Problem loading docker/singularity image

Hello, while trying to load either docker/singularity image I encountered similair error message (for full information see below).

The main issue seem to be related to following problem: Error in strsplit(opt[["preproc"]], ","): This error suggests a problem with the strsplit function, which is typically used to split a string into substrings. The error "non-character argument" implies that opt[["preproc"]] is not a string. This could be due to opt[["preproc"]] being NULL or of a different data type than expected.

Thank you for any help in advance.

----------------------------------------full record of Docker image loading-------------------

2024-01-08 09:40:25 Loading required package: optparse 2024-01-08 09:40:25 Installing package into ‘/usr/local/lib/R/site-library’ 2024-01-08 09:40:25 (as ‘lib’ is unspecified) 2024-01-08 09:40:27 also installing the dependency ‘getopt’ 2024-01-08 09:40:27 2024-01-08 09:40:27 trying URL 'https://packagemanager.posit.co/cran/__linux__/jammy/latest/src/contrib/getopt_1.20.4.tar.gz' 2024-01-08 09:40:27 Content type 'binary/octet-stream' length 36679 bytes (35 KB) 2024-01-08 09:40:27 ================================================== 2024-01-08 09:40:27 downloaded 35 KB 2024-01-08 09:40:27 2024-01-08 09:40:27 trying URL 'https://packagemanager.posit.co/cran/__linux__/jammy/latest/src/contrib/optparse_1.7.3.tar.gz' 2024-01-08 09:40:28 Content type 'binary/octet-stream' length 77538 bytes (75 KB) 2024-01-08 09:40:28 ================================================== 2024-01-08 09:40:28 downloaded 75 KB 2024-01-08 09:40:28 2024-01-08 09:40:28 installing binary package ‘getopt’ ... 2024-01-08 09:40:28 DONE (getopt) 2024-01-08 09:40:29 installing binary package ‘optparse’ ... 2024-01-08 09:40:29 DONE (optparse) 2024-01-08 09:40:29 2024-01-08 09:40:29 The downloaded source packages are in 2024-01-08 09:40:29 ‘/tmp/RtmpJoLSZ4/downloaded_packages’ 2024-01-08 09:40:29 Loading required package: yaml 2024-01-08 09:40:29 Loading required package: igraph 2024-01-08 09:40:29 2024-01-08 09:40:29 Attaching package: ‘igraph’ 2024-01-08 09:40:29 2024-01-08 09:40:29 The following objects are masked from ‘package:stats’: 2024-01-08 09:40:29 2024-01-08 09:40:29 decompose, spectrum 2024-01-08 09:40:29 2024-01-08 09:40:29 The following object is masked from ‘package:base’: 2024-01-08 09:40:29 2024-01-08 09:40:29 union 2024-01-08 09:40:29 2024-01-08 09:40:29 Loading required package: Rtsne 2024-01-08 09:40:29 Loading required package: spam 2024-01-08 09:40:29 Spam version 2.9-1 (2022-08-07) is loaded. 2024-01-08 09:40:29 Type 'help( Spam)' or 'demo( spam)' for a short introduction 2024-01-08 09:40:29 and overview of this package. 2024-01-08 09:40:29 Help for individual functions is also obtained by adding the 2024-01-08 09:40:29 suffix '.spam' to the function name, e.g. 'help( chol.spam)'. 2024-01-08 09:40:29 2024-01-08 09:40:29 Attaching package: ‘spam’ 2024-01-08 09:40:29 2024-01-08 09:40:29 The following objects are masked from ‘package:base’: 2024-01-08 09:40:29 2024-01-08 09:40:29 backsolve, forwardsolve 2024-01-08 09:40:29 2024-01-08 09:40:29 Loading required package: MCMCprecision 2024-01-08 09:40:30 Warning message: 2024-01-08 09:40:30 In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : 2024-01-08 09:40:30 there is no package called ‘optparse’ 2024-01-08 09:40:30 Loading required package: singleCellTK 2024-01-08 09:40:30 Loading required package: SummarizedExperiment 2024-01-08 09:40:30 Loading required package: MatrixGenerics 2024-01-08 09:40:30 Loading required package: matrixStats 2024-01-08 09:40:30 2024-01-08 09:40:30 Attaching package: ‘MatrixGenerics’ 2024-01-08 09:40:30 2024-01-08 09:40:30 The following objects are masked from ‘package:matrixStats’: 2024-01-08 09:40:30 2024-01-08 09:40:30 colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse, 2024-01-08 09:40:30 colCounts, colCummaxs, colCummins, colCumprods, colCumsums, 2024-01-08 09:40:30 colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs, 2024-01-08 09:40:30 colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats, 2024-01-08 09:40:30 colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds, 2024-01-08 09:40:30 colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads, 2024-01-08 09:40:30 colWeightedMeans, colWeightedMedians, colWeightedSds, 2024-01-08 09:40:30 colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet, 2024-01-08 09:40:30 rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods, 2024-01-08 09:40:30 rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps, 2024-01-08 09:40:30 rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins, 2024-01-08 09:40:30 rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks, 2024-01-08 09:40:30 rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars, 2024-01-08 09:40:30 rowWeightedMads, rowWeightedMeans, rowWeightedMedians, 2024-01-08 09:40:30 rowWeightedSds, rowWeightedVars 2024-01-08 09:40:30 2024-01-08 09:40:30 Loading required package: GenomicRanges 2024-01-08 09:40:30 Loading required package: stats4 2024-01-08 09:40:30 2024-01-08 09:40:30 Attaching package: ‘stats4’ 2024-01-08 09:40:30 2024-01-08 09:40:30 The following object is masked from ‘package:spam’: 2024-01-08 09:40:30 2024-01-08 09:40:30 mle 2024-01-08 09:40:30 2024-01-08 09:40:30 Loading required package: BiocGenerics 2024-01-08 09:40:30 2024-01-08 09:40:30 Attaching package: ‘BiocGenerics’ 2024-01-08 09:40:30 2024-01-08 09:40:30 The following objects are masked from ‘package:spam’: 2024-01-08 09:40:30 2024-01-08 09:40:30 cbind, rbind 2024-01-08 09:40:30 2024-01-08 09:40:30 The following objects are masked from ‘package:igraph’: 2024-01-08 09:40:30 2024-01-08 09:40:30 normalize, path, union 2024-01-08 09:40:30 2024-01-08 09:40:30 The following objects are masked from ‘package:stats’: 2024-01-08 09:40:30 2024-01-08 09:40:30 IQR, mad, sd, var, xtabs 2024-01-08 09:40:30 2024-01-08 09:40:30 The following objects are masked from ‘package:base’: 2024-01-08 09:40:30 2024-01-08 09:40:30 anyDuplicated, aperm, append, as.data.frame, basename, cbind, 2024-01-08 09:40:30 colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find, 2024-01-08 09:40:30 get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply, 2024-01-08 09:40:30 match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, 2024-01-08 09:40:30 Position, rank, rbind, Reduce, rownames, sapply, setdiff, sort, 2024-01-08 09:40:30 table, tapply, union, unique, unsplit, which.max, which.min 2024-01-08 09:40:30 2024-01-08 09:40:30 Loading required package: S4Vectors 2024-01-08 09:40:31 2024-01-08 09:40:31 Attaching package: ‘S4Vectors’ 2024-01-08 09:40:31 2024-01-08 09:40:31 The following object is masked from ‘package:utils’: 2024-01-08 09:40:31 2024-01-08 09:40:31 findMatches 2024-01-08 09:40:31 2024-01-08 09:40:31 The following objects are masked from ‘package:base’: 2024-01-08 09:40:31 2024-01-08 09:40:31 expand.grid, I, unname 2024-01-08 09:40:31 2024-01-08 09:40:31 Loading required package: IRanges 2024-01-08 09:40:31 Loading required package: GenomeInfoDb 2024-01-08 09:40:32 Loading required package: Biobase 2024-01-08 09:40:32 Welcome to Bioconductor 2024-01-08 09:40:32 2024-01-08 09:40:32 Vignettes contain introductory material; view with 2024-01-08 09:40:32 'browseVignettes()'. To cite Bioconductor, see 2024-01-08 09:40:32 'citation("Biobase")', and for packages 'citation("pkgname")'. 2024-01-08 09:40:32 2024-01-08 09:40:32 2024-01-08 09:40:32 Attaching package: ‘Biobase’ 2024-01-08 09:40:32 2024-01-08 09:40:32 The following object is masked from ‘package:MatrixGenerics’: 2024-01-08 09:40:32 2024-01-08 09:40:32 rowMedians 2024-01-08 09:40:32 2024-01-08 09:40:32 The following objects are masked from ‘package:matrixStats’: 2024-01-08 09:40:32 2024-01-08 09:40:32 anyMissing, rowMedians 2024-01-08 09:40:32 2024-01-08 09:40:33 Loading required package: SingleCellExperiment 2024-01-08 09:40:34 Loading required package: DelayedArray 2024-01-08 09:40:34 Loading required package: Matrix 2024-01-08 09:40:34 2024-01-08 09:40:34 Attaching package: ‘Matrix’ 2024-01-08 09:40:34 2024-01-08 09:40:34 The following object is masked from ‘package:S4Vectors’: 2024-01-08 09:40:34 2024-01-08 09:40:34 expand 2024-01-08 09:40:34 2024-01-08 09:40:34 The following object is masked from ‘package:spam’: 2024-01-08 09:40:34 2024-01-08 09:40:34 det 2024-01-08 09:40:34 2024-01-08 09:40:34 Loading required package: S4Arrays 2024-01-08 09:40:34 Loading required package: abind 2024-01-08 09:40:34 2024-01-08 09:40:34 Attaching package: ‘S4Arrays’ 2024-01-08 09:40:34 2024-01-08 09:40:34 The following object is masked from ‘package:abind’: 2024-01-08 09:40:34 2024-01-08 09:40:34 abind 2024-01-08 09:40:34 2024-01-08 09:40:34 The following object is masked from ‘package:base’: 2024-01-08 09:40:34 2024-01-08 09:40:34 rowsum 2024-01-08 09:40:34 2024-01-08 09:40:34 2024-01-08 09:40:34 Attaching package: ‘DelayedArray’ 2024-01-08 09:40:34 2024-01-08 09:40:34 The following object is masked from ‘package:igraph’: 2024-01-08 09:40:34 2024-01-08 09:40:34 simplify 2024-01-08 09:40:34 2024-01-08 09:40:34 The following objects are masked from ‘package:base’: 2024-01-08 09:40:34 2024-01-08 09:40:34 apply, scale, sweep 2024-01-08 09:40:34 2024-01-08 09:40:35 2024-01-08 09:40:35 Attaching package: ‘singleCellTK’ 2024-01-08 09:40:35 2024-01-08 09:40:35 The following object is masked from ‘package:BiocGenerics’: 2024-01-08 09:40:35 2024-01-08 09:40:35 plotPCA 2024-01-08 09:40:35 2024-01-08 09:40:35 Loading required package: celda 2024-01-08 09:40:36 2024-01-08 09:40:36 Attaching package: ‘celda’ 2024-01-08 09:40:36 2024-01-08 09:40:36 The following object is masked from ‘package:singleCellTK’: 2024-01-08 09:40:36 2024-01-08 09:40:36 distinctColors 2024-01-08 09:40:36 2024-01-08 09:40:36 The following object is masked from ‘package:S4Vectors’: 2024-01-08 09:40:36 2024-01-08 09:40:36 params 2024-01-08 09:40:36 2024-01-08 09:40:36 Loading required package: BiocParallel 2024-01-08 09:40:38 Error in strsplit(opt[["preproc"]], ",") : non-character argument 2024-01-08 09:40:38 Calls: unlist -> strsplit 2024-01-08 09:40:38 Execution halted

compbiomed / singleCellTK

Problem loading docker/singularity image #734