bm = parser.parse_args()
     bm.success = True
 
@@ -513,7 +515,8 @@ if __name__ == '__main__':
         bm.path_to_model = bm.path
     if bm.train:
         bm.path_to_labels = bm.path
-        bm.path_to_model = bm.path_to_images + '.h5'
+        if bm.path_to_model is None:
+            bm.path_to_model = bm.path_to_images + '.h5'
 
     # django environment
     if bm.img_id is not None:

{biomedisa-24.8.7.dist-info → biomedisa-24.8.8.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: biomedisa
-Version: 24.8.7
+Version: 24.8.8
 Summary: Segmentation of 3D volumetric image data
 Author: Philipp Lösel
 Author-email: philipp.loesel@anu.edu.au

{biomedisa-24.8.7.dist-info → biomedisa-24.8.8.dist-info}/RECORD

@@ -1,6 +1,6 @@
 biomedisa/__init__.py,sha256=hw4mzEjGFXm-vxus2DBfKFW0nKoG0ibL5SH6ShfchrY,1526
 biomedisa/__main__.py,sha256=a1--8vhtztWEloHVtbM43FZLCfrFo4BELgdsgtWE8ls,536
-biomedisa/deeplearning.py,sha256=r4YzFUss_2u6I7clIg9QD4DDx7bq8AFUnUgU1TCwS1c,28273
+biomedisa/deeplearning.py,sha256=chN5uLHvmIl6gdqNYKSyq-3CNZt5n2o6drFtkeNChpg,28474
 biomedisa/interpolation.py,sha256=i10aqwEl-wsVU_nQ-zyubhAs27NSKF4ial7LyhaBLv0,17273
 biomedisa/mesh.py,sha256=8-iuVsrfW5JovaMrAez7qSxv1LCU3eiqOdik0s0DV1w,16062
 biomedisa/features/DataGenerator.py,sha256=m7vsKkLhRsVF1BE3Y8YGVx-xx0DWjbBw_inIdZBq6pQ,13111
@@ -37,8 +37,8 @@ biomedisa/features/random_walk/pyopencl_large.py,sha256=q79AxG3p3qFjxfiAZfUK9I5B
 biomedisa/features/random_walk/pyopencl_small.py,sha256=opNlS-qzOa9qWafBNJdvf6r1aRAFf7_JXf6ISDnkdXE,17068
 biomedisa/features/random_walk/rw_large.py,sha256=ZnITvk00Y11ZZlGuBRaJO1EwU0wYBdEwdpj9vvXCqF4,19805
 biomedisa/features/random_walk/rw_small.py,sha256=RPzZe24YrEwYelJukDjvqaoD_SyhgdriEi7uV3kZGXI,14881
-biomedisa-24.8.7.dist-info/LICENSE,sha256=sehayP6UhydNnmstfL4yFR3genMRdpuUh6uZVWJN1H0,14152
-biomedisa-24.8.7.dist-info/METADATA,sha256=7qJuRtt6SHy4MnZDyn-lqgSPXIjjSTrFZYRbXMbW5Mc,10708
-biomedisa-24.8.7.dist-info/WHEEL,sha256=In9FTNxeP60KnTkGw7wk6mJPYd_dQSjEZmXdBdMCI-8,91
-biomedisa-24.8.7.dist-info/top_level.txt,sha256=opsf1Eb4vCguPSxev4HHSeiUKCccT_C_RcUCdAYbHWQ,10
-biomedisa-24.8.7.dist-info/RECORD,,
+biomedisa-24.8.8.dist-info/LICENSE,sha256=sehayP6UhydNnmstfL4yFR3genMRdpuUh6uZVWJN1H0,14152
+biomedisa-24.8.8.dist-info/METADATA,sha256=kOfWrd_HbkEy_Ppoa-AXJkxDhG-K-v8EGIFGnMsY6LU,10708
+biomedisa-24.8.8.dist-info/WHEEL,sha256=In9FTNxeP60KnTkGw7wk6mJPYd_dQSjEZmXdBdMCI-8,91
+biomedisa-24.8.8.dist-info/top_level.txt,sha256=opsf1Eb4vCguPSxev4HHSeiUKCccT_C_RcUCdAYbHWQ,10
+biomedisa-24.8.8.dist-info/RECORD,,