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dellytools / delly

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
BSD 3-Clause "New" or "Revised" License
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split-read assembly fault (Segmentation fault (core dumped)) #328

Open zhanghanqing1992 opened 1 year ago

zhanghanqing1992 commented 1 year ago

When I used Delly(V1.1.6)to call SV,there is a mistake in step 'split-read assembly'. this is my COMMAND : [2023-Jun-02 17:08:13] delly call -g Gm82a1.fasta -o ZY580A.bcf ./ZY580A.sorted.dedup.bam [2023-Jun-02 17:08:17] Paired-end and split-read scanning [2023-Jun-02 17:09:17] Split-read clustering [2023-Jun-02 17:09:20] Paired-end clustering [2023-Jun-02 17:09:25] Split-read assembly Segmentation fault (core dumped) So I want to know what‘s wrong with my command and input files,or it's just a bug?

tobiasrausch commented 1 year ago

I think that just got fixed by this commit

zhanghanqing1992 commented 1 year ago

I think that just got fixed by this commit

Thanks Rausch. I found that the file 'src/assemble.h' has already changed, but it still doesn't work correctly, the fault message is as same as that above shows.

tobiasrausch commented 1 year ago

Would it be possible to share the BAM and FASTA sequence? This could be another bug.

zhanghanqing1992 commented 1 year ago

Would it be possible to share the BAM and FASTA sequence? This could be another bug.

this is the BAM file image and this is FA file image