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hammerlab / cytokit

Microscopy Image Cytometry Toolkit
Apache License 2.0
115 stars 18 forks source link

Fail to download data #34

Open sunaifei opened 3 years ago

sunaifei commented 3 years ago

Hi, thank you for sharing this useful tool, i'm running the example script and got stuck at downloading raw data. error

eric-czech commented 3 years ago

The files are there so I don't know how you would have gotten that error unless you tried to visit https://storage.googleapis.com/cytokit/datasets in a browser. Is that what you did?

r0f1 commented 3 years ago

Running the following command, I see the following folders. 

:~$ gsutil ls gs://cytokit/datasets/
   gs://cytokit/datasets/cellpaint/
   gs://cytokit/datasets/cellsize/
   gs://cytokit/datasets/cellular-marker/
   gs://cytokit/datasets/dna-stain/
   gs://cytokit/datasets/psf-beads/
   gs://cytokit/datasets/spheroids/

However, I cannot for example find the 201801-codex-lung or 20180101_codex_spleen from the Readme files. Are they in some subfolders, or are they not generally available?

eric-czech commented 3 years ago

I hadn't copied those to GS unfortunately because they were publicly available at https://welikesharingdata.blob.core.windows.net/forshare/index.html. It looks like that's no longer the case.

r0f1 commented 3 years ago

Thanks for your quick response. I will try to get it to run with another dataset then.