comparison r_info.sh @ 35:6ac5ff87eb35 draft

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35:6ac5ff87eb35

#!/bin/sh


#Copied from https://github.com/galaxyproject/galaxy/blob/dev/tools/stats/r_wrapper.sh

### Run R providing the R script in $1 as standard input and passing 
### the remaining arguments on the command line

# Function that writes a message to stderr and exits
fail()
{
    echo "$@" >&2
    exit 1
}

# Ensure R executable is found
which R > /dev/null || fail "'R' is required by this tool but was not found on path" 

# Extract first argument
rfile=$1
package_file=$2
version_file=$3

# Ensure the file exists
test -f $infile || fail "R input file '$infile' does not exist"

# Invoke R passing file named by first argument to stdin
#Remove --slave for full R output
R --vanilla --slave --args $package_file < $rfile
echo "done"