How to append new line \n in a loop - bash

Question

I want to add a new line character '\n' at the end of each line in my file.
Here is my code:
while read -r line
do
echo "$line"|awk -F'\t' '{
print($1);
for (i=2; i<=NF; i++){
split($i,arr,":")
print(arr[1])
};
}' | tr '\n' '\t' | tr '|' ' ' | tr '/' ' ' | {END OF LINE, WANNA ADD NEW LINE}
>> genotype_processed.txt
done < file_in
Also, is there any way that I can combine the 3 tr commands into one? They just look too redundant.
Many thanks!
EDIT:
The input looks like this:
id123 0|1:a:b:c 0/0:i:j:k ...
id456 1/1:j:f:z 1|0:.:j:v ...
...
The desired output:
id123 0 1 0 0 ...
id456 1 1 1 0 ...
...

Answer 1

You could open the output file only once, at the end of the while loop, and then do whatever you want to output within the loop.
while read -r line
do
echo "$line"|awk -F'\t' '{
print($1);
for (i=2; i<=NF; i++){
split($i,arr,":")
print(arr[1])
};
}' | tr '\n' '\t' | tr '|' ' ' | tr '/' ' '
# This will be the new "newline"
echo
done < file_in >genotype_processed.txt
And by the way, your loop could be improved, I think, by using a single command to do the replacements. Probably a sed could be a good choice.
Provide us more example of input and expected output
EDIT
After your input/output description, I think you could improve this part a lot.
You do while read line; do echo "$line" | awk '...'; done <input which is basically what you would get by doint a single awk '...' input.
I don't get exactly what you want to achieve, I think you misunderstand some things, but if what I think is right, then this is what you want.
sed -r 's/:[^[:blank:]]+//g; s/[|/]/ /g' input
Here, I first remove what follows the first : for in each column, and then I replace the characters | or / with a space.
Does that meets your needs ?

Answer 2

How about:
while read -r line
do
newline="\n"
echo $line$newline >> genotype_processed.txt
done < file_in
Or use "$line"$newline if needing to retain original formatting of $line according to your requirement.

Answer 3

Maybe you're overcomplicating this. (XY Problem?)
$: sed 's,[|/], ,g; s/:[^ ]*//g;' file_in > genotype_processed.txt
I sub'd all | and / with spaces, and any : followed by any number of non-tabs with nothing.
I used a single truncating output redirection since I did it all in one step. If there was stuff in the file you wanted to keep, then go back to the append.