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Unable to parse FCS files within the workspace #334
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The error indicates that the gating scheme in the workspace has an ellipse gate whose coordinates cross 0, and is likely truncated in the workspace. flowJo to gatingset tries to deal with this by extending the coordinates of gates truncated on the boundary by extending them in the negative direction in order capture all the cells they are intended to capture. |
Thank you so much, after setting extend_val = -14000 it worked. |
With latest patch from cytolib RGLab/cytolib@88b3887 |
Hello,
I am trying to parse the fcs files within a flowjo workspace. I am getting the following error. Can you please guide me how to solve this
Parsing 1 samples
windows version of flowJo workspace recognized.
version X
Creating flowSet...
loading data: /home/ppremraj/projects/cell-bio-flow-autogate/Specimen_002_D1_D01_030.fcs
Compensating
gating ...
Error in .cpp_gating(gs@pointer, mat, guid, gains, nodeInd, recompute, :
try to extend the coordinates for ellipse gate!
In addition: Warning message:
In .parse.pData(obj = obj, keywords = keywords, sg = sg, keywords.source = keywords.source, :
Can't find the FCS files for the following samples:
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