is there a size limit for uploading sequence files?

2.6 years ago by

Martin Čech ♦♦ 4.9k

United States

Martin Čech ♦♦ 4.9k wrote:

Upload your files using the FTP server at usegalaxy.org using your Galaxy credentials and then import the data using the upload modal.

https://wiki.galaxyproject.org/FTPUpload

ADD COMMENT • link written 2.6 years ago by Martin Čech ♦♦ 4.9k

Thanks

What is the FTP setting? I keep getting timeout problem with filezilla. If I use putty, my login just get denied.

Xiaofei

From: Martin Čech on Galaxy Biostar [mailto:notifications@biostars.org] Sent: Friday, April 29, 2016 11:46 AM To: Wang, Xiaofei Subject: [galaxy-biostar] is there a size limit for uploading sequence files?

Activity on a post you are following on Galaxy Biostarhttp://biostar.usegalaxy.org

User Martin ČechMartin Čech wrote Answer: is there a size limit for uploading sequence files?A: is there a size limit for uploading sequence files?:

Upload your files using the FTP server at usegalaxy.org using your Galaxy credentials and then import the data using the upload modal.

https://wiki.galaxyproject.org/FTPUpload

ADD REPLY • link written 2.6 years ago by xwang • 0

I was just able to FTP with Filezilla without a problem at http://usegalaxy.org.

Server: usegalaxy.org

User: same email address as used with your Galaxy account

Pass: same password as used with your Galaxy account

There is a file size limit of 50 GB for FTP. Accounts have a quota of 250 GB.

Also, make sure that passive ftp (not sftp) is used - this is the default in Filezilla, but can be modified.

Hope this helps! Jen, Galaxy team

ADD REPLY • link modified 2.6 years ago • written 2.6 years ago by Jennifer Hillman Jackson ♦ 25k

HI, Jen, I could get contact to the ftp server, but kept getting timeout message. Is it because the server is too busy?

Thanks

Xiaofei

Xiaofei Wang, Ph.D. Associate Professor Department of Biological Sciences Tennessee State University 3500 John A. Merritt blvd Nashville, TN 37209

From: Jennifer Hillman Jackson on Galaxy Biostar [mailto:notifications@biostars.org] Sent: Friday, April 29, 2016 1:31 PM To: Wang, Xiaofei xwang@Tnstate.edu Subject: [galaxy-biostar] is there a size limit for uploading sequence files?

Activity on a post you are following on Galaxy Biostarhttp://biostar.usegalaxy.org

User Jennifer Hillman JacksonJennifer Hillman Jackson wrote Comment: is there a size limit for uploading sequence files?C: is there a size limit for uploading sequence files?:

I was just able to FTP with Filezilla without a problem at http://usegalaxy.org.

Server: usegalaxy.org User: same email address as used with your Galaxy account Pass: same password as used with your Galaxy account

There is a file size limit of 50 GB for FTP. Make sure that passive ftp (not sftp) is used. This is the default in Filezilla, but can be modified.

Hope this helps! Jen, Galaxy team

ADD REPLY • link written 2.6 years ago by xwang • 0

Hi - It could be, much is going on re-processing jobs at this time. I haven't run into that problem myself, but access could still be sporadic and/or inconsistent right now. But, good news that you were able to resolve how to login.

Maybe wait an hour and try again?

Again, we are really sorry for the recent hiccups and very much appreciate your patience with it. The upgrades will be worth it.

ADD REPLY • link written 2.6 years ago by Jennifer Hillman Jackson ♦ 25k

That is not a probable cause. When are you getting timeout messages?

ADD REPLY • link written 2.6 years ago by Martin Čech ♦♦ 4.9k

Here is the a screen shot for the message. help me resolve this problem. thanks!

Xiaofei

ADD REPLY • link written 2.6 years ago by xwang • 0

I agree with Martin that there could be other reasons.

If the transfer starts, then times out at some point, this indicates an unstable or slower internet connection. (I had originally thought that this could be on our side, but that was incorrect.) But, good news, file transfer can be started up again in Filezilla when this happens. Log into the server again after the interruption then "resume transfer".
If the transfer/connection never starts up, then this likely an external internet issue that will need more work to solve. Check with your institution or internet service provider (ISP) to see if FTP transfer is permitted to http://usegalaxy.org. Certain businesses, colleges, and even countries restrict data transfer in various ways.

Your graphic did not post, so these are best guess only. Still, hope it helps! Send in the graphic and a description of events for more feedback from our team. An externally hosted URL is needed - many options for this, including public sites such as google drive and http://imgur.com/.

Jen, Galaxy team

ADD REPLY • link modified 2.6 years ago • written 2.6 years ago by Jennifer Hillman Jackson ♦ 25k

You did not post the screenshot.

ADD REPLY • link written 2.6 years ago by Martin Čech ♦♦ 4.9k

I did attached the capture, it was in PNG format. Here I attach it again, one with ONG the other with JPG

Thanks

Xiaofei

Xiaofei Wang, Ph.D. Associate Professor Department of Biological Sciences Tennessee State University 3500 John A. Merritt blvd Nashville, TN 37209

From: Martin Čech on Galaxy Biostar [mailto:notifications@biostars.org] Sent: Monday, May 2, 2016 10:47 AM To: Wang, Xiaofei xwang@Tnstate.edu Subject: [galaxy-biostar] is there a size limit for uploading sequence files?

Activity on a post you are following on Galaxy Biostarhttp://biostar.usegalaxy.org

User Martin ČechMartin Čech wrote Comment: is there a size limit for uploading sequence files?C: is there a size limit for uploading sequence files?:

You did not post the screenshot.

ADD REPLY • link written 2.6 years ago by xwang • 0

Sadly I do not think that attaching pictures when you reply to the thread via email works in Biostar :/.

You might need to visit biostar.usegalaxy.org to do that.

ADD REPLY • link written 2.6 years ago by Martin Čech ♦♦ 4.9k

Dear Martin and Jen,

We could not even logon to the usegalaxy.org FTP server, either with putty or with filezilla. Here is the thread. I am sure the password was right. I used port 22. If I use port 22, it is not even respond. Thanks. when we use filezilla, it send timeout message.

Xlogin as: xwang@tnstate.edu xwang@tnstate.edu@usegalaxy.org's password: Access denied xwang@tnstate.edu@usegalaxy.org's password:

What could be the real issue?

Thanks

Xiaofei

From: Martin Čech on Galaxy Biostar [mailto:notifications@biostars.org] Sent: Monday, May 02, 2016 12:31 PM To: Wang, Xiaofei Subject: [galaxy-biostar] is there a size limit for uploading sequence files?

Activity on a post you are following on Galaxy Biostarhttp://biostar.usegalaxy.org

User Martin ČechMartin Čech wrote Comment: is there a size limit for uploading sequence files?C: is there a size limit for uploading sequence files?:

Sadly I do not think that attaching pictures when you reply to the thread via email works in Biostar :/.

You might need to visit biostar.usegalaxy.org to do that.

ADD REPLY • link written 2.6 years ago by xwang • 0

Hi Xiaofei,

I use filezilla to upload my data that is 100GB and it works fine with the following information:

Host: main.g2.bx.psu.edu

Username: (your username)

Password: (your password)

Port: 21

Would this work? Yena

ADD REPLY • link modified 2.6 years ago • written 2.6 years ago by yena.oh • 70

host is usegalaxy.org (the old one should probably redirect you properly but please use the new one)

ADD REPLY • link written 2.6 years ago by Martin Čech ♦♦ 4.9k

We tried to connect both to usegalaxy.org and main.g2.bx.psu.edu. none of these options could let us to connect to the ftp server. Filezilla gets timeout in 20 seconds, connecting with putty got denied. The root issue appears to be login on to the ftp! We could logon to galaxy with IE browser with the username and password. Why I was denied with putty? This suggests the account setup problem?

Xiaofei

From: yena.oh on Galaxy Biostar [mailto:notifications@biostars.org] Sent: Wednesday, May 04, 2016 1:12 PM To: Wang, Xiaofei Subject: [galaxy-biostar] is there a size limit for uploading sequence files?

Activity on a post you are following on Galaxy Biostarhttp://biostar.usegalaxy.org

User yena.ohyena.oh wrote Comment: is there a size limit for uploading sequence files?C: is there a size limit for uploading sequence files?:

Hi Xiaofei,

I use filezilla to upload my data that is 100GB and it works fine with the following information:

Server: main.g2.bx.psu.edu Username: (your username) Password: (your password) Port: 21

Would this work? Yena

ADD REPLY • link written 2.6 years ago by xwang • 0

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