Closed annshress closed 1 year ago
@philipmac There are some unmaintained Docker files in the "em_workflows/utils" directory. Should this go there as well or is a refactor needed?
The bioformats2raw via docker runs without errors on my M1 Mac, but I have no way to test the validity of the Zarr output.
Using WGET makes this Dockerfile more self-contained, but will require a longer start-up time. Is there a way to just run bioformats2raw
once the container has been created?
And should it use ubuntu
or rocky
?
@mbopfNIH
COPY or WGET will only affect the docker image building time. wget
replaces the manual hassle of downloading the binary.
Once the image is built, container will have bioformats2raw
binary available.
Eventually, the base image should be changed to rocky
to somewhat replicate the remote server.
Closing this PR, as docker
branch (https://github.com/niaid/image_portal_workflows/pull/284) has been merged which contains this commit.
Add Dockerfile for bioformats2raw
Next: Setup an environment with
imod
binaries.