fix recreate symlink issue + mac2unix/dos2unix replacement #106
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pneerincx
reviewed
Mar 7, 2024
| mac2unix "${sampsheet}" | ||
| SAMPLESHEET_SEP="," | ||
| cp "${sampsheet}"{,.converted} | ||
| sed -i 's/\r/\n/g' "${sampsheet}.converted" |
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Suggested change
| sed -i 's/\r/\n/g' "${sampsheet}.converted" | |
| printf '\n' >> "${sampsheet}.converted" | |
| sed -i 's/\r/\n/g' "${sampsheet}.converted" |
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The updated code replaces both mac2unix as well as dos2unix resulting whatever2unix. Another typical error is a missing line end character on the last line. The suggestion above inserts a line end character before the
sed -i "/^[\s${SAMPLESHEET_SEP}]*$/d" "${sampsheet}.converted"
line which removes empty lines. So if it was not necessary to add another line end character the sed that removes empty lines will fix it.
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