Entering edit mode
2.5 years ago
pomodoro_sinensis ▴ 90
I have been getting the following message throughout the whole day today whenever I try to wget anything from the SRA:
% wget ftp://ftp.sra.ebi.ac.uk/vol1/run/SRR638/SRR6389864/possorted_genome_bam.bam --2020-11-18 16:17:10-- ftp://ftp.sra.ebi.ac.uk/vol1/run/SRR638/SRR6389864/possorted_genome_bam.bam => ‘possorted_genome_bam.bam’ Resolving ftp.sra.ebi.ac.uk... 188.8.131.52 Connecting to ftp.sra.ebi.ac.uk|184.108.40.206|:21... connected. Logging in as anonymous ... Logged in! ==> SYST ... done. ==> PWD ... done. ==> TYPE I ... done. ==> CWD (1) /vol1/run/SRR638/SRR6389864 ... done. ==> SIZE possorted_genome_bam.bam ... done. ==> PASV ... done. ==> RETR possorted_genome_bam.bam ... done. possorted_genome_bam [ <=> ] 0 --.-KB/s in 0s 2020-11-18 16:17:12 (0.00 B/s) - ‘possorted_genome_bam.bam’ saved 
I have tried with links that I have used before and know that work, but I get the same error messages. Here are two examples of links so that you can try to reproduce my issue:
Am I having issues in my machine or are the servers for the SRA misbehaving today?
Thanks a lot!!
It may the problem with your network: Downloading in the PC
If I click on the links they seem to be working.
This is so strange. They don't work in my computer. And when I try to download it from an external server (using Google colab) it doesn't work either... Could you try wget and see if you get anything different?
I just checked in two other computers. It looks like they download but they are all empty files... I guess there might be a server issue...
I also have the same problem, does it mean that this is a problem from ebi server?
Yes, I have had intermittent problems for the past 2 weeks when downloading via
wgetonto a machine in Germany.
It looks like the data is available in link ftp://ftp.sra.ebi.ac.uk/vol1/run/SRR124/SRR12492134/ when we use browser