mmseqs databases Kalamari kalamari tmp should grab the "Kalamari" sequences and produce a taxonomy database.
Current Behavior
Fails to download anything and database creation crashes. Inspection of the ../data/workflow/databases.sh script shows the link to download a .tsv file from the kalamari repo is no longer valid.
Steps to Reproduce (for bugs)
mmseqs databases Kalamari kalamari tmp
MMseqs Output (for bugs)
databases Kalamari kalamari tmp
MMseqs Version: fcf52600801a73e95fd74068e1bb1afb437d719d
Force restart with latest tmp false
Remove temporary files false
Compressed 0
Threads 8
Verbosity 3
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 14 100 14 0 0 34 0 --:--:-- --:--:-- --:--:-- 34
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 32 0 32 0 0 24 0 --:--:-- 0:00:01 --:--:-- 24
createdb tmp/10928370746232574590/kalamari.fasta kalamari --compressed 0 -v 3
Converting sequences
Time for merging to kalamari_h: 0h 0m 0s 3ms
Time for merging to kalamari: 0h 0m 0s 3ms
Database type: Nucleotide
The input files have no entry: - tmp/10928370746232574590/kalamari.fasta
Please check your input files. Only files in fasta/fastq[.gz|bz2] are supported
Error: createdb died
Context
Updating the link might partially resolve the error. I have tried a manual download of the Kalamari database but can't get the final taxonomy database to be successfully produced.
Your Environment
Include as many relevant details about the environment you experienced the bug in.
Git commit used (The string after "MMseqs Version:" when you execute MMseqs without any parameters):MMseqs Version: fcf52600801a73e95fd74068e1bb1afb437d719d
Which MMseqs version was used (Statically-compiled, self-compiled, Homebrew, etc.): Statically-compiled
Server specifications (especially CPU support for AVX2/SSE and amount of system memory): ARMv8 Processor rev 0 (v8l) × 8
Expected Behavior
mmseqs databases Kalamari kalamari tmp
should grab the "Kalamari" sequences and produce a taxonomy database.Current Behavior
Fails to download anything and database creation crashes. Inspection of the ../data/workflow/databases.sh script shows the link to download a .tsv file from the kalamari repo is no longer valid.
Steps to Reproduce (for bugs)
mmseqs databases Kalamari kalamari tmp
MMseqs Output (for bugs)
Context
Updating the link might partially resolve the error. I have tried a manual download of the Kalamari database but can't get the final taxonomy database to be successfully produced.
Your Environment
Include as many relevant details about the environment you experienced the bug in.