Adding new/updated DL4MicEverywhere_u-net-2d-zerocostdl4mic_2.2.1

HenriquesLab · Oct 15, 2024 · d207bac · d207bac
1 parent b678f96
commit d207bac
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Showing 4 changed files with 8 additions and 10 deletions.
diff --git a/album_catalog_index.db b/album_catalog_index.db
diff --git a/solutions/DL4MicEverywhere/u-net-2d-zerocostdl4mic/CHANGELOG.md b/solutions/DL4MicEverywhere/u-net-2d-zerocostdl4mic/CHANGELOG.md
@@ -5,4 +5,4 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
 ## [2.2.1] - 2024-10-15
-/Users/ihidalgo/Documents/git/DL4MicEverywhere-album/CHANGELOG.md
+../CHANGELOG.md
diff --git a/solutions/DL4MicEverywhere/u-net-2d-zerocostdl4mic/solution.py b/solutions/DL4MicEverywhere/u-net-2d-zerocostdl4mic/solution.py
@@ -22,9 +22,9 @@ def install():
 
     # Clone the DL4MicEverywhere repository
     clone_url = "https://github.com/HenriquesLab/DL4MicEverywhere"
-    repository_path = get_app_path().joinpath("DL4MicEverywhere")
-    Repo.clone_from(clone_url, repository_path)
-    assert (repository_path.exists())
+    repo_path = get_app_path().joinpath("DL4MicEverywhere")
+    Repo.clone_from(clone_url, repo_path)
+    assert (repo_path.exists())
 
     # URL of the notebook you want to download
     notebook_url = "https://raw.githubusercontent.com/HenriquesLab/ZeroCostDL4Mic/master/Colab_notebooks/U-Net_2D_ZeroCostDL4Mic.ipynb"
@@ -47,15 +47,15 @@ def install():
     python_command = ["python", ".tools/notebook_autoconversion/transform.py", "-p", f"{get_app_path()}", "-n", "U-Net_2D_ZeroCostDL4Mic.ipynb", "-s"]
     python_command += section_to_remove
 
-    subprocess.run(python_command, cwd=repository_path)
+    subprocess.run(python_command, cwd=to)
     subprocess.run(["mv", get_app_path().joinpath("colabless_U-Net_2D_ZeroCostDL4Mic.ipynb"), get_app_path().joinpath("U-Net_2D_ZeroCostDL4Mic.ipynb")])
 
     # Remove the cloned DL4MicEverywhere repository
     if os.name == 'nt':
         os.system(f'rmdir /s /q "{to}"')
     else:
         # rmtree has no permission to do this on Windows
-        shutil.rmtree(repository_path) 
+        shutil.rmtree(to) 
 
 def run():
     from album.runner.api import get_args, get_app_path
@@ -141,8 +141,6 @@ def run():
     - tqdm==4.65.0
     - wget==3.2
     - zarr==2.15.0
-    - nbformat==5.9.2
-    - jupyterlab==3.4.0
 """
 
 setup(

diff --git a/solutions/DL4MicEverywhere/u-net-2d-zerocostdl4mic/solution.yml b/solutions/DL4MicEverywhere/u-net-2d-zerocostdl4mic/solution.yml
@@ -4,7 +4,7 @@ args:
   description: What is your working path?
   name: path
   type: string
-changelog: /Users/ihidalgo/Documents/git/DL4MicEverywhere-album/CHANGELOG.md
+changelog: ../CHANGELOG.md
 cite:
 - doi: https://doi.org/10.1038/s41467-021-22518-0
   text: von Chamier, L., Laine, R.F., Jukkala, J. et al. Democratising deep learning
@@ -34,6 +34,6 @@ tags:
 - ZeroCostDL4Mic
 - 2D
 - dl4miceverywhere
-timestamp: '2024-10-15T17:08:50.166829'
+timestamp: '2024-10-15T17:50:48.373671'
 title: u-net-2d-zerocostdl4mic implementation.
 version: 2.2.1