Only transfer specified files from current directory using the --files-from flag with rclone copy
rclone copy . --files-from bams.txt remote:path/dest . -P
Show progress with the -P flag
Using -P is nice for interactive mode but clogs up the log files when running from the queue.
When submitting the job to Sherlock, it's better to print out the stats every 30 minutes.
rclone copy . --files-from files remote:path/dest --stats-one-line --stats 30m
When creating a new remote, you need to authorize rclone account access. The default config setup
will try to open a browser link that will lead you to authorize rclone access. This won't work if the computer
doesn't have a monitor/GUI output (ie Sherlock or other SSH scenarios). In this case don't use the default config.
Instead, download rclone onto a compute with GUI output (like your laptop) and then follow the instructions to
authorize from the local computer and then paste the key into the remote computer.
See Remote Setup
If you want to copy a directory test with several files into a new location dest and keep test as the root instead of
copying just the contents to dest, you need to format the output path as dest/test. See this
for more info