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rpbap / CADECT

Concatemere by Amplification DEteCtion Tool
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Invalid Syntax L69 #1

Closed stevenjdunn closed 1 month ago

stevenjdunn commented 2 months ago

Hi - I was interested in testing this tool as the preprint sounds like it's a great fit for my needs, but I get an error when running:

File "CADECTv1.0.2.py", line 69 table_file.write(f"{record.id}\t{classification}\t{num_windows}\t{num_overlaps}\n") ^ SyntaxError: invalid syntax

Running Python 3.5.5, installed using instructions on the readme.

Thanks!

rpbap commented 2 months ago

Hi Steven! Thanks for reaching out! The error you're encountering is likely due to a version of Python that doesn't support f-strings. F-strings (formatted string literals) were introduced in Python 3.6, so if you're using an older version of Python, you would encounter a SyntaxError.

I just updated the README to clarify that. =)

If you are not able to get 3.6 or higher, you can modify the script on Line 116:

"table_file.write(f"{record.id}\t{classification}\t{num_windows}\t{num_overlaps}\n"

for

"table_file.write("{}\t{}\t{}\t{}\n".format(record.id, classification, num_windows, num_overlaps))"

Let me know if this works for you