file1  --- is a good file, validated for both header and data type in all fields in file1
file2  --- is a bad file, not validated though the header line is good, the data type expected in QUAL is alpha and it is a .(dot) in red in file2
file3  --- is a bad file, not validated though the header line is not good (10 columns are expected), though the data type expected in file3

Index    Chr    Start    End    Ref    Alt    Freq    Qual    Score    Input    ---- defined 10 column headers ----
Integar     Integar    Integar    Integar    Alpha    Alpha    Integar    Alpha    Integar    Integar   --- data type of each line after header  ----

Index    Chr    Start    End    Ref    Alt    Freq    Qual    Score    Input
1    1    1    100    C    -    1    GOOD    10    .
2    2    20    200    A    C    .002    STRAND BIAS    2    .
3    2    270    400    -    GG    .036    GOOD    6    .

Index    Chr    Start    End    Ref    Alt    Freq    Qual    Score    Input
1    1    1    100    C    -    1    .    10    .
2    2    20    200    A    C    .002    STRAND BIAS    2    .
3    2    270    400    -    GG    .036    GOOD    6    .

Index    Chr    Start    End    Ref    Alt    Freq    Qual    Input
1    1    1    100    C    -    1    GOOD    10    .
2    2    20    200    A    C    .002    STRAND BIAS    2    .
3    2    270    400    -    GG    .036    GOOD    6    .

#!/bin/bash# call bash script
awk -F'\t' '{print NF, "fields detected in file and they are:" ORS $0; exit}' file >> output  # detect header row in file and store in output
   if [[ $NF -eq 1 ]]; then   # display results
      echo "file has expected number of fields"   # file is validated for headers
    else
      echo "file is missing header for:"  # missing header field ...in file not-validated
      echo "$NF"
    fi  # close if.... else    
    
isnumeric()   # numeric function
{   # start block
    result=$(echo "$1" | tr -d '[[:digit:]]')  # check each field in file for numeric and store result
    echo ${#result}   # display result
}  # end block

isalpha()   # charcter function
{  # start block
    result=$(echo "$1" | tr -d '[[:alpha:]]')  # check each field in file for character and store result
    echo ${#result}   # display result
}  # end block
col1=""   # define col to search
col2=""   # define col to search
col3=""   # define col to search
col4=""   # define col to search
col5=""   # define col to search
col6=""   # define col to search
col7=""   # define col to search
col8=""   # define col to search
col9=""    # define col to search
col10=""  # define col to search
let retval=1  # data to check in this row

while read record  # start loop to read each column in file
do
    echo "$record" | awk -F'\t' '{print $1, $2, $3, $4, $5, $6, $7, $8, $9, $10 }' | read col1 col2 col3 col4 col5 col6 col7 col8 col col10  # store in col name in record
    
    # check  if numeric in col
    if [[ $(isnumeric "$col1") -eq 1 && $(isnumeric "$col2") -eq 1 && $(isnumeric "$col3") -eq 1 && $(isnumeric "$col4") -eq 1 && $(isnumeric "$col7") -eq 1 && $(isnumeric "$col9") -eq 1 && $(isnumeric "$col10") -eq 1 ]]; then
         retval=1  # check data in this row
    else
         retval=0  # go back to header row
         break
    fi  # close if.... else
    
    # check if alpha in col
    if [[ $(isalpha "$col5") -eq 1 && $(isalpha "$col6") -eq 1 && $(isalpha "$col8") -eq 1 ]]; then
         retval=1  # check data in this row
    else
         retval=0  # go back to header row
         break
    fi  # close if....else
    
    if [[ $retval -eq 1 ]]; then   # display results
      echo "file is correct data type in each field"   # file isvalidated
    else
      echo "file is  not the correct data type for:"  # colums ...in file not-validated
      echo "$col1 $col2 $col3 $col4 $col5 $col6 $col7 $col8 $col9 $col10"
    fi  # close if.... else    
    
    if [[ NF == 10 && $retval -eq 1 ]]; then   # execute and display file validated
      echo "file is validated"
    else
      echo "file is not validated"
    fi
done  < file >> output  # end loop and define file to check and add to output