sokrypton / sokrypton/ColabFold
mmseq database prep
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Description
Hi there,
I'm trying to set up the mmseq2 search locally on my machine.
When trying to run mmseqs tsv2exprofiledb uniref30_2103 uniref30_2103_db I'm getting:
Invalid Command: tsv2exprofiledb
Did you mean "mmseqs convertprofiledb"?
I'm freshly downloaded mmseq using conda. My current version is 13.45111.
Is there a workaround that issue?
and in any case, thank you very much for all the effort you put into this project!
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reproducing the mmseqs tsv2exprofiledb failure with the reported conda installation and version 13.45111. Check the command's availability and version compatibility, then document a verified workaround for preparing the uniref30 database; the issue is done when the reported setup completes successfully.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100