Question: Unable to download bam index file
gravatar for cynthiak14
23 months ago by
cynthiak1410 wrote:

I have analysed my RNA seq data using TopHat tool under the NGS- RNA seq analysis heading. After the completion of analysis I downloaded the bam dataset but I was unable to download bam index file. Upon clicking on download bam_index, this page is opening :

The page isn’t working is currently unable to handle this request. HTTP ERROR 500

Also as I tried to view the file on display with IGV local, display with IGB view and display at , The following error is appearing :


There was a conflict when trying to complete your request. Error generating display_link: type object 'Bam' has no attribute 'name'

Please help in resolving this issue.

rna-seq tophat bam • 831 views
ADD COMMENTlink modified 22 months ago by Jennifer Hillman Jackson25k • written 23 months ago by cynthiak1410
gravatar for Jennifer Hillman Jackson
22 months ago by
United States
Jennifer Hillman Jackson25k wrote:


Issues with BAM indexes is a known problem with certain datasets. Please try resetting the metadata on the BAM dataset. This has resolved the problem for myself and others.

How to:

  • Click on the pencil icon on the top right of the dataset to reach the Edit Attributes form
  • On the first tab, click on the link "Auto-detect"
  • Allow this process to complete, then try downstream tools that use this dataset as an input (including downloading the BAM index)

Thanks, Jen, Galaxy team

ADD COMMENTlink written 22 months ago by Jennifer Hillman Jackson25k
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