Question: CuffDiff not working with CXB files
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Mark Lindsay • 70 wrote:
Hi
when attempting to run CuffDiff with Cuffquant files, all the conditions end up loading condition 2 i.e. if you select CXB files with condition 1 and 2, condition 1 defaults to condition 2 so you end up comparing condition 2 and 2.
Hopefully this makes sense!!!
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modified 5 months ago
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Jennifer Hillman Jackson ♦ 25k
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written
6 months ago by
Mark Lindsay • 70
Hi - I've seen similar behavior with other tools with multiple-select inputs over the last week. I haven't run into it today. I'll do some more testing and open a ticket for the developers to review/fix. Because of this, I don't think the problem is with
cxbdata, but I'll test that too.Meanwhile, I had success before even with this problem going on by rerunning the job (actually using the rerun button), choosing the inputs again, and executing the job. In some cases, it took a few attempts. You can always permanently delete the jobs that didn't capture all the inputs - you can usually tell even while the job is queued by the dataset name (includes a list of the inputs by dataset number). Only so many datasets can be listed, so this is of limited use if there are several inputs (more than 3 or 4), but might help.
Thanks for reporting this and more feedback very soon. Jen, Galaxy team