Question: Error: No Space left on device
1
gravatar for aropri
9 days ago by
aropri10
aropri10 wrote:

Hi guys,

I am trying to download RNA seq using fastq dump. The reads are paired end reads so I am also splitting them. When I try to download the 24 files, the sra cache for each file is also being downloaded in the home directory where I only 13 gb of space. The first couple of files download in the directory where I have 10TB of space but their .sra.cache files download in my home directory and it fills up space quickly and once it reaches the 13 gb, the rest of the files download but I get the error "No space left on device". I am wondering even though I see the files I downloaded, is something wrong with them or are they fine and why do I keep getting the error? Appreciate any help. Thank you.

rna-seq • 92 views
ADD COMMENTlink modified 9 days ago by genomax91k • written 9 days ago by aropri10
2
gravatar for genomax
9 days ago by
genomax91k
United States
genomax91k wrote:

Did you run the vdb-config -i to designate a location where SRA files are downloaded? Additional help at: https://github.com/ncbi/sra-tools/wiki/03.-Quick-Toolkit-Configuration

ADD COMMENTlink written 9 days ago by genomax91k

Did not try this, trying it now, will let you know soon. Thank you.

ADD REPLYlink written 9 days ago by aropri10

Tried changing the path, but gives a permission error now, "Directory unauthorized while creating directory within file system module" Hope someone can help

ADD REPLYlink written 9 days ago by aropri10

No one can help with that specific error if you don't have write permissions to the directory you are trying to choose. You may need to talk with your admins in that case.

ADD REPLYlink written 9 days ago by genomax91k

I tried it again running it in the directory I wanted to save it in and I think it works now. Thank you

ADD REPLYlink written 9 days ago by aropri10
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