Entering edit mode
4 months ago
Mesfin
•
0
Hi,
I was trying to download viral reference genome while exercising the 'Advanced FASTQ processing' section of the biostar handbook. Here are the commands I run;
wget -nc http://data.biostarhandbook.com/reads/duplicated-reads.fq.gz
wget -nc ftp://ftp.ncbi.nih.gov/refseq/release/viral/viral.2.1.genomic.fna.gz
wget -nc ftp://ftp.ncbi.nih.gov/refseq/release/viral/viral.2.protein.faa.gz
While I'm successful downloading the first (duplicated-reads), I keep getting error message on the last two, viral genomic and protein seqs. The message looks like this:
$ wget ftp://ftp.ncbi.nlm.nih.gov/refseq/release/viral/viral.2.1.genomic.fna.gz
--2024-01-02 16:46:27-- ftp://ftp.ncbi.nlm.nih.gov/refseq/release/viral/viral.2.1.genomic.fna.gz
=> 'viral.2.1.genomic.fna.gz'
Resolving ftp.ncbi.nlm.nih.gov (ftp.ncbi.nlm.nih.gov)... 130.14.250.13, 130.14.250.12, 2607:f220:41e:250::10, ...
Connecting to ftp.ncbi.nlm.nih.gov (ftp.ncbi.nlm.nih.gov)|130.14.250.13|:21... connected.
Logging in as anonymous ... Logged in!
==> SYST ... done. ==> PWD ... done.
==> TYPE I ... done. ==> CWD (1) /refseq/release/viral ... done.
==> SIZE viral.2.1.genomic.fna.gz ... done.
==> PASV ... done. ==> RETR viral.2.1.genomic.fna.gz ...
No such file 'viral.2.1.genomic.fna.gz'.
Thank you,
Mes
there is no such
viral.2.1.genomic.fna.gz
under https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/ .You should submit this error to the Biostarshandbook Issues so it can be fixed for everyone: https://github.com/biostars/biostar-handbook/issues
Run these commands instead