Download IDR data using a containerized aspera client.

Download.

docker run -ti --rm \
-v $(pwd):/home/aspera \
aspera-client-docker \
DATASET DATASET_FILE_PATH .

Edit out DATASET and DATASET_FILEPATH (more on that below). FYI it will download to your current directory.

Build.

docker build -t aspera-client-docker .

Below demonstrates how to do a partial download of the idr0040 dataset.

Find your dataset.

https://idr.openmicroscopy.org/webclient

Get the file path.

On the General tab on right pane, select the file path icon with the tooltip "Show file path on server". You'll have to select the dir or file for the pane to show up, as of the current state of the website. The path it gives is uod/idr/filesets/idr0040-aymoz-singlecell/20180215/3105/Pos0/.

In this case, dataset is idr0040 and the filepath is 20180215/3105/Pos0/

Download

docker run -ti --rm \
-v $(pwd):/home/aspera \
aspera-client-docker \
idr0040 20180215/3105/Pos0/ .

According to the website (https://github.com/IDR/idr-metadata), you can get the filepaths from the tsv files. However, for idr0010, the filepaths aren't shown in the tsv. Therefore, try the above workflow

Here we do a partial download of idr0010, the 1-23 series. Use the above example as a guide and see how the command applies below.

docker run -ti --rm \
-v $(pwd):/home/aspera \
aspera-client-docker \
idr0010 20150501-original/Restored\ GW\ screen/1-23 .

https://github.com/IDR/aspera-client-docker

Dockerfile works of /home/aspera instead of /tmp. Otherwise, you can't mount /tmp to your host dir.