Question: Dataset attributes recently messed up?
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jcs92 • 30 wrote:
Hi,
There was an update on Wednesday, and immediately afterwards I've had problems with datasets. It seems that the "edit dataset" tool now mandates filling in fields that don't exist. For example, Refseq gene lists that don't have a field for "visualization." Unless I fill in all fields, whenever I save I get this error: "Error occured while saving. Please fill all the required fields and try again."
Furthermore, simple operations like intersects, which works right before the update, didn't work immediately after.
Any ideas?
Hi, I'm experiencing the same problem with changes in attributes. Intersect genomic intervals is working for me. Just to add more information,
Hope this gets fixed soon!
Raquel
Yes, there have been changes to reflect the upgrade to Galaxy release 17.09 (pending).
Is this working for you now (resolved the problem with metadata updates)? You could also share a sample of the dataset file and assigned datatype if still having problems.
Intersect genomic intervals requires at least a chrom, start, end, and strand column for an
intervalformat dataset as input.Yes, there have been changes to reflect the upgrade to Galaxy release 17.09 (pending).
What datatype is your Refseq gene list assign to? Maybe a different datatype would be a better choice?
tabularwould define just a column list of IDs (one or more)If the dataset is assigned as
bedthen it needs to conform tobedformat. The "score" would be the 5th column of data.intervalformat has more flexible column ordering in general, but certain tools that acceptintervalformat still do require strictbedcolumn ordering.Datatypes: https://galaxyproject.org/learn/datatypes/
If you cannot figure it out and want to share a sample of your file, the currently assigned datatype, and the tool you want to use it with, that would help to troubleshoot. If there is a problem, we want to review and fix if needed.