Merge pull request #228 from aidenlab/singleseq

#

# Sanity check once pipeline is complete to be sure number of lines adds up, deduping

# proceeded appropriately, and that files were created

# Juicer version 1.5

# Juicer version 2.0

# Start by checking the statistics to see if they add up 

res1=`cat ${splitdir}/*norm*res*`

check1=`cat ${splitdir}/*norm*res* | awk '{s2+=$2; s3+=$3; s4+=$4; s5+=$5; s6+=$6}END{if (s2 != s3+s4+s5+s6){print 0}else{print 1}}'`

check1=`cat ${splitdir}/*norm*res* | awk '{s2+=$2; s3+=$3; s4+=$4; s5+=$5; s6+=$6; s7+=$7}END{if (s2 != s3+s4+s5+s6+s7){print 0}else{print 1}}'`

if [ $check1 -eq 0 ] || [ -z "$res1" ]

then

    echo "***! Error! The statistics do not add up. Alignment likely failed to complete on one or more files. Run relaunch_prep.sh"