Change all names to ai4ia and rename utils to tools

README.md

@@ -4,7 +4,7 @@ Training and inference scripts for deep learning tools for cell segmentation in
 
 Available tools:
 - [stardist](https://github.com/mpicbg-csbd/stardist): stardist for convex object segmentation
-- utils: functionality for visualisation and job submission on compute clusters
+- tools: functionality for visualisation and job submission on compute clusters
 
 
 ## Data Layout

stardist/README.md

@@ -44,7 +44,7 @@ CUDA_VISIBLE_DEVICES=0 predict_stardist_2d /path/to/data /path/to/model
 The `CUDA_VISIBLE_DEVICES=0` part determines which gpu is used. If you have a machine with multiple GPUs and don't want to
 use the first one, you need to change the `0` to the id of the GPU you want to use.
 
-In order to run these scripts on the embl via slurm, you can use the `submit_slurm` script from `deep_cell.utils`, e.g.
+In order to run these scripts on the embl via slurm, you can use the `submit_slurm` script from `deep_cell.tools`, e.g.
 ```
 submit_slurm train_stardist_2d /path/to/data /path/to/model
 ```

stardist/setup.py

 from setuptools import setup, find_packages
 
 setup(
-    name="deep_cell.stardist",
+    name="ai4ia.stardist",
     packages=find_packages(),
     version="0.0.1",
-    author="Constantin Pape",
-    url="https://github.com/constantinpape/deep-cell",
+    author="Constantin Pape, Christian Tischer",
+    url="https://git.embl.de/grp-bio-it/ai4ia.git",
     license='MIT',
     entry_points={
         "console_scripts": [

utils/setup.py → tools/setup.py

 from setuptools import setup, find_packages
 
 setup(
-    name="deep_cell.embl_tools",
+    name="ai4ia.tools",
     packages=find_packages(),
     version="0.0.1",
-    author="Constantin Pape",
-    url="https://github.com/constantinpape/deep-cell",
+    author="Constantin Pape, Christian Tischer",
+    url="https://git.embl.de/grp-bio-it/ai4ia.git",
     license='MIT',
     entry_points={
         "console_scripts": [
-            "view_data = utils_impl.view_data:main",
-            "submit_slurm = utils_impl.submit_to_slurm:main"
+            "view_data = tools_impl.view_data:main",
+            "submit_slurm = tools_impl.submit_to_slurm:main"
         ]
     },
 )