Running heatmapper locally with docker

WishartLab / heatmapper

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Running heatmapper locally with docker #98

Open agostini01 opened 4 years ago

agostini01 commented 4 years ago

A friend of mine asked if I could enable running heatmapper web server locally.

I put together a Dockerfile and instructions that can be used to make this possible.

Not sure if you have interest in merging it, but this information may be useful for someone else, thus I am creating this issue.

agostini01 commented 4 years ago

Dockerfile: https://github.com/agostini01/heatmapper/blob/master/Dockerfile

Instructions: https://github.com/agostini01/heatmapper/blob/master/docker-instructions.md

Known issues:

xlsx support is currently disabled
In Expression "Upload File" does not work, but you can upload a single file using the "Upload Multiple Files" option
The web server will run as root, be careful
In Image Overlay, "Upload Grid" does not work. No workaround found.

alesresearch commented 4 years ago

Just tried on Ubuntu 20.04. The installation goes smoothly. Unfortunately in "Image Overlay" it is not possible to import any type of txt or csv file.

agostini01 commented 4 years ago

@alesresearch yeah.. Just tried and only the image appears to upload. This is a similar error to the "upload a single file" on "Expression". So it may have to do with this Upload mechanism in general. Funny enough, the Upload Image seem to work...

I dont know much about R and know nothing on serving R websites. I can help if you notice that a library is missing and I can adjust the docker script to install it, but I will let someone else tackle this upload isse.

Best, Nico

alesresearch commented 4 years ago

@agostini01 , I will try to inspect the container and keep an eye on the logs for any errors. If I have any news, I'll bring it back here.

Best, Paolo