[warn] Localization via hard link has failed Invalid cross-device link

Ηello, I'm trying to run GATK best practices and I've run in to a wall when the SamToFastqAndBwaMem is executed.

First things first: in the .inputs.json I specified my .fa.alt via absolute path and I get this warning: [warn] Localization via hard link has failed:

More specifically the SamToFastqAndBwaMem task, always exits with 1, meaning that I get this WorkflowManagerActor Workflow 8992b121-6c74-4ab8-aba3-07ecd748ef04 failed (during ExecutingWorkflowState): Job PairedEndSingleSampleWorkflow.SamToFastqAndBwaMem:0:1 exited with return code 1 which has not been declared as a valid return code. I suspect this error comes from the else-statement

# else ref_alt is empty or could not be found
    else
      exit 1;