Keep in mind: error into process 'download_taxonomy_db'
It happened once on February 4, 2021
Error executing process > 'download_taxonomy_db'
Caused by:
Process `download_taxonomy_db` terminated with an error exit status (2)
Command executed:
wget ftp://ftp.ncbi.nih.gov/pub/taxonomy/accession2taxid/prot.accession2taxid.gz
file='ftp://ftp.ncbi.nih.gov/pub/taxonomy/accession2taxid/prot.accession2taxid.gz'
fileName=${file##*/}
echo $fileName
gunzip $fileName
wget ftp://ftp.ncbi.nih.gov/pub/taxonomy/taxdump.tar.gz
file_taxdump='ftp://ftp.ncbi.nih.gov/pub/taxonomy/taxdump.tar.gz'
fileName_taxdump=${file_taxdump##*/}
echo $fileName_taxdump
mkdir taxdump; mv $fileName_taxdump taxdump; cd taxdump ; tar xzvf $fileName_taxdump
Command exit status:
2
Command output:
prot.accession2taxid.gz
taxdump.tar.gz
citations.dmp
Command error:
53500K .......... .......... .......... .......... ..........100% 115M 0s
53550K .......... .......... .......... .......... ..........100% 94.7M 0s
53600K .......... .......... .......... .......... ..........100% 95.0M 0s
53650K .......... .......... .......... .......... ..........101% 117M 0s
53700K .......... .......... .......... .......... ..........101% 1.36M 0s
53750K .......... .......... .......... .......... ..........101% 59.7M 0s
53800K .......... .......... .......... .......... ..........101% 19.9M 0s
53850K .......... .......... .......... .......... ..........101% 70.1M 0s
53900K .......... .......... .......... .......... ..........101% 85.1M 0s
53950K .......... .......... .......... .......... ..........101% 105M 0s
54000K .......... .......... .......... .......... ..........101% 97.2M 0s
54050K .......... .......... .......... .......... ..........101% 112M 0s
54100K .......... .......... .......... .......... ..........101% 94.7M 0s
54150K .......... .......... .......... .......... ..........101% 103M 0s
54200K .......... .......... .......... .......... ..........102% 2.90M 0s
54250K .......... .......... .......... .......... ..........102% 36.2M 0s
54300K .......... .......... .......... .......... ..........102% 113M 0s
54350K .......... .......... .......... .......... ..........102% 127M 0s
54400K .......... .......... .......... .......... ..........102% 97.9M 0s
54450K .......... .......... .......... .......... ..........102% 139M 0s
54500K .......... .......... .......... .......... ..........102% 86.8M 0s
54550K .......... .......... .......... .......... ..........102% 146M 0s
54600K .......... .......... .......... .......... ..........102% 118M 0s
54650K .......... .......... .......... .......... ..........102% 116M 0s
54700K .......... .......... .......... .......... ..........103% 100M 0s
54750K .......... .......... .......... .......... ..........103% 102M 0s
54800K .......... .......... .......... .......... ..........103% 142M 0s
54850K .......... .......... .......... .......... ..........103% 113M 0s
54900K .......... .......... .......... .......... ..........103% 103M 0s
54950K .......... .......... .......... .......... ..........103% 127M 0s
55000K .......... .......... .......... .......... ..........103% 1.69M 0s
55050K .......... .......... .......... .......... ..........103% 42.5M 0s
55100K .......... .......... .......... .......... ..........103% 117M 0s
55150K .......... .......... .......... .......... ..........103% 97.1M 0s
55200K .......... .......... .......... .......... ..........103% 103M 0s
55250K .......... .......... .......... .......... ..........104% 155M 0s
55300K .......... .......... .......... .......... ..........104% 108M 0s
55350K .......... .......... .......... .......... ..........104% 94.8M 0s
55400K .......... .......... .......... .......... ..........104% 94.9M 0s
55450K .......... .......... .......... .......... ..........104% 105M 0s
55500K .......... .......... .......... .......... ..........104% 137M 0s
55550K .......... .... 104% 42.4M=12s
2021-02-04 21:24:44 (4.37 MB/s) - ‘taxdump.tar.gz’ saved [56898491]
gzip: stdin: invalid compressed data--format violated
tar: Unexpected EOF in archive
tar: Unexpected EOF in archive
tar: Error is not recoverable: exiting now
Edited by Joanna Fourquet