#This is the transformation catalog.
#
#It comes pre-configured with a number of simple transformations with
#paths that are likely to work on a linux box. However, on some systems,
#the paths to these executables will be different (for example, sometimes
#some of these programs are found in /usr/bin rather than in /bin)
#
#NOTE WELL: fields in this file must be separated by tabs, not spaces; and
#there must be no trailing whitespace at the end of each line.
#
# site		transformation	path		obsolete fields for compatibility

localhost 	echo 		/bin/echo	null	null	null
localhost 	cat 		/bin/cat	null	null	null
localhost 	ls 		/bin/ls		null	null	null
localhost 	wc 		/bin/wc		null	null	null
localhost 	grep 		/bin/grep	null	null	null
localhost 	sort 		/bin/sort	null	null	null
localhost 	paste 		/bin/paste	null	null	null
localhost 	pwd 		/bin/pwd	null	null	null
localhost	cp		/bin/cp		null	null	null
localhost	convert		/usr/bin/convert	null	null	null

# For cluster usage
sge		annotate	/export3/chip-seq/executables/annotate.out	null	null	null
sge		comppeaks	/export3/chip-seq/executables/comppeaks.out	null	null	null
sge		genecount	/export3/chip-seq/executables/genecount.out	null	null	null
sge		printfdr	/export3/chip-seq/executables/printfdr.out	null	null	null
sge		raisethresh	/export3/chip-seq/executables/raisethresh.out	null	null	null

# For localhost testing
localhost	annotate	/export3/chip-seq/executables/annotate.out	null	null	null
localhost	comppeaks	/export3/chip-seq/executables/comppeaks.out	null	null	null
localhost	genecount	/export3/chip-seq/executables/genecount.out	null	null	null
localhost	printfdr	/export3/chip-seq/executables/printfdr.out	null	null	null
localhost	raisethresh	/export3/chip-seq/executables/raisethresh.out	null	null	null