Script terminates prematurely after do loop. Last "echo" is not executed. - arrays

Question

I am looking to execute the following script below. The issue I am encountering is it will not execute anything after the do loop. It doesn't matter what I happen to have after the loop, it never executes, so I am def missing something somewhere.
Also, any suggestions on a more efficient way or writing this script? I am very new to the scripting environment and very open to better ways of going about things.
#!/bin/bash
# mcidas environment
PATH=$HOME/bin:
PATH=$PATH:/usr/sww/bin:/usr/local/bin:$HOME/mcidas/bin
PATH=$PATH:/home/mcidas/bin:/bin:/usr/bin:/etc:/usr/ucb
PATH=$PATH:/usr/bin/X11:/common/tool/bin:.
export PATH
MCPATH=$HOME/mcidas/data
MCPATH=$MCPATH:/home/mcidas/data
export MCPATH
#variables
basedir1="ftp://ladsweb.nascom.nasa.gov/allData/6/MOD02QKM" #TERRA
basedir2="ftp://ladsweb.nascom.nasa.gov/allData/6/MYD02QKM" #AQUA
day=`date +%j`
day1=`date +"%j" -d "-1 day"`
hour=`date -u +"%H"`
min=`date -u +"%m"`
year=`date -u +"%Y"`
segment=1
count=$(ls /satellite/modis_processed/ | grep -v ^d | wc -l)
count_max=25
files=(/satellite/modis_processed/*)
if [ $hour -ge "17" ]; then
workinghour="16"
echo "Searching for hour $workinghour"
url="${basedir2}/${year}/${day1}/MYD02QKM.A${year}${day1}.${workinghour}*.006.${year}*"
wget -r -nd --no-parent -nc -e robots=off -R 'index.*' -P /satellitemodis/ $url
#find /satellite/modis/ -type f -mmin -30 -exec cp "{}" /satellite/modis_processed/ \;
for files in /satellite/modis_processed/*
do
echo "The number used for the data file is ${count}"
echo "The number used for the image file is ${segment}"
export segment
export count
#Run McIDAS
mcenv <<- 'EOF'
imgcopy.k MODISD.${count} MODISI.${segment} BAND=1 SIZE=SAME
imgremap.k MODISD.${segment} MODISI.${segment} BAND=1 SIZE=ALL PRO=MERC
imgcha.k MODISI.${segment} CTYPE=BRIT
exit
EOF
segment=`expr ${segment} + 1`
count=`expr ${count} - 1`
#Reset Counter if equal or greater than 25
if [[ $segment -ge $count_max ]]; then
segment=1
fi
find /satellite/awips -type f -name "AREA62*" -exec mv "{}" /awips2/edex/data/manual/ \;
done;
echo "We have exported ${segment} converted modis files to EDEX."
fi

Answer 1

You have a here-document in that script. That here-document is not properly terminated. The end marker, EOF, needs to be in the first column, not indented at all.
If you indent it, it has to be with tabs, and the start of the here-document should be <<-'EOF'.
The effect of the wrongly indented EOF marker is that the rest of the script is read as the contents of the here-document.
As Charles Duffy points out, ShellCheck is your friend.