Question: No space left on device
3
gravatar for jayarajvijayakumaran
23 months ago by
Malaysia
jayarajvijayakumaran30 wrote:

I keep on getting this message and I have been unable to upload files using filezila:

STOR PandaMetagenomeF1.fastq
Response:    150 Opening BINARY mode data connection for PandaMetagenomeF1.fastq
Response:    452 Transfer aborted. No space left on device
Error:    File transfer failed after transferring 29,360,128 bytes in 34 seconds
Status:    Starting upload of C:\Users\Owner-PC\Desktop\PandaMetagenomeF1.fastq
Status:    Retrieving directory listing of "/"...

Is there a solution to this issue?

software error ftp galaxy • 1.9k views
ADD COMMENTlink modified 23 months ago by Nate Coraor3.1k • written 23 months ago by jayarajvijayakumaran30
1

What server are you trying to upload to?

ADD REPLYlink written 23 months ago by Martin Čech ♦♦ 4.2k

This one: https://usegalaxy.org/

ADD REPLYlink modified 23 months ago by Martin Čech ♦♦ 4.2k • written 23 months ago by jayarajvijayakumaran30
1

I have just uploaded 200MB and did not find a problem. How much space are you using there?

ADD REPLYlink written 23 months ago by Martin Čech ♦♦ 4.2k

I have used up 31% of 250G available, and the file is around 3.8G....did you use filezilla? I managed to upload a 2G file earlier but it was gunzipped so I had to delete it.......

ADD REPLYlink written 23 months ago by jayarajvijayakumaran30
3
gravatar for skasowitz
23 months ago by
skasowitz70
skasowitz70 wrote:

Some Tophat mapping jobs I had started about 4 hours ago all began failing over the past hour with various errors. They had all finished mapping left and right sequences. Some other jobs in the queue then failed to begin returning "No space left on device" errors. I encountered a similar problem as jayarajvijayakumaran when trying to upload a fastq file, although I was using the web interface.

ADD COMMENTlink written 23 months ago by skasowitz70
1

Thank for chiming in, we will investigate.

ADD REPLYlink written 23 months ago by Martin Čech ♦♦ 4.2k

I have tried using WinSCP, the same thing happens....

the error box

Copying files to remote side failed.
Transfer aborted. No space left on device

 

ADD REPLYlink written 23 months ago by jayarajvijayakumaran30

I was able to upload several files by through the web interface yesterday at around 18:30 UTC. [edit: All files were compressed fastq files in the range of 1.5-2.0GB compressed.] No jobs seem able to start up beyond this, regardless of data quota. I have no retried the mapping that originally generated errors yesterday, however fastq QC tools such as sequence grooming have been invariably failing to start since yesterday. Typical error is:
 

Traceback (most recent call last):
  File "/galaxy-repl/instances/main/server/lib/galaxy/jobs/runners/drmaa.py", line 150, in queue_job
    self.write_executable_script( ajs.job_file, script )
  File "/galaxy-repl/instances/main/server/lib/galaxy/jobs/runners/__init__.py", line 316, in write_executable_script
    f.write( contents )
IOError: [Errno 28] No space left on device
ADD REPLYlink modified 23 months ago • written 23 months ago by skasowitz70
2
gravatar for Nate Coraor
23 months ago by
Nate Coraor3.1k
United States
Nate Coraor3.1k wrote:

Hi all,

Our storage system was reporting intermittent "No space left on device" errors until about 2 hours ago. However, these have stopped. If you continue to encounter the error, please respond to let us know and I'll pass it on to the storage support group.

--nate

ADD COMMENTlink written 23 months ago by Nate Coraor3.1k

Thanks for the update! I have started some QC jobs and will try mapping again tonight. Everything looks good so far (no immediate errors).

ADD REPLYlink written 23 months ago by skasowitz70
1
gravatar for olivier.buhard
23 months ago by
France
olivier.buhard10 wrote:
Hi,

I have the same problems wathever the analysis or operation I try to submit to the server I'm on usegalaxy.org).

I first thought I was doing something wrong with tophat on my datasets but I could not complete any work on some samples datasets provided in the tutos or even have a FastQC working correctly.

View details give the same kind of output as reported by skasowitz:

Traceback (most recent call last):
  File "/galaxy-repl/instances/main/server/lib/galaxy/jobs/runners/drmaa.py", line 150, in queue_job
    self.write_executable_script( ajs.job_file, script )
  File "/galaxy-repl/instances/main/server/lib/galaxy/jobs/runners/__init__.py", line 316, in write_executable_script
    f.write( contents )
IOError: [Errno 28] No space left on device

I use 84 GB on the 250GB available.

ADD COMMENTlink written 23 months ago by olivier.buhard10
1
gravatar for yewenduo
23 months ago by
yewenduo60
United States
yewenduo60 wrote:

I have having the same problem!!!!!!

ADD COMMENTlink written 23 months ago by yewenduo60
1
gravatar for rexhuangzhen
23 months ago by
rexhuangzhen10
rexhuangzhen10 wrote:

Me too!                                        

ADD COMMENTlink written 23 months ago by rexhuangzhen10
1
gravatar for Santagostino Marco
23 months ago by
Santagostino Marco50 wrote:

Me too!

No matter which tool I use.

ADD COMMENTlink modified 23 months ago • written 23 months ago by Santagostino Marco50
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