Hi, I've saved a wsp workspace in flowjo X that I'm attempting to import into R using opencyto using this code below.  The files are from a ZE5 analyzer.

flowDataPath <- getwd()
wsfile <- list.files(flowDataPath, pattern="FJ.wsp",full = TRUE)
ws <- openWorkspace(wsfile)
gs <- parseWorkspace(ws, name=1, isNcdf = TRUE)

But I get an error during parseWorkspace:

loading data: E:/17cy1713_TSK_96wellSet/TestFiles/G1.fcs
Compensating
gating ...
Error in .cpp_gating(gs@pointer, mat, guid, gains, nodeInd, recompute,  : 
  FL03-A not found in flowData!

​If I load in one of these files and check parameter names like this below, I can see that FL03-A is indeed one of the parameters present, also the files in my wd are the same as those used in the flowjo workspace.

> myframe@parameters@data
       name               desc      range minRange   maxRange
$P1      T0               TLSW 2147483647        0 2147483646
$P2      T1               TMSW 2147483647        0 2147483646
$P3    INFO         Event Info 2147483647        0 2147483646
$P4  FS00-H       FSC 488/10-H 2147483647        0 2147483646
$P5  FS00-A       FSC 488/10-A 2147483647        0 2147483646
$P6  FS00-W       FSC 488/10-W 2147483647        0 2147483646
$P7  FS01-H FSC 405/10 (spd)-H 2147483647        0 2147483646
$P8  FS01-A FSC 405/10 (spd)-A 2147483647        0 2147483646
$P9  FS01-W FSC 405/10 (spd)-W 2147483647        0 2147483646
$P10 SS02-H       SSC 488/10-H 2147483647        0 2147483646
$P11 SS02-A       SSC 488/10-A 2147483647        0 2147483646
$P12 SS02-W       SSC 488/10-W 2147483647        0 2147483646
$P13 FL03-H            Donor-H 2147483647        0 2147483646
$P14 FL03-A            Donor-A 2147483647        0 2147483646
$P15 FL03-W            Donor-W 2147483647        0 2147483646
$P16 FL04-H             FRET-H 2147483647        0 2147483646
$P17 FL04-A             FRET-A 2147483647        0 2147483646
$P18 FL04-W             FRET-W 2147483647        0 2147483646
$P19 FL10-H         Acceptor-H 2147483647        0 2147483646
$P20 FL10-A         Acceptor-A 2147483647        0 2147483646
$P21 FL10-W         Acceptor-W 2147483647        0 2147483646
$P22 FL13-H      AcceptorAlt-H 2147483647        0 2147483646
$P23 FL13-A      AcceptorAlt-A 2147483647        0 2147483646
$P24 FL13-W      AcceptorAlt-W 2147483647        0 2147483646
$P25 FL17-H           460/22-H 2147483647        0 2147483646
$P26 FL17-A           460/22-A 2147483647        0 2147483646
$P27 FL17-W           460/22-W 2147483647        0 2147483646
$P28   TIME               TIME 2147483647        0 2147483646

Am I making a mistake somewhere, or is there an issue with how opencyto is dealing with either my workspace or ZE5 fcs files?

Thanks.

> sessionInfo()
R version 3.3.3 (2017-03-06)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)

locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                           LC_TIME=English_United States.1252    

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

other attached packages:
[1] openCyto_1.12.1           flowWorkspace_3.20.5      ncdfFlow_2.20.2           BH_1.65.0-1               RcppArmadillo_0.8.100.1.0
[6] flowCore_1.40.6           BiocInstaller_1.24.0      flowClust_3.12.2         

loaded via a namespace (and not attached):
Error in x[["Version"]] : subscript out of bounds
In addition: Warning message:
In FUN(X[[i]], ...) :
  DESCRIPTION file of package 'Rcpp' is missing or broken

This typically indicates that gate in xml was referring to the raw dimension name 'FL03-A', which is no longer present in the compensated flow data (flowJo adds prefix after compensation, i.e. <FL03-A> or comp-FL03-A).

So double check your xml workspace and make sure the gates are defined on the correct dimensions.

Can the problem be solved? I also get the error during parseWorkspace? Any questions?