Closed twang15 closed 2 years ago
This data was partially submitted by Nathan before. It has several issues:
IP submitted for the other biosample as well.
Hi Annika,
cs-58 is missing its PCR and WT control in pulsar. Do we have them anywhere else?
Best, Tao
We don’t have a PCR of this one because it was before they decided to do validation PCRs. I will contact the DCC about that.
Hi Annika,
The biosample for the library that you showed me has only one pooled_biosample, which failed the data validation on the portal.
Is there sth wrong here?
Best, Tao
2022-01-17 10:38:40,560:eu_debug: <<<<<< POST biosample record michael-snyder:pB-12110 To DCC with URL https://www.encodeproject.org/biosample and this payload:
{ "aliases": [ "michael-snyder:pB-12110", "michael-snyder:pB-GM12878 batch 1 input" ], "award": "/awards/UM1HG009442/", "biosample_ontology": "/biosample-types/cell_line_EFO_0002784/", "documents": [], "donor": "ENCDO000AAK", "lab": "michael-snyder", "nih_institutional_certification": "NIC00007", "organism": "mouse", "pooled_from": [ "ENCBS547AVR" ], "source": "eadabaf1-d5b6-4b48-8847-e86461f12101", "treatments": [] }
2022-01-17 10:38:40,747:eu_debug: Failed to POST michael-snyder:pB-12110 2022-01-17 10:38:40,749:eu_debug: <<<<<< DCC POST RESPONSE: 2022-01-17 10:38:40,751:eu_debug: { "@type": [ "ValidationFailure", "Error" ], "code": 422, "description": "Failed validation", "errors": [ { "description": "['ENCBS547AVR'] is too short", "location": "body", "name": [ "pooled_from" ] } ], "status": "error", "title": "Unprocessable Entity" }
Hi Annika,
I understand the biosample is WT and should not be pooled from any other biosamples. But, if you check https://pulsar-encode.herokuapp.com/biosamples/12110, you can see that it says:
Pooled from biosamples GM12878 batch 1 B-3036
This is why the portal complains, because it should not be pooled, right? How shall we fix this?
Best, Tao
WT control has been submitted. Annika will ask for exception of PCR.
https://pulsar-encode.herokuapp.com/chipseq_experiments/58 https://www.encodeproject.org/experiments/ENCSR057DTZ/