mmseqs databases GTDB setup fails #561
Description
Expected Behavior
Completes databases workflow, creating GTDB database.
Current Behavior
Error occurs near the end of the workflow.
Files created: gtdb gtdb.dbtype gtdb_h gtdb_h.dbtype gtdb_h.index gtdb.index gtdb.source tmp
Steps to Reproduce (for bugs)
mmseqs databases GTDB gtdb tmp
MMseqs Output (for bugs)
Create directory tmp
databases GTDB gtdb tmp
MMseqs Version: 13.45111
Force restart with latest tmp false
Remove temporary files false
Compressed 0
Threads 128
Verbosity 3
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 43.1M 100 43.1M 0 0 4930k 0 0:00:08 0:00:08 --:--:-- 6278k
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 334 100 334 0 0 6185 0 --:--:-- --:--:-- --:--:-- 6185
tar2db tmp/18048483634160780024/gtdb.tar.gz tmp/18048483634160780024/tardb --tar-include faa$ --threads 128 -v 3
Time for merging to tardb: 0h 0m 0s 113ms
Time for merging to tardb.lookup: 0h 0m 0s 110ms
Time for processing: 0h 0m 0s 443ms
createdb tmp/18048483634160780024/tardb gtdb --compressed 0 -v 3
Converting sequences
Time for merging to gtdb_h: 0h 0m 0s 25ms
Time for merging to gtdb: 0h 0m 0s 24ms
Database type: Nucleotide
The input files have no entry: - tmp/18048483634160780024/tardb
Please check your input files. Only files in fasta/fastq[.gz|bz2] are supported
Error: createdb died
The process 'mmseqs' has failed.
Context
Downloading GTDB db.
Your Environment
Using conda installation of mmseqs (MMseqs2 Version: 13.45111)
128cpu/1000GB mem. Support for AVX2