# How do i assemble scaffold in the one long sequence

**URL:** <https://help.galaxyproject.org/t/how-do-i-assemble-scaffold-in-the-one-long-sequence/7117>\
**Category:** Uncategorized\
**Created:** [November 29, 2021, 1:46pm UTC](https://help.galaxyproject.org/t/how-do-i-assemble-scaffold-in-the-one-long-sequence/7117 "2021-11-29T13:46:03Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![sankkan](https://avatars.discourse-cdn.com/v4/letter/s/50afbb/32.png) [@sankkan](https://help.galaxyproject.org/u/sankkan)\
**Post date:** [November 29, 2021, 1:46pm UTC](https://help.galaxyproject.org/t/how-do-i-assemble-scaffold-in-the-one-long-sequence/7117/1 "2021-11-29T13:46:03Z")

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Hello,

In my lab we have ordered a full genome sequence in the commercial firm. We received from them a few fasta files(scaffolds) that multiple sequences them. How can i map these scaffolds onto the reference genome? I tired RagTag, but it seems like i doing smt wrong as output file is empty.

If anyone can help, please do 🙂

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**Author:** ![gallardoalba](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/gallardoalba/32/1903_2.png) [@gallardoalba](https://help.galaxyproject.org/u/gallardoalba)\
**Post date:** [November 30, 2021, 10:07am UTC](https://help.galaxyproject.org/t/how-do-i-assemble-scaffold-in-the-one-long-sequence/7117/2 "2021-11-30T10:07:51Z")

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Hi @sankkan

could you share your history with me? Perhaps there is a problem with the Ragtag tool, since it was included a few days ago, and we haven’t tested it so much. I shared my email address with you in a private message.

Regards