Question: Errors Trying to Fetch Reference Genome
0
gravatar for qspencer
2.6 years ago by
qspencer • 0
United States
qspencer • 0 wrote:

I am running Galaxy in AWS. I followed the instructions here to install it. I am trying to fetch a reference genome that I copied to the system Galaxy is running on. It says "fetching" next to "Reference Genome" on the admin page for "Local data" but it never seems to finish. When I looked at the log for the "Galaxy" service in the Cloudman admin page I see lots of errors like this:

error: [Errno 32] Broken pipe
----------------------------------------
127.0.0.1 - - [10/May/2016:16:04:00 +0000] "GET / HTTP/1.1" 200 - "-" "Python-urllib/2.7"
----------------------------------------
Exception happened during processing of request from ('127.0.0.1', 36143)
Traceback (most recent call last):
  File "/mnt/galaxy/galaxy-app/eggs/Paste-1.7.5.1-py2.7.egg/paste/httpserver.py", line 1068, in process_request_in_thread

Any thoughts on what the problem might be would be appreciated.

software error • 682 views
ADD COMMENT • link • modified 2.6 years ago by Jennifer Hillman Jackson ♦ 25k • written 2.6 years ago by qspencer • 0
0
gravatar for Enis Afgan
2.6 years ago by
Enis Afgan • 690
United States
Enis Afgan • 690 wrote:

Adding a new genome via a Galaxy Data Manager will create a new history and the process can be monitored there. If there's an error, it will show up under a corresponding history dataset.

BTW, the Broken pipe errors you are seeing are unrelated and do no affect the functionality of the Data Managers (or Galaxy).

ADD COMMENT • link written 2.6 years ago by Enis Afgan • 690
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