CellTrails

Input saved to /scratch/irc/personal/robrechtc/tmp//RtmpJBQTUa/input: 
	data.rds
	params.json
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
    filter, lag
The following objects are masked from ‘package:base’:
    intersect, setdiff, setequal, union
Attaching package: ‘igraph’
The following object is masked from ‘package:tibble’:
    as_data_frame
The following objects are masked from ‘package:purrr’:
    compose, simplify
The following objects are masked from ‘package:dplyr’:
    as_data_frame, groups, union
The following objects are masked from ‘package:stats’:
    decompose, spectrum
The following object is masked from ‘package:base’:
    union
Loading required package: SingleCellExperiment
Loading required package: SummarizedExperiment
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:igraph’:
    normalize, path, union
The following objects are masked from ‘package:dplyr’:
    combine, intersect, setdiff, union
The following objects are masked from ‘package:stats’:
    IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
    anyDuplicated, append, as.data.frame, basename, cbind, colMeans,
    colnames, colSums, dirname, do.call, duplicated, eval, evalq,
    Filter, Find, get, grep, grepl, intersect, is.unsorted, lapply,
    lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,
    rowSums, sapply, setdiff, sort, table, tapply, union, unique,
    unsplit, which, which.max, which.min
Loading required package: S4Vectors
Attaching package: ‘S4Vectors’
The following objects are masked from ‘package:dplyr’:
    first, rename
The following object is masked from ‘package:base’:
    expand.grid
Loading required package: IRanges
Attaching package: ‘IRanges’
The following object is masked from ‘package:purrr’:
    reduce
The following objects are masked from ‘package:dplyr’:
    collapse, desc, slice
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor
    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: ‘Biobase’
The following object is masked from ‘package:dplyr’:
    exprs
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: ‘matrixStats’
The following objects are masked from ‘package:Biobase’:
    anyMissing, rowMedians
The following object is masked from ‘package:dplyr’:
    count
Loading required package: BiocParallel
Attaching package: ‘DelayedArray’
The following objects are masked from ‘package:matrixStats’:
    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
The following object is masked from ‘package:igraph’:
    simplify
The following object is masked from ‘package:purrr’:
    simplify
The following objects are masked from ‘package:base’:
    aperm, apply
Computing adjacency matrix ...
Computing spectral embedding ...
Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf",  : 
  cannot open file 'Rplots.pdf'
Calls: findSpectrum ... print -> print.ggplot -> grid.newpage -> 
Execution halted

Input saved to /scratch/irc/personal/robrechtc/tmp//RtmpUSO4Za/input: 
	data.rds
	params.json
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
    filter, lag
The following objects are masked from ‘package:base’:
    intersect, setdiff, setequal, union
Attaching package: ‘igraph’
The following object is masked from ‘package:tibble’:
    as_data_frame
The following objects are masked from ‘package:purrr’:
    compose, simplify
The following objects are masked from ‘package:dplyr’:
    as_data_frame, groups, union
The following objects are masked from ‘package:stats’:
    decompose, spectrum
The following object is masked from ‘package:base’:
    union
Loading required package: SingleCellExperiment
Loading required package: SummarizedExperiment
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:igraph’:
    normalize, path, union
The following objects are masked from ‘package:dplyr’:
    combine, intersect, setdiff, union
The following objects are masked from ‘package:stats’:
    IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
    anyDuplicated, append, as.data.frame, basename, cbind, colMeans,
    colnames, colSums, dirname, do.call, duplicated, eval, evalq,
    Filter, Find, get, grep, grepl, intersect, is.unsorted, lapply,
    lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,
    rowSums, sapply, setdiff, sort, table, tapply, union, unique,
    unsplit, which, which.max, which.min
Loading required package: S4Vectors
Attaching package: ‘S4Vectors’
The following objects are masked from ‘package:dplyr’:
    first, rename
The following object is masked from ‘package:base’:
    expand.grid
Loading required package: IRanges
Attaching package: ‘IRanges’
The following object is masked from ‘package:purrr’:
    reduce
The following objects are masked from ‘package:dplyr’:
    collapse, desc, slice
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor
    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: ‘Biobase’
The following object is masked from ‘package:dplyr’:
    exprs
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: ‘matrixStats’
The following objects are masked from ‘package:Biobase’:
    anyMissing, rowMedians
The following object is masked from ‘package:dplyr’:
    count
Loading required package: BiocParallel
Attaching package: ‘DelayedArray’
The following objects are masked from ‘package:matrixStats’:
    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
The following object is masked from ‘package:igraph’:
    simplify
The following object is masked from ‘package:purrr’:
    simplify
The following objects are masked from ‘package:base’:
    aperm, apply
Computing adjacency matrix ...
Computing spectral embedding ...
Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf",  : 
  cannot open file 'Rplots.pdf'
Calls: findSpectrum ... print -> print.ggplot -> grid.newpage -> 
Execution halted

Input saved to /scratch/irc/personal/robrechtc/tmp//RtmpyTlMYa/input: 
	data.rds
	params.json
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
    filter, lag
The following objects are masked from ‘package:base’:
    intersect, setdiff, setequal, union
Attaching package: ‘igraph’
The following object is masked from ‘package:tibble’:
    as_data_frame
The following objects are masked from ‘package:purrr’:
    compose, simplify
The following objects are masked from ‘package:dplyr’:
    as_data_frame, groups, union
The following objects are masked from ‘package:stats’:
    decompose, spectrum
The following object is masked from ‘package:base’:
    union
Loading required package: SingleCellExperiment
Loading required package: SummarizedExperiment
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:igraph’:
    normalize, path, union
The following objects are masked from ‘package:dplyr’:
    combine, intersect, setdiff, union
The following objects are masked from ‘package:stats’:
    IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
    anyDuplicated, append, as.data.frame, basename, cbind, colMeans,
    colnames, colSums, dirname, do.call, duplicated, eval, evalq,
    Filter, Find, get, grep, grepl, intersect, is.unsorted, lapply,
    lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,
    rowSums, sapply, setdiff, sort, table, tapply, union, unique,
    unsplit, which, which.max, which.min
Loading required package: S4Vectors
Attaching package: ‘S4Vectors’
The following objects are masked from ‘package:dplyr’:
    first, rename
The following object is masked from ‘package:base’:
    expand.grid
Loading required package: IRanges
Attaching package: ‘IRanges’
The following object is masked from ‘package:purrr’:
    reduce
The following objects are masked from ‘package:dplyr’:
    collapse, desc, slice
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor
    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: ‘Biobase’
The following object is masked from ‘package:dplyr’:
    exprs
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: ‘matrixStats’
The following objects are masked from ‘package:Biobase’:
    anyMissing, rowMedians
The following object is masked from ‘package:dplyr’:
    count
Loading required package: BiocParallel
Attaching package: ‘DelayedArray’
The following objects are masked from ‘package:matrixStats’:
    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
The following object is masked from ‘package:igraph’:
    simplify
The following object is masked from ‘package:purrr’:
    simplify
The following objects are masked from ‘package:base’:
    aperm, apply
Computing adjacency matrix ...
Computing spectral embedding ...
Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf",  : 
  cannot open file 'Rplots.pdf'
Calls: findSpectrum ... print -> print.ggplot -> grid.newpage -> 
Execution halted

Input saved to /scratch/irc/personal/robrechtc/tmp//Rtmp34uIUa/input: 
	data.rds
	params.json
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
    filter, lag
The following objects are masked from ‘package:base’:
    intersect, setdiff, setequal, union
Attaching package: ‘igraph’
The following object is masked from ‘package:tibble’:
    as_data_frame
The following objects are masked from ‘package:purrr’:
    compose, simplify
The following objects are masked from ‘package:dplyr’:
    as_data_frame, groups, union
The following objects are masked from ‘package:stats’:
    decompose, spectrum
The following object is masked from ‘package:base’:
    union
Loading required package: SingleCellExperiment
Loading required package: SummarizedExperiment
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:igraph’:
    normalize, path, union
The following objects are masked from ‘package:dplyr’:
    combine, intersect, setdiff, union
The following objects are masked from ‘package:stats’:
    IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
    anyDuplicated, append, as.data.frame, basename, cbind, colMeans,
    colnames, colSums, dirname, do.call, duplicated, eval, evalq,
    Filter, Find, get, grep, grepl, intersect, is.unsorted, lapply,
    lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,
    rowSums, sapply, setdiff, sort, table, tapply, union, unique,
    unsplit, which, which.max, which.min
Loading required package: S4Vectors
Attaching package: ‘S4Vectors’
The following objects are masked from ‘package:dplyr’:
    first, rename
The following object is masked from ‘package:base’:
    expand.grid
Loading required package: IRanges
Attaching package: ‘IRanges’
The following object is masked from ‘package:purrr’:
    reduce
The following objects are masked from ‘package:dplyr’:
    collapse, desc, slice
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor
    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: ‘Biobase’
The following object is masked from ‘package:dplyr’:
    exprs
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: ‘matrixStats’
The following objects are masked from ‘package:Biobase’:
    anyMissing, rowMedians
The following object is masked from ‘package:dplyr’:
    count
Loading required package: BiocParallel
Attaching package: ‘DelayedArray’
The following objects are masked from ‘package:matrixStats’:
    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
The following object is masked from ‘package:igraph’:
    simplify
The following object is masked from ‘package:purrr’:
    simplify
The following objects are masked from ‘package:base’:
    aperm, apply
Computing adjacency matrix ...
Computing spectral embedding ...
Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf",  : 
  cannot open file 'Rplots.pdf'
Calls: findSpectrum ... print -> print.ggplot -> grid.newpage -> 
Execution halted

Input saved to /scratch/irc/personal/robrechtc/tmp//RtmpnwZYIb/input: 
	data.rds
	params.json
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
    filter, lag
The following objects are masked from ‘package:base’:
    intersect, setdiff, setequal, union
Attaching package: ‘igraph’
The following object is masked from ‘package:tibble’:
    as_data_frame
The following objects are masked from ‘package:purrr’:
    compose, simplify
The following objects are masked from ‘package:dplyr’:
    as_data_frame, groups, union
The following objects are masked from ‘package:stats’:
    decompose, spectrum
The following object is masked from ‘package:base’:
    union
Loading required package: SingleCellExperiment
Loading required package: SummarizedExperiment
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:igraph’:
    normalize, path, union
The following objects are masked from ‘package:dplyr’:
    combine, intersect, setdiff, union
The following objects are masked from ‘package:stats’:
    IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
    anyDuplicated, append, as.data.frame, basename, cbind, colMeans,
    colnames, colSums, dirname, do.call, duplicated, eval, evalq,
    Filter, Find, get, grep, grepl, intersect, is.unsorted, lapply,
    lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,
    rowSums, sapply, setdiff, sort, table, tapply, union, unique,
    unsplit, which, which.max, which.min
Loading required package: S4Vectors
Attaching package: ‘S4Vectors’
The following objects are masked from ‘package:dplyr’:
    first, rename
The following object is masked from ‘package:base’:
    expand.grid
Loading required package: IRanges
Attaching package: ‘IRanges’
The following object is masked from ‘package:purrr’:
    reduce
The following objects are masked from ‘package:dplyr’:
    collapse, desc, slice
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor
    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: ‘Biobase’
The following object is masked from ‘package:dplyr’:
    exprs
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: ‘matrixStats’
The following objects are masked from ‘package:Biobase’:
    anyMissing, rowMedians
The following object is masked from ‘package:dplyr’:
    count
Loading required package: BiocParallel
Attaching package: ‘DelayedArray’
The following objects are masked from ‘package:matrixStats’:
    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
The following object is masked from ‘package:igraph’:
    simplify
The following object is masked from ‘package:purrr’:
    simplify
The following objects are masked from ‘package:base’:
    aperm, apply
Computing adjacency matrix ...
Computing spectral embedding ...
Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf",  : 
  cannot open file 'Rplots.pdf'
Calls: findSpectrum ... print -> print.ggplot -> grid.newpage -> 
Execution halted

CellTrails

stdout

stderr

error_message

stdout

stderr

error_message

stdout

stderr

error_message

stdout

stderr

error_message

stdout

stderr

error_message