testing docker build

JoshuaHess12 · Apr 17, 2021 · ce24a84 · ce24a84
1 parent 28387be
commit ce24a84
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Showing 6 changed files with 9 additions and 453 deletions.
diff --git a/Dockerfile b/Dockerfile
@@ -1,5 +1,5 @@
 FROM python:3.7
 
-RUN pip install pathlib os h5py scikit-image numpy pandas random pyimzml nibabel scipy operator
+RUN pip install pathlib os h5py scikit-image numpy pandas random pyimzml nibabel scipy operator umap-learn uncertainties seaborn matplotlib ast scikit-learn
 
 COPY . /app/
diff --git a/HDIprep.yml b/HDIprep.yml
@@ -11,3 +11,9 @@ dependencies:
   - nibabel
   - scipy
   - operator
+  - umap-learn
+  - uncertainties
+  - seaborn
+  - matplotlib
+  - ast
+  - scikit-learn
diff --git a/HDIprep/intramodality_dataset.py → HDIprep/hdi_prep.py b/HDIprep/intramodality_dataset.py → HDIprep/hdi_prep.py
diff --git a/HDIprep/yaml_hdi_prep.py b/HDIprep/yaml_hdi_prep.py
@@ -7,7 +7,7 @@
 from pathlib import Path
 
 # Import custom modules
-import intramodality_dataset
+import hdi_prep
 
 
 # Define parsing function
@@ -100,7 +100,7 @@ def RunHDIprepYAML(path_to_yaml, out_dir):
                 # yml["ProcessingSteps"][s] = {"RunUMAP": umap_args}
 
     # Use the import options in the yml object to import all datasets
-    intramod_set = intramodality_dataset.CreateDataset(**yml["ImportOptions"])
+    intramod_set = hdi_prep.CreateDataset(**yml["ImportOptions"])
 
     # Iterate through each step
     for s in range(len(yml["ProcessingSteps"])):

diff --git a/Pipfile b/Pipfile