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1
April 24, 2019, 12:28:18 AM
Problem solved, thank you!!!
2
April 18, 2019, 07:08:07 AM
Dear Maintainers, since a few days I'm getting the Error Message: "Error in R_nc4_close: NetCDF: Not a valid ID" using the "xcmsSet" function from {xcms} package under R-Studio Version 3.5.3 in Windows10 (64bit). Our code for generating the chromatogramm list from raw cdf-data out of GC-MS-Analysis and getting the xcmxSet out of that list: ### List Chromatograms lchrom <- list.files(path = "./cdf/", recursive = F, full.names = T, pattern =".CDF") ### adjust order of chromatograms to 1, 2, 3, ... temp <- unlist(strsplit(lchrom, c("G")))[c(FALSE, TRUE)] temp <- unlist(strsplit(temp, c("."), fixed = TRUE))[c(TRUE, FALSE)] temp <- as.numeric(temp) lchrom <- lchrom[order(temp)] ### Start xcms analysis system.time( xsgc <- xcmsSet(lchrom[1], method="matchedFilter", step = 0.5, fwhm = 2, snthresh = 3, max = 10000, BPPARAM = SnowParam(workers = 3) ) ) After the xcmsSet function we received the following error message: "Error in R_nc4_close: NetCDF: Not a valid ID" With R-Studio Version 3.4.3 and xcms 3.0.2 everything worked as always.. Our loaded packages are: Biobase2.42.0 BiocGenerics 0.28.0 BiocParallel 1.16.6 CAMERA 1.38.1 data.table 1.12.2 MSnbase 2.8.3 mzR 2.16.2 parallel 3.5.2 ProtGenerics 1.14.0 Rcpp 1.0.1 S4 Vectors 0.20.1 stats4 3.5.2 xcms 3.4.4