Container Image deletes itself after every 'run'

[akshayMpatel]

Running command:
singularity run --cleanenv my_container.simg -b /batch/cat_standalone_segment.txt my.nii

Results in :
...
INFO: Cleaning up image...

And the image is then deleted.

Same occurs with many other variants of 'run' interface built for this container.

[m-wierzba]

Thank you for your interest, I admit this is an intriguing issue! Let me make sure that I understand the problem.

1. Can you tell a bit more about your setup (OS, singularity version, local machine vs computing cluster, sudo privileges, etc.)?
2. Do you mean that the .simg image file is deleted (unclear if you mean .simg or .nii here)?

If this is not a problem, it would be helpful to see:

• the log from container build:
  sudo singularity build my_container.simg Singularity > build.log
• the log from container run:
  singularity run --cleanenv my_container.simg -b /batch/cat_standalone_segment.txt my.nii > run.log

Feel free to attach the logs here, or send them by e-mail.

[akshayMpatel]

1. CentOS7, singularity version 3.5.3-1.1.el7, local machine, non-sudo privileges built with --fakeroot,
2. .simg is deleted

The requested logs are attached.

build.Tue Jun 30 12:11:48 CEST 2020.log

run.Tue Jun 30 12:53:40 CEST 2020.log

(The run was killed this time due to system resource management.)

Many thanks