Hi, I’m having some trouble with RNA-seq data upload. I’m uploading it from HPC Create at KCL, but get this error after first sample upload:
Traceback (most recent call last):
File "/rds/prj/ppn_comp_analysis_rnp/users/luka.gnidovec/20241216_Flpin_3seq/flow_upload_3seq-DemuxSamples.py", line 24, in <module>
sampleFlow = client.upload_sample(
File "/users/k2371247/.local/lib/python3.9/site-packages/flowbio/upload.py", line 102, in upload_sample
return self.sample(sample_id)
File "/users/k2371247/.local/lib/python3.9/site-packages/flowbio/samples.py", line 13, in sample
return self.execute(SAMPLE, variables={"id": id})["data"]["sample"]
File "/users/k2371247/.local/lib/python3.9/site-packages/flowbio/client.py", line 27, in execute
raise GraphQlError(resp["errors"])
flowbio.client.GraphQlError: [{'message': 'Cannot query field "type" on type "SampleType".', 'locations': [{'line': 3, 'column': 33}]}]
It does seem to upload the first sample’s read 1 to flow, but then it terminates.
In my upload code, I do specify the category as RNA-Seq. But on flow, the type of the uploaded read 1 is not set. Not sure if this is relevant or not.
Thanks in advance!
Luka