Hi, It's the first time i write a mail to this mailing list. I hope my spelled langage will be as good enough. I have a problem with a function: I use the flowCore library to read some FCS files (through read.FCS()). With some FCS file, it's work perfectly. But for some other FCS files: > f.FCS=read.FCS("FCSfile.fcs")Error in txt[["$NEXTDATA"]] : subscript out of bounds> traceback()2: findOffsets(con, emptyValue = emptyValue) 1: read.FCS("140604_Analyse_Ecoli25922_A1.fcs") Is someone have any idea of the cause of this error? Infortunetly, I am not able to read the source code of the "findOffsets" function (hide function?) and see what's the problem... Thanks a lot. Regards, CB PS: here is my "sessionInfo" (in case of): sessionInfo()R version 3.0.0 (2013-04-03) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C LC_ADDRESS=C 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] BiocInstaller_1.12.1 flowCore_1.28.24 loaded via a namespace (and not attached): [1] Biobase_2.20.1 BiocGenerics_0.6.0 codetools_0.2-8 corpcor_1.6.6 feature_1.2.10 graph_1.38.3 ks_1.8.13 MASS_7.3-29 [9] mvtnorm_0.9-9996 mzR_1.6.3 parallel_3.0.0 pcaPP_1.9-49 Rcpp_0.10.6 robustbase_0.9-10 rrcov_1.3-4 stats4_3.0.0 [17] tools_3.0.0 xcms_1.36.0 [[alternative HTML version deleted]]

Hi, Gael, Can you share the FCS file with me off-list? We'll look into it. Best, Greg Finak, PhD Staff Scientist Vaccine and Infectious Disease Division Fred Hutchinson Cancer Research Center Seattle, WA 98155 On Thu, Jun 19, 2014 at 5:33 AM, Gaël kaneko <gaekan@gmail.com> wrote: > Hi, > It's the first time i write a mail to this mailing list. I hope my spelled > langage will be as good enough. > > I have a problem with a function: > I use the flowCore library to read some FCS files (through read.FCS()). > With some FCS file, it's work perfectly. But for some other FCS files: > > > f.FCS=read.FCS("FCSfile.fcs")Error in txt[["$NEXTDATA"]] : subscript out > of bounds> traceback()2: findOffsets(con, emptyValue = emptyValue) > 1: read.FCS("140604_Analyse_Ecoli25922_A1.fcs") > > Is someone have any idea of the cause of this error? > Infortunetly, I am not able to read the source code of the "findOffsets" > function (hide function?) and see what's the problem... > Thanks a lot. > Regards, > CB > > > PS: here is my "sessionInfo" (in case of): > > sessionInfo()R version 3.0.0 (2013-04-03) > Platform: x86_64-unknown-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 > [7] LC_PAPER=C LC_NAME=C > LC_ADDRESS=C 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] BiocInstaller_1.12.1 flowCore_1.28.24 > > loaded via a namespace (and not attached): > [1] Biobase_2.20.1 BiocGenerics_0.6.0 codetools_0.2-8 > corpcor_1.6.6 feature_1.2.10 graph_1.38.3 ks_1.8.13 > MASS_7.3-29 > [9] mvtnorm_0.9-9996 mzR_1.6.3 parallel_3.0.0 > pcaPP_1.9-49 Rcpp_0.10.6 robustbase_0.9-10 rrcov_1.3-4 > stats4_3.0.0 > [17] tools_3.0.0 xcms_1.36.0 > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Greg Finak, PhD Staff Scientist Vaccine and Infectious Disease Division Fred Hutchinson Cancer Research Center Seattle, WA 98109 (206)667-3116 gfinak@fhcrc.org [[alternative HTML version deleted]]