error when run the run-asm-pipeline-post-review.sh, the final.fasta was too small

[Jiangjiangzhang6]

hello my friends
when adjuest the juicerbox, geneated the review.assembly . and use the run-asm-pipeline-post-review.sh to genearate the final fasta ,but its error. my genome size was 23g, and the final and FINAL fasta was just 500mb.
how to handle with the error ,
thank you
the commands was
bash ~/software/3d-dna-master/run-asm-pipeline-post-review.sh -r ../fusion_second2.0.review.assembly ../fusion_second2.fasta ../aligned/merged_nodups.txt

[Jiangjiangzhang6]

and the log file was show

the upper was normal
and the follows was the frist time I met

[Jiangjiangzhang6]

and this error , how to debug
thank you

[sanjin725]

Hello, I have encountered the same problem. Have you resolved it

[wiltbb]

兄弟，解决了吗，我也是同样的问题。

[Jiangjiangzhang6]

解决了，但是好久了，我都忘了什么问题了，你换个版本试试，你试试你的fasta文件是不是有空格，atcgn以外的其他的字母，你检查下，用seqkit或者其他软件检测下---- Replied Message ***@***.***>Date8/9/2024 ***@***.***>***@***.***>***@***.***>SubjectRe: [aidenlab/3d-dna] error when run the run-asm-pipeline-post-review.sh, the final.fasta was too small (Issue #179)兄弟，解决了吗，我也是同样的问题？—Reply to this email directly, view it on GitHub, or unsubscribe.You are receiving this because you authored the thread.Message ID: ***@***.***>

[sanjin725]

内存不够，要往512g以上去试，最好1t，我的700多才正常运行

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------------------ 原始邮件 ------------------ 发件人: ***@***.***>; 发送时间: 2024年8月9日(星期五) 晚上10:09 收件人: ***@***.***>; 抄送: ***@***.***>; ***@***.***>; 主题: Re: [aidenlab/3d-dna] error when run the run-asm-pipeline-post-review.sh, the final.fasta was too small (Issue #179) 兄弟，解决了吗，我也是同样的问题？ — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you commented.Message ID: ***@***.***>

[wiltbb]

兄弟们，为什么跑出来的结果文件里全是NNNNNN啊，并且报错文件里什么都没说，可以解答一下吗？

[Isoris]

how did you solve it?

and any way to speed up for a large genome? how long does it took you for a 23gb genome, mine is like 2 gb and take hours to post review