Errors with miic()

[bellenger-l]

Hello,

I installed your package from the cran and I tried to test it thanks to the documentation of the miic function but for each dataset I have an error.

For the first one I ran :

library(miic)
# EXAMPLE HEMATOPOIESIS
data(hematoData)
# execute MIIC (reconstruct graph)
miic.res = miic(inputData = hematoData, latent = TRUE,
confidenceShuffle = 10, confidenceThreshold = 0.001)
# plot graph
miic.plot(miic.res)

but I get :

Error in if (tmp_pval[r, "confidence_ratio"] < confidenceThreshold) { : 
  missing value where TRUE/FALSE needed

And when I tried to run commands for the second dataset as following

# EXAMPLE CANCER
data(cosmicCancer)
data(cosmicCancer_stateOrder)
# execute MIIC (reconstruct graph)
miic.res = miic(inputData = cosmicCancer, categoryOrder = cosmicCancer_stateOrder, latent = TRUE,
confidenceShuffle = 100, confidenceThreshold = 0.001)

I get :

Error in matrix(res1, nrow = length(res$edges) - 1, byrow = T) : 
  'data' must be of a vector type, was 'NULL'

What am I doing wrong ?

here my session info :

R version 3.4.2 (2017-09-28)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 16.04.3 LTS

Matrix products: default
BLAS: /usr/lib/openblas-base/libblas.so.3
LAPACK: /usr/lib/libopenblasp-r0.2.18.so

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8       
 [4] LC_COLLATE=en_US.UTF-8     LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                  LC_ADDRESS=C              
[10] LC_TELEPHONE=C             LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] miic_1.0.3

loaded via a namespace (and not attached):
[1] MASS_7.3-50    compiler_3.4.2 tools_3.4.2    yaml_2.2.0     Rcpp_0.12.18  

Best,
Léa

[bellenger-l]

@miicTeam It is apparently working on R=3.5 but I'm working on a Rstudio server which is using R=3.4.2 can you help me, make this package work on 3.4 ?

Hello,
sorry for the late response. We think we have fixed the problem of the R package and the following command should run properly:
miic.res = miic(inputData = hematoData, latent = TRUE, confidenceShuffle = 10, confidenceThreshold = 0.001)
We added the R package, version 1.0.4 to this github, we will make the update to CRAN as soon as possible. Please tell us if you encounter other difficulties.