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Can you paste in some sample input? (in CODE tags) and which command gives you which output please?

It might be that it looks like a space to a human but it is something else however the [^ ]...

It looks like your headers are differently spaced and i suppose this will not count as a difference, right?

If so: first get the headers (line 1 always?) and change all the spacings to a single...

Using diff and head


if diff <(head -1 file1.tsv) <(head -1 file2.tsv) > /dev/null; then
echo Headers OK
else
echo Headers not OK
fi


Or awk


awk 'A[NR]=$0 { nextfile }
END {...