checkInputs Warning clarification

[Jennifer-Foltz]

Good afternoon,

Thank you so much for the detailed vignettes and papers for using CoGAPS. We are really finding it beneficial to our research. We are running CoGAPS using the Seurat Wrapper and find that we are getting this warning message:

3: In checkInputs(data, uncertainty, allParams) :
  running distributed cogaps without mtx/tsv/csv/gct data

after running:
results <- RunCoGAPS(object, nPatterns = 25, nIterations = 100000, outputFrequency = 5000, sparseOptimization = TRUE, nThreads = 4, distributed = "genome-wide", singleCell = TRUE, seed = 891)

if we change the above code to add temp.file=TRUE into RunCoGAPS() the message goes away. Upon searching, I found this is part of checkInputs

Does this warning message affect the output of the function? What is the purpose of the temp.file?

Thank you for your time and consideration!