Start import validation creation: Wed May 17 06:55:34 CDT 2017
/home/cmccabe/Desktop/validate/file1.txt found expected header
/home/cmccabe/Desktop/validate/file1.txt found expected order of fields
/home/cmccabe/Desktop/validate/file1.txt R_Index is a number
/home/cmccabe/Desktop/validate/file1.txt PopFreqMax is valid
/home/cmccabe/Desktop/validate/file1.txt Quality is a character
/home/cmccabe/Desktop/validate/file1.txt HGMD and Sanger are valid
/home/cmccabe/Desktop/validate/file2.txt found expected header
/home/cmccabe/Desktop/validate/file2.txt found expected order of fields
/home/cmccabe/Desktop/validate/file2.txt R_Index is a number
/home/cmccabe/Desktop/validate/file2.txt PopFreqMax is valid
/home/cmccabe/Desktop/validate/file2.txt Quality is a character
/home/cmccabe/Desktop/validate/file2.txt HGMD and Sanger are valid
/home/cmccabe/Desktop/validate/file3.txt found expected header
/home/cmccabe/Desktop/validate/file3.txt found expected order of fields
/home/cmccabe/Desktop/validate/file3.txt R_Index is a number
/home/cmccabe/Desktop/validate/file3.txt PopFreqMax is valid
/home/cmccabe/Desktop/validate/file3.txt Quality is a character
/home/cmccabe/Desktop/validate/file3.txt HGMD and Sanger are valid
End import validation creation: Wed May 17 06:55:34 CDT 2017

#!/bin/bash
while read line; do   # read each line in input
    if  echo "$line" | grep -q "Found expected header"; then echo "LINE IS GOOD"            # read line 1 
    if  echo "$line" | grep -q "Found expected order of fields"; then echo "LINE IS GOOD"   # read line 2
    if  echo "$line" | grep -q "R_Index is a number"; then echo "LINE IS GOOD"              # read line 3
    if  echo "$line" | grep -q "PopFreqMax is valid"; then echo "LINE IS GOOD"              # read line 4
    if  echo "$line" | grep -q "Quality is a character"; then echo "LINE IS GOOD"           # read line 5
    if  echo "$line" | grep -q "HGMD and Sanger are valid"; then echo "LINE IS GOOD"        # read line 6
    fi
done < file
   file="home/cmccabe/Desktop/validate/input"   # define path to input
   string="LINE IS GOOD"                        # define string to look for in each line
   count=$(grep -c "$string" "$file")           # count string occurences
               if [[ count -gt 6 ]]; then       # if count = 6
                    echo "$string has occurred 6 times"  # string is in each file x times
                    echo "FILENAME is verified"          # specific file is verified or good
               fi                    
                 else
                    echo "FILENAME not verified"         # specific file not verified
                 fi

1="Found expected header"
2="Found expected order of fields"
3="R_Index is a number"
4="PopFreqMax is valid"
5="Quality is a character"
6="HGMD and Sanger are valid"