![]() ![]() Can’t guarantee when that’ll get done though, it could be a while - that TODO list is already pretty long! That’s an interesting idea we don’t have the resources to work on that right now but I’ll try to get that on our TODO list of improvements for the future. This will shrink that data transfer load when updating…. Would it be possible that, in the future, the resource bundle could be made accessible using rsync? Wget -no-directories -user=gsapubftp-anonymous -r $VERSION/$RESOURCE/ hg19: #!/bin/shĮcho "Downloading bundle version: "$VERSION CYBERDUCK FTP ERROR 421 DOWNLOADHere is a script that will find the latest version and download one of the resources, e.g. CYBERDUCK FTP ERROR 421 UPDATESure - just keep in mind that when we update the bundle, you’ll want to change the version number, and you might not know you need to do that unless you look at what’s in the bundle. Or to grab all the bundle/1.5/ files in unix: If you’re just using a browser and not FileZilla to download from the FTP site, you can specify the username like then you should see the bundle/ directory. I tried ftp but the cluster I’m logged in to doesn’t allow it. Hi, I was wondering if there’s a way to do this from the command line. No, the official ordering for UCSC is a little different: chrM, chr1, chr2, …, chrX, chrY – which is exactly the ordering in the fasta in our bundle. Hi Eric, does it need to be sorted in the order of 1,2,3,4,…X,Y,MT as described in the introduction? It throws an error when I ran the program.Īre you sure it’s not your bam that is mis-sorted? That seems the more likely explanation (unless you can show us otherwise)… Seems like the reference in hg19 folder is not sorted correctly. I think our confusion came from the fact that until one or two weeks ago one could access the bundle with an internet browser simply by clicking on I would recommend using a separate program like FileZilla, which will make it much easier for you to set up and manage your file transfers. Is there another way I should be doing this? Thanks! CYBERDUCK FTP ERROR 421 HOW TOI don’t know how to ask it to let me log in using a username/password. If I enter the address as, it brings up a list of directories and files (distribution/, incoming/, outgoing/, ftp, pub and welcome.msg). ![]() I’m just using Internet Explorer 8.0, which I’ve often used in the past to download components of the resource bundle. Thanks for any help.įrom Geraldine_VdAuwera on I’m not sure what you mean by “no prompt”. I also cannot find the bundle/ directory, and there is no prompt to connect using a username and password. If you connect as user `gsapubftp` (which is for uploads), you will not see the bundle. Make sure you are connecting as user `gsapubftp-anonymous` (for downloads). I also can not find the bundle/ directory. Hi Eva, there should be a `bundle/` directory right at the root of the FTP server. I have checked all the main directories on, but I cannot find the bundle anymore. This discussion was created from comments split from: How can I access the GSA public FTP server?. For latest documentation and forum click here This information is only valid until Dec 31st 2019. IMPORTANT: This is the legacy GATK Forum discussions website. ![]()
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