Question: Upload More Than 2Gb Data From Local Computer To Local Installation Of Galaxy
1
gravatar for do kadya
4.3 years ago by
do kadya130
do kadya130 wrote:
Hi, I am unable to upload more than 3 GB data from local computer to local installation of galaxy. How can I do that ? I saw many of the tutorials which says about online upload. My Galaxy is running on 127.0.0.7:8080 I tried FileZilla to upload file, but its says "Connection established, waiting for welcome message" and after some time
galaxy • 4.3k views
ADD COMMENTlink modified 2.5 years ago by xunshengbu30 • written 4.3 years ago by do kadya130
How can I create ftp for my local computer to upload data for local galaxy installation ? For current I may can use normal text upload but if I am having 10-20 GB file then I will need FTP upload. Waiting for positive reply. Hi, Error: Connection timed out Error: Could not connect to server Status: Waiting to retry... Status: Connecting to 127.0.0.1:8080... Status: Connection established, waiting for welcome message...
ADD REPLYlink written 4.3 years ago by do kadya130
1
gravatar for Bjoern Gruening
4.3 years ago by
Bjoern Gruening5.0k
Germany
Bjoern Gruening5.0k wrote:
Hi Do, If you are running a loacl instance and you are admin you can use the data library and upload or even better link your data into a data library. https://wiki.galaxyproject.org/Admin/DataLibraries/UploadingLibraryFil es Cheers, Bjoern
ADD COMMENTlink written 4.3 years ago by Bjoern Gruening5.0k
Hello, Björn is exactly right. Link the data to Galaxy as described on the wiki page he posted. If you want to run FTP server with Galaxy (it is not included by default) you have to install and configure it yourself. Here is a wikipage that will show you how to do it. https://wiki.galaxyproject.org/Admin/Config/Upload%20via%20FTP However if you plan to work with such large files on local machine you might easily end up having to wait for a loooooong time, depending on what you plan to do with it and what are specifications of the machine. Consider cloud (https://wiki.galaxyproject.org/CloudMan) or public instance ( usegalaxy.org). Martin
ADD REPLYlink written 4.3 years ago by Martin Čech ♦♦ 4.7k
1
gravatar for xunshengbu
2.5 years ago by
xunshengbu30
United States
xunshengbu30 wrote:

To upload files > 2G without FTP

1. Put files into /var/www/html or any of your web folder. 

2. Get the links to the files.  

3. Paste links to the upload tool of galaxy. Add a space after the pasted links  if the input file size is zero or none.  

4. Upload. 

ADD COMMENTlink written 2.5 years ago by xunshengbu30

this is correct, if you make your files web accessible Galaxy can fetch it herself

ADD REPLYlink written 2.5 years ago by Martin Čech ♦♦ 4.7k

Hi, could you please explain in detail how I can achieve this? I don't know what a web folder is or where to find such a thing. I'm running Windows 7. Thank you!

ADD REPLYlink modified 2.4 years ago • written 2.4 years ago by niallcello0

This solution is good only for specific cases. For uploading to remote Galaxy use FTP and for uploading to local Galaxy use Library import. Both described above.

ADD REPLYlink modified 2.4 years ago • written 2.4 years ago by Martin Čech ♦♦ 4.7k
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