Question: Error On Indel Analysis
gravatar for Evan Schwab
7.7 years ago by
Evan Schwab60
Evan Schwab60 wrote:
Hi, I am receiving the following error when I try to run the Indel Analysis tool on a sam file. I kept the Frequency threshold at the default 0.015. Traceback (most recent call last): File "/galaxy/home/g2main/galaxy_main/tools/indels/", line 227, in if __name__=="__main__": __main__() File "/galaxy/home/g2main/galaxy_main/tools/indels/", line 84, in __main__ add_to_mis_matches( mis_matches[ chrom ], pos, bases ) File "/galaxy/home/g2main/galaxy_main/tools/indels/", line 34, in add_to_mis_matches mis_matches[ pos + j ] = { base: 1 } MemoryError Prior to that I tried with Frequency threshold 0.0 and it ran for days on end without any results. And I've tried Frequency threshold of 0.10 and it gave and error that said "Killed" with no explaination. Is there an error with the tool? Thanks Evan -- Evan Schwab Research Associate Megason Lab Department of Systems Biology Harvard Medical School 200 Longwood Ave Boston, MA 02115 908-938-3779
galaxy • 792 views
ADD COMMENTlink modified 7.7 years ago by Jennifer Hillman Jackson25k • written 7.7 years ago by Evan Schwab60
gravatar for Jennifer Hillman Jackson
7.7 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Evan, This may have been a temporary memory problem. Have you been able to run the tool again with the default parameters successfully? If not, please share a history link ("Options -> Share or Publish) in an email directly to me to keep your data private. Hopefully this is resolved, but if not we can take a look at the issue, Best, Jen Galaxy team -- Jennifer Jackson
ADD COMMENTlink written 7.7 years ago by Jennifer Hillman Jackson25k
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