As the tittle of the post says, I need to download all the isolates of SARS-COV-2 from GISAID database... I've been searching for a way to download the whole data but I wasn't able to find out how to do it or if its possible to! Currently I am downloading one by one, but there are more than 700 entries... I hope someone could help...
Thanks in advance!
Thanks Istvan! I found the button that donwloads an Excel file, but I did not find the other one... Thanks a lot for your answer! I will keep looking for a way to do it!
I also did not find the 'link' for sequences. I sent a help message to through the website. waiting for the reply. one month ago, I choose the most "STUPID" way to download the sequences one-by-one (~200 records). I will not do it anymore (1k+ records up-to-date!)
I looked up my records, I complained profusely about this issue more than a month ago, on February 13th, 2020, their "support" personnel sent me the image below as the method for downloading all data at once. Indeed the button was there but in an awkward region, all the way at the bottom left of the page that I've not noticed before.
After pointing out how absurd the whole system is they removed my account and I've not been able to log in.
Does this button not exist anymore?
No Download button there, I checked it again.
Cannot believe they REMOVED your account. I just sent them a message about download issue, hope they will not be very __angry__ about it!
Thanks GISAID, I listen a call from the GISAID website. And I received the whole FASTA sequences in one-file. They make the batch download available for me (Button on Bottom right of the page). I was told DO NOT share the data with anyone else, I need to be responsible for the data.
What I did is click the "Contact" button, and ask for help. Hope it will helps. @dgarcia54, you need do it yourself.
After attempting to batch download they removed my account as well with no notice. Not sure how to move forward from this point.
I would contact the GISAID website maintainer through the "Contact" page.
What you mean "batch download". through the "Download button", or you use a script to parse the website. How long you found your account was removed after batch download?
The 'Download button' didn't exist at the point I was trying to download so I mean using a script I found on github (that had apparently previouosly successfully accomplished such multiple downloads from the page) to parse the website. I wasn't able to get the script to work on my machine through, but it was approximately 8hours of me attempting to get it to work before I found my account was no longer accessible.
I known, thanks for your reply.
I do think it is not a good idea using a "spider" to parse the website, this is the main reason your account was banned.
You may keep trying to contact the maintainer, and do not break their rules.
I am unable to get this from the site.There is no download option for this ,only acknowledgement table is there.
To my experience, I sent the website maintainer a message through "contact" on the top-right of the page. They will activate the "download" button for you.
Thanks,I also have msged them by contact,but nothing updated till now.
Why this is so that this feature is activated for some users and not for all?I am not able to figure out this.
I'm not sure what is going on with that website. I received access this morning. Using my desktop computer, I could not find the download button anywhere on the page. I logged into GISAID from my laptop and the button was magically there - same browser version, same version of Windows.