Skip to content

Local and AWS dbGaP key not found using docker image #168

Description

@BrenKenna

Hi,

I'm trying use your docker within a aws-batch job, but I keep getting key not found error (the key does exist). Below is what I'm running and snippet from the error.

Pull image

sudo docker pull fusera/fusera:alpine

Setup mounting directory and list samples to mount

mkdir -p ~/TOPMed_test/
echo -e "SRR6769030\nSRR6769027\nSRR6769028\nSRR6769029" > ~/testing.txt

Mount data

key=$(ls ~/*ngc)
sudo docker run b22c00f65c8b fusera mount -d -n ${key} -a ~/testing.txt ~/TOPMed_test/ > ~/TOPMed-Test-Mounting.log 2>&1 &

Print log file

cat ~/TOPMed-Test-Mounting.log
DEBUG 2020/04/23 10:58:19 errors.go:48: couldn't open ngc file at: /home/ec2-user/prj_XXXXX.ngc: open /home/ec2-user/prj_XXXX.ngc: no such file or directory

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Type

    No type

    Projects

    No projects

      Milestone

      No milestone

      Relationships

      None yet

      Development

      No branches or pull requests

      Issue actions