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Dear mmseq2 team
I am trying to create taxonomy database for ncbi nr data base. First I downloaded nr.fa, taxdump and prot.accession2taxid. Then I ran the below commands
mmseqs createdb nr.fa nr…
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Hi there, when I run this command, "CCMetagen.py -i out.res -o results"
it gaves message below and then went to error state
NCBI database not present yet (first time used?)
Downloading taxdump.t…
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When I use "taxonkit create-taxdump -K 1 -P 3 -C 5 -O 7 -F 9 -G 11 -S 13 -T 15"
I will get this error: "Error: unknown shorthand flag: 'K' in -K". Is there a way to solve this error?
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Hi,
I really like this project!
Do you also archive all the historical taxdump *.dmp files?
If you are interested, I could send you some older files from before 2014-08-01.
I have files from t…
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As far as I can tell from reading the docs & paper on `taxa`, the package cannot directly import from taxdump files. This would be helpful for importing custom taxdump files created from non-NCBI taxo…
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Is it possible to generate a graphical representation of a taxdump?
Most taxdumps are huge and impractical to represent graphically but, sometimes when testing, users work with reduced taxdumps tha…
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The NCBI taxdump contains ca 600K records, looking like:
```
9 | Buchnera aphidicola | | scientific name |
9 | Buchnera aphidicola Munson et al. 1991 | | synonym |
10 | "C…
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Hello!
I'm trying to download progenomes database and see that:
Downloading taxdump.tar.gz
.listing [ …
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I cannot seem to figure out if this is an issue or not. I'm using kaiju-makedb in cluster. It required taxdump that is why I added that file in the directory. I also did md5sum for the file but it did…
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### Prerequisites
- [x] make sure you're are using the latest version by `taxonkit version`
- [x] read the [usage](http://bioinf.shenwei.me/taxonkit/usage/)
### Describe your issue
* [x] des…