Merge pull request #221 from kabilar/docker-publish

Fix GitHub Actions `paths` filter

Author: kabilar

.github/workflows/docker-push.yaml

@@ -5,7 +5,7 @@ on:
     branches:
       - main
     paths:
-      - 'Dockerfile*'
+      - 'images/Dockerfile*'
   workflow_dispatch:
 
 jobs:

.github/workflows/docker-test.yaml

@@ -3,7 +3,7 @@ name: Build Docker Images
 on:
   pull_request:
     paths:
-      - 'Dockerfile*'
+      - 'images/Dockerfile*'
   workflow_dispatch:
 
 jobs:

images/Dockerfile

@@ -53,7 +53,7 @@ RUN mamba install --yes 'datalad>=0.18' rclone 'h5py>3.3=mpi*' ipykernel zarr bl
 
 RUN pip install --no-cache-dir -U plotly jupyter_bokeh jupytext nbgitpuller datalad_container \
     datalad-osf dandi nibabel nilearn pybids spikeinterface neo itkwidgets \
-    'pydra>=0.17' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
+    'pydra>=0.25' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
     aicsimageio kerchunk 'neuroglancer>=2.28' cloud-volume ipywidgets ome-zarr \
     webio_jupyter_extension https://github.com/balbasty/dandi-io/archive/refs/heads/main.zip \
     tensorstore anndata

images/Dockerfile.allensdk

@@ -61,7 +61,7 @@ RUN /opt/conda/envs/allen/bin/python -m ipykernel install --user --name allen \
 
 RUN pip install --no-cache-dir -U plotly jupyter_bokeh jupytext nbgitpuller datalad_container \
     datalad-osf dandi pybids spikeinterface neo itkwidgets \
-    'pydra>=0.17' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
+    'pydra>=0.25' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
     aicsimageio kerchunk cloud-volume ipywidgets ome-zarr \
     webio_jupyter_extension https://github.com/balbasty/dandi-io/archive/refs/heads/main.zip \
     tensorstore anndata

images/Dockerfile.gpu

@@ -53,7 +53,7 @@ RUN mamba install --yes datalad rclone 'h5py>3.3=mpi*' ipykernel zarr blosc ecco
 
 RUN pip install --no-cache-dir -U plotly jupyter_bokeh jupytext nbgitpuller datalad_container \
     datalad-osf dandi nibabel nilearn pybids spikeinterface neo itkwidgets \
-    'pydra>=0.17' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
+    'pydra>=0.25' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
     aicsimageio kerchunk 'neuroglancer>=2.28' cloud-volume ipywidgets ome-zarr \
     webio_jupyter_extension https://github.com/balbasty/dandi-io/archive/refs/heads/main.zip \
     tensorstore anndata && rm -rf /tmp/*

images/Dockerfile.gpu.allensdk

@@ -61,7 +61,7 @@ RUN /opt/conda/envs/allen/bin/python -m ipykernel install --user --name allen \
 
 RUN pip install --no-cache-dir -U plotly jupyter_bokeh jupytext nbgitpuller datalad_container \
     datalad-osf dandi pybids spikeinterface neo itkwidgets \
-    'pydra>=0.17' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
+    'pydra>=0.25' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
     aicsimageio kerchunk cloud-volume ipywidgets ome-zarr \
     webio_jupyter_extension https://github.com/balbasty/dandi-io/archive/refs/heads/main.zip \
     tensorstore anndata && rm -rf /tmp/*

images/Dockerfile.gpu.matlab

@@ -74,7 +74,7 @@ RUN mamba install --yes datalad rclone 'h5py>3.3=mpi*' ipykernel zarr blosc gcc
 
 RUN pip install --no-cache-dir plotly jupyter_bokeh jupytext nbgitpuller datalad_container \
     datalad-osf dandi nibabel nilearn pybids spikeinterface neo \
-    'pydra>=0.17' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
+    'pydra>=0.25' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
     aicsimageio kerchunk 'neuroglancer>=2.28' cloud-volume ipywidgets ome-zarr \
     webio_jupyter_extension https://github.com/balbasty/dandi-io/archive/refs/heads/main.zip \
     tensorstore anndata "tensorflow[and-cuda]==2.14"

images/Dockerfile.matlab

@@ -64,7 +64,7 @@ RUN mamba install --yes datalad rclone 'h5py>3.3=mpi*' ipykernel zarr blosc gcc
 
 RUN pip install --no-cache-dir plotly jupyter_bokeh jupytext nbgitpuller datalad_container \
     datalad-osf dandi nibabel nilearn pybids spikeinterface neo \
-    'pydra>=0.17' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
+    'pydra>=0.25' 'pynwb>=2.8.3' 'nwbwidgets>=0.10.2' hdf5plugin s3fs h5netcdf "xarray[io]"  \
     aicsimageio kerchunk 'neuroglancer>=2.28' cloud-volume ipywidgets ome-zarr \
     webio_jupyter_extension https://github.com/balbasty/dandi-io/archive/refs/heads/main.zip \
     tensorstore anndata tensorflow