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According to the documentation, one or both of Hugo_Symbol, Entrez_Gene_Id can be specified.
Hugo_Symbol
Entrez_Gene_Id
However, if you miss Entrez_Gene_Id the loader will produce a warning per each row in the CNA data file.
Warnings / Errors: ------------------- 0. Ignoring line with invalid Entrez_Id NA; 20x
Despite the message, records get loaded to the database:
-> records inserted into `sample_cna_event` table: 1720
Expected behavior: The loader won't show a warning when there is no Entrez_Gene_Id column specified.
The issue in the code: If there is no entrez id column, entrezAsString will be assigned to "NA" here The warning gets generated few lines below here
entrezAsString
"NA"
Proposed solution: check entrezAsString for NA and return 0 without warning in this case.
NA
0
The text was updated successfully, but these errors were encountered:
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According to the documentation, one or both of
Hugo_Symbol
,Entrez_Gene_Id
can be specified.However, if you miss
Entrez_Gene_Id
the loader will produce a warning per each row in the CNA data file.Despite the message, records get loaded to the database:
Expected behavior: The loader won't show a warning when there is no
Entrez_Gene_Id
column specified.The issue in the code:
If there is no entrez id column,
entrezAsString
will be assigned to"NA"
hereThe warning gets generated few lines below here
Proposed solution: check
entrezAsString
forNA
and return0
without warning in this case.The text was updated successfully, but these errors were encountered: