Question: bam indices fail to download
1
gravatar for carson.miller
2.2 years ago by
United States
carson.miller10 wrote:

I've recently run a workflow that includes Tophat on several datasets. I can download the resulting mapped and unmapped reads .bam files. However, in many if not all cases, I cannot download the associated index files. Instead, I get a blue screen that says "Internal Server Error," and a guru meditation number-- for example:

GURU MEDITATION: #46dcd60c37954effa0282df3d4fb2663

This error happens for multiple files and has not gone away overnight. Can you suggest how I can get my .bai files, please? I think I can use Edit Attributes --> Convert Format --> Bam to Bai, but this has not been necessary in the past.

Thanks!

workflow tophat bam index • 621 views
ADD COMMENTlink modified 2.2 years ago • written 2.2 years ago by carson.miller10
0
gravatar for Jennifer Hillman Jackson
2.2 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Please try this again - I cannot reproduce the error but do see that it was problematic for a few users.

If it is still happening, please generate a shared history link, email that plus a link to this Biostars post and the dataset number to galaxy-bugs@lists.galaxyproject.org. Please make sure the dataset is undeleted. We can test from there.

How to share (use the first button on the form to generate a private link): https://wiki.galaxyproject.org/Learn/Share

I'll post back here if a persistent problem, after testing, with an issue ticket unless our team can resolve it first.

Thanks, Jen, Galaxy team

ADD COMMENTlink written 2.2 years ago by Jennifer Hillman Jackson25k

(post edited after submission)

ADD REPLYlink modified 2.2 years ago • written 2.2 years ago by carson.miller10
0
gravatar for carson.miller
2.2 years ago by
United States
carson.miller10 wrote:

I can't seem to generate a link that doesn't post here publicly.

** edit: solved.

ADD COMMENTlink modified 2.2 years ago • written 2.2 years ago by carson.miller10

I see your bug report. Feedback soon! Jen

ADD REPLYlink written 2.2 years ago by Jennifer Hillman Jackson25k
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