Since Illumina's systems are Windows-based, it seems the options for mounting the drives and automating the transfer of sequencing data are a bit more limited.
How do you move your data to your cluster or compute resources? Do you add a Samba mount to your cluster on the HiSeq? A cifs-based mount on your cluster? Use scp/sftp or an intermediate Linux machine? Do you see any I/O issues resulting in missing files with your process?
And do you save the data directly on your mount as it is generated by the sequencer, or do you transfer it after the run is complete?
I am looking for a reliable and automatable method that could be part of a clinical pipeline that processes specimens daily.
While this may seem like just an IT question, I think the NGS context is important because of the size and type of data so it would be lost on Stack Overflow. Thanks in advance!