Open KammannT opened 1 year ago
What if you choose second group?i.e. name=2
What if you choose second group?i.e.
name=2
Gives exactly the same error: _"Error in (function (ws, group_id, subset, execute, path, cytoset, backenddir, : colname not found: Comp-BV605-CD161"
Hi, I am struggling to parse a flowjo.wsp file containing all the compensation and gating for my fcs files.
library(CytoML)
fcs_dir <- 'PathtoFolderoffcsfiles'
wsp_file <- 'PathtoFlowjowspfile'
flow <- CytoML::open_flowjo_xml(wsp_file)
The workspace can be loaded and indicates number of samples, groups, keywords, etc.
test <-CytoML::flow_to_gatingset(flow, path=fcs_dir, name=1)
line above gives the error: "Error in (function (ws, group_id, subset, execute, path, cytoset, backend_dir, : colname not found: Comp-BV605-CD161"
Loading a .xml file of the same Flowjo workspace (instead of .wsp) gives a different error but can however save the file:
xml_file <- 'PathtoFlowjoxmlfile'
flow2 <- CytoML::open_flowjo_xml(xml_file)
Error message: ^namespace error: Namespace prefix data-type on fas-dimension is not defined <data-type:fcs-dimension data-type:name="Comp-BUV737-CD69"^
test2 <-CytoML::flow_to_gatingset(flow2, path=fcs_dir, name=1)
line above gives the error: Error in (function (ws, group_id, subset, execute, path, cytoset, backend_dir, : *: unknown tranformation type!transforms:linear
Support is very much appreciated! Thanks