Merge pull request #16 from jmuhlich/add-bioformats

Add bioformats support for file loading

.github/workflows/docker-publish.yml

@@ -37,9 +37,9 @@ jobs:
       # Install the cosign tool except on PR
       # https://github.com/sigstore/cosign-installer
       - name: Install Cosign
-        uses: sigstore/cosign-installer@v3.1.1
+        uses: sigstore/cosign-installer@v3.3.0
         with:
-          cosign-release: 'v2.2.1'
+          cosign-release: 'v2.2.2'
 
       # Workaround: https://github.com/docker/build-push-action/issues/461
       - name: Setup Docker buildx

Dockerfile

@@ -12,7 +12,7 @@ ENV PATH=/opt/conda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:
 # Installing necessary packages
 
 # Installing basicpy and other pip packages
-RUN pip --no-cache-dir install git+https://github.com/peng-lab/BaSiCpy@dev
+RUN pip --no-cache-dir install git+https://github.com/peng-lab/BaSiCpy@dev bioformats_jar
 
 # Copy script and test run
 COPY ./main.py /opt/