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minimap2 settings #8

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pawel-wojciechowski opened this issue Sep 18, 2024 · 2 comments
Open

minimap2 settings #8

pawel-wojciechowski opened this issue Sep 18, 2024 · 2 comments

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@pawel-wojciechowski
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Hi,
I have a problem with minimap2 settings. When I try to use rb to obtain saffire file on the basis on existing paf I receive the error:

thread 'main' panicked at 'called Result::unwrap() on an Err value: PafParseCigar { msg: "target bases 0 from cigar does not equal 53009621-1=53009620\nptg000001l\t53009641\t1\t53009621\t+\tchr8\t68166422\t1\t53009621\t44308341\t53009620\t60\tid:Z:\tcg:Z:\n" }', src/paf.rs:71:43

What is the reason?
Help, please.

Pawel
@mrvollger
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I would guess the cigar tag is missing. Running minimap2 with -c and --eqx should fix that.

@pawel-wojciechowski
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It works! Thank you. Maybe you should. Maybe you should put this information on the front page. What do you think about it?

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@mrvollger @pawel-wojciechowski