hiseq.rsync

# Include all dirs. This is required for anything to work
# Empty dirs can be excluded with --prune-empty-dirs
#
# cd <runfolder>
# rsync -av --prune-empty-dirs --include-from hiseq.rsync $PWD/ biologin:~/incoming/runfolders/$runfolder > $PWD/rsync.log
#

+ */

# Include some files regardless of location in tree
+ sisyphus*
+ *.sbatch
+ *.yml
+ *.png
+ *.csv
+ *.htm
+ *.xml
+ *.xsl
+ *.sbatch.gz
+ *.yml.gz
+ *.png.gz
+ *.csv.gz
+ *.htm.gz
+ *.xml.gz
+ *.xsl.gz
+ *.qmat*
+ *.fastq*
+ Makefile*
+ nohup*
+ support.txt*
+ SampleSheet.*
+ Log.txt*
+ First_Base_Report.txt*
+ MiSeq_Runfolder.tar.gz
+ bcl2fastq.version

# Exclude all .sentinel files
- .sentinel

# Include full tree of some subdirs
# This works if rsync is called with src dest, but not src/ dest
+ /*/Sisyphus/***
+ /*/Unaligned/(?!Reports)/***
+ /*/Excluded/***
+ /*/Config/***
+ /*/Diag/***
+ /*/InterOp/***
+ /*/Logs/***
+ /*/Recipe/***
+ /*/Data/RTALogs/***
+ /*/Data/reports/***
+ /*/Data/Status_Files/***
+ /*/slurmlogs/***
+ /*/slurmscripts/***

- *