genomicsCoreFileMgmt

These are tools (mostly perl) to manage the VAI genomics core file lifecycle

This used to be a small part of the larger hpc admin repo https://github.com/VanAndelInstitute/Admin-Tools But as the file management got more complex I wanted to move it into its own repo and make it more transparent, especially to the core staff who depend on it.

Currently the cron on login01 looks like this:

• 22 2 * * 1 /primary/vari/admin/tools/genomicsCoreFileMgmt/genomicsFileMgmtCron.sh
• 6 22 4 1 * * /primary/vari/admin/tools/genomicsCoreFileMgmt/notify.pl

genomicsFileMgmtCron.sh

This is the master cron job that currently runs on login01

moveFilesToAWSStaging.pl

move old files to a staging area for archival to AWS

notify.pl

send emails to staff when files are present in dir

notifyFileAge.pl

send emails to staff when old files are have been sitting too long

rsync_genomicscore.sh

move old files to .trash dir and clean up for the core dir

rsync_instruments_iscan.sh

move old files to .trash dir and clean up for the iscan instrument

rsync_instruments_iseq.sh

move old files to .trash dir and clean up for the iseq instrument

rsync_instruments_minion.sh

move old files to .trash dir and clean up for the minon instrument

rsync_instruments_novaseq.sh

move old files to .trash dir and clean up for the novaseq instrument

rsync_instruments_sequencing.sh

move old files to .trash dir and clean up for the sequencing folder/instrument