Skip to content

Open a set of FCS files without a .wsp file? #37

Open
@tlnagy

Description

Cool project! I was wondering if it was possible to open a folder with .fcs files without a .wsp file?

Something like:

julia> readdir()
5-element Vector{String}:
 "Specimen_001_1 BFP_002.fcs"
 "Specimen_001_1 CTL_001.fcs"
 "Specimen_001_2 BFP_004.fcs"
 "Specimen_001_2 CTL_003.fcs"

julia> FlowAtlas.run(""; files = "*.fcs")
[ Info: Loading FCS files...
ERROR: AssertionError: no such file: 
Stacktrace:
 [1] load(path::String; files::String, cols::Symbol, kwargs::@Kwargs{})
   @ FlowWorkspace ~/.julia/packages/FlowWorkspace/8HLjp/src/Utils.jl:32
 [2] load
   @ ~/.julia/packages/FlowWorkspace/8HLjp/src/Utils.jl:30 [inlined]
 [3] run(path::String; files::String, port::Int64, url::String, cols::Symbol, drop::Vector{…}, nlevels::Int64, nbins::Int64, heatmapQuantileEdge::Float64, violinQuantileEdge::Float64, channelScheme::ColorSchemes.ColorScheme{…}, labelScheme::ColorSchemes.ColorScheme{…}, hold::Bool)
   @ FlowAtlas ~/.julia/packages/FlowAtlas/yxybS/src/FlowAtlas.jl:65
 [4] top-level scope
   @ REPL[22]:1
Some type information was truncated. Use `show(err)` to see complete types.

My package environment on Julia 1.10:

(jl_TZ3iwY) pkg> st
Status `/tmp/jl_TZ3iwY/Project.toml`
  [ef7debb3] FlowAtlas v0.1.13

I would love to use this tool to visualize my populations and draw gates, but I understand if that's out of the scope of this project.

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions