Mercurial > repos > guru-ananda > heatmap
comparison heatmap/r_wrapper.sh @ 0:89902ebc58b9 draft
Imported from capsule None
| author | devteam |
|---|---|
| date | Thu, 22 Jan 2015 10:41:06 -0500 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:89902ebc58b9 |
|---|---|
| 1 #!/bin/sh | |
| 2 | |
| 3 ### Run R providing the R script in $1 as standard input and passing | |
| 4 ### the remaining arguments on the command line | |
| 5 | |
| 6 # Function that writes a message to stderr and exits | |
| 7 function fail | |
| 8 { | |
| 9 echo "$@" >&2 | |
| 10 exit 1 | |
| 11 } | |
| 12 | |
| 13 # Ensure R executable is found | |
| 14 which R > /dev/null || fail "'R' is required by this tool but was not found on path" | |
| 15 | |
| 16 # Extract first argument | |
| 17 infile=$1; shift | |
| 18 | |
| 19 # Ensure the file exists | |
| 20 test -f $infile || fail "R input file '$infile' does not exist" | |
| 21 | |
| 22 # Invoke R passing file named by first argument to stdin | |
| 23 R --vanilla --slave $* < $infile |