Open sujee119 opened 6 months ago
This looks like it installed a really old version of MMseqs2. Did you install the software through conda into a new environment?
This looks like it installed a really old version of MMseqs2. Did you install the software through conda into a new environment?
Yes, i used conda to install. I also tried reinstalling and ran the codes. the error repeats.
Hi,
I'm trying to learn the workflow through the tutorial. unfortunately, the commands in the tutorials are wrong according to the program codes.
i followed this steps
Download the database
wget http://wwwuser.gwdg.de/~compbiol/mmseqs2/tutorials/uniprot_sprot_2018_03.fasta.gz wget http://wwwuser.gwdg.de/~compbiol/mmseqs2/tutorials/uniprot_sprot_2018_03_mapping.tsv.gz gunzip uniprot_sprot_2018_03_mapping.tsv.gz
Create a taxonomically annotated sequence database
mmseqs createdb uniprot_sprot_2018_03.fasta.gz uniprot_sprot mmseqs createtaxdb uniprot_sprot tmp --tax-mapping-file uniprot_sprot_2018_03_mapping.tsv
(mmseq2) cyborg@skynet:~/root_dev$ mmseqs createtaxdb uniprot_sprot tmp --tax-mapping-file uniprot_sprot_2018_03_mapping.tsv mmseqs createtaxdb: Annotates a sequence database with NCBI taxonomy information. The program will download the Uniprot taxMappingFile and ncbi-taxdump-folder if only two arguments are passed.
Please cite: Steinegger, M. & Soding, J. MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets. Nature Biotechnology, doi:10.1038/nbt.3988 (2017)
© Martin Steinegger martin.steinegger@mpibpc.mpg.de
Usage: [ ] [options]
common options default description [value range] -v 3 verbosity level: 0=nothing, 1: +errors, 2: +warnings, 3: +info
Unrecognized parameter --tax-mapping-file Did you mean "-v"?
if there are any updates to the codes, please let me know.
-Thanks