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Old 08-15-2016, 06:07 AM   #1
vivi7
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Location: Aarhus, Denmark

Join Date: Mar 2014
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Default Unknown error with Stampy

Hi all,

I am trying to do some paired-end mapping to a genome with Stampy, and I get an error that I don't manage to find any information about:


[b085841@stacks_vs02 stampy-1.0.23]$ python2.7 ./stampy.py -g Genome -h HT --substitutionrate=0.15 -t 19 -M ./B_Clean.merged.1.fq ./B_Clean.merged.2.fq > ./B_Mapped_09.08

​Stampy: Mapping...

stampy: Error: [Errno 121] Remote I/O error​

I was running several analyses and they crashed after more than a week that they were running, if I try to restart the runs they crash almost immediately now.
I have tried to search for similar issues online and here on SEQanswers but I don't seem to find any information about what is the problem.

Have you ever seen such problem before? Any input, if possible, will be greatly appreciated.

Thanks in advance
Virginia
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Old 08-15-2016, 06:44 AM   #2
dpryan
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Location: Freiburg, Germany

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Default

Are the files hosted on a different server? The error suggests that it's a file sharing issue and has nothing to do with stampy.
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Old 08-16-2016, 01:46 AM   #3
vivi7
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Location: Aarhus, Denmark

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Default Thanks!

Quote:
Originally Posted by dpryan View Post
Are the files hosted on a different server? The error suggests that it's a file sharing issue and has nothing to do with stampy.
Thank you very much!
It turned out that several servers shared an area on a filer that wasn't working... so now we can solve the problem (hopefully)!
Thanks super much for the help!!!!
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