Entering edit mode
2.9 years ago
mathavanbioinfo
▴
80
Hello, I have tried to download the database but still I got the error
Please help me to solve this issue
Command
(base) [suresh@node4 bin]$ ./kraken2-build --standard --db /Analysis/mathavan/kraken_db
Error Message:
Downloading nucleotide wgs accession to taxon map... done.
Downloaded accession to taxon map(s)
Downloading taxonomy tree data... done.
Uncompressing taxonomy data... done.
Untarring taxonomy tree data... done.
Step 1/2: Performing rsync file transfer of requested files
Rsync file transfer complete.
Step 2/2: Assigning taxonomic IDs to sequences
Processed 429 projects (730 sequences, 1.17 Gbp)... done.
All files processed, cleaning up extra sequence files... done, library complete.
Masking low-complexity regions of downloaded library... done.
Step 1/2: Performing rsync file transfer of requested files
Rsync file transfer complete.
Step 2/2: Assigning taxonomic IDs to sequences
Processed 28494 projects (67157 sequences, 118.46 Gbp)... done.
All files processed, cleaning up extra sequence files... done, library complete.
Masking low-complexity regions of downloaded library... done.
Step 1/2: Performing rsync file transfer of requested files
Rsync file transfer complete.
Step 2/2: Assigning taxonomic IDs to sequences
Processed 11807 projects (14718 sequences, 463.50 Mbp)... done.
All files processed, cleaning up extra sequence files... done, library complete.
Masking low-complexity regions of downloaded library... done.
Downloading plasmid files from FTP...gzip: abort: corrupted input -- invalid deflate data: plasmid.11.1.genomic.fna.gz
gzip: abort: corrupted input -- invalid deflate data: plasmid.3.1.genomic.fna.gz
gzip: abort: corrupted input -- invalid deflate data: plasmid.5.1.genomic.fna.gz
gzip: abort: corrupted input -- invalid deflate data: plasmid.9.1.genomic.fna.gz
seems downloaded files are corrupted. Try when connection is stable.