To encapsulate the remote-fuser application in a docker container so that it can provide a FUSE containing BLAST databases to other containers.

remote-fuser is a command line application from the NCBI SRA toolkit which facilitates setting up FUSE on the local host. The BLAST database files reside in the gs://blast-db GCS bucket.

N.B.: these instructions assume Ubuntu Linux

• make run creates and runs a docker container with remote-fuser configured to get BLAST databases from GCS, however, these cannot be seen outside the container
• make check runs a few commands to demonstrate that.
• make run_shared same as make run but it sets the bind-propagation to the value of the BP environment variable (shared by default).
• make stop stops and removes the most recently started remote-fuser docker container.
• make clean removes all binaries and locally downloaded scripts
• make fuse.xml retrieves the remote-fuser configuration file

1. Create a COS instance:

   make cos_start

2. On the newly created instance (named rmt-fuser-test-$USER by default):

   git clone https://github.com/christiam/docker-rmt-fuser.git

3. Build image

   cd docker-rmt-fuser && sudo bash -x cos-build.sh

4. Run the container

   bash -x cos-run.sh

5. Check the local file system

   bash -x cos-check.sh

6. Stop the container

   docker rm -f rmt-fuser

7. Outside the COS instance, to stop it, please run:

   make cos_stop