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  Error: package or namespace load failed for ‘DESeq2’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
   namespace ‘xfun’ 0.15 is being loaded, but >= 0.19 is required
  In addition: Warning message:
  package ‘matrixStats’ was built under R version 3.6.3 
  Execution halted

Pipeline completed with errors-
WARN: To render the execution DAG in the required format it is required to install Graphviz -- See http://www.graphviz.org for more info.
Error executing process > 'CONSENSUS_PEAKS_DESEQ2 (SPT5)'

Caused by:
  Process `CONSENSUS_PEAKS_DESEQ2 (SPT5)` terminated with an error exit status (1)

Command executed:

  featurecounts_deseq2.r \
      --featurecount_file SPT5.consensus_peaks.featureCounts.txt \
      --bam_suffix '.mLb.clN.bam' \
      --outdir ./ \
      --outprefix SPT5.consensus_peaks \
      --outsuffix '' \
      --cores 2 \
  
  
  sed 's/deseq2_pca/deseq2_pca_1/g' <deseq2_pca_header.txt >tmp.txt
  sed -i -e 's/DESeq2 /SPT5 DESeq2 /g' tmp.txt
  cat tmp.txt SPT5.consensus_peaks.pca.vals.txt > SPT5.consensus_peaks.pca.vals_mqc.tsv
  
  sed 's/deseq2_clustering/deseq2_clustering_1/g' <deseq2_clustering_header.txt >tmp.txt
  sed -i -e 's/DESeq2 /SPT5 DESeq2 /g' tmp.txt
  cat tmp.txt SPT5.consensus_peaks.sample.dists.txt > SPT5.consensus_peaks.sample.dists_mqc.tsv
  
  find * -type f -name "*.FDR0.05.results.bed" -exec echo -e "bwa/mergedLibrary/macs/broadPeak/consensus/SPT5/deseq2/"{}"\t255,0,0" \; > SPT5.consensus_peaks.igv.txt

Command exit status:
  1

Command output:
  (empty)

Command error:
      dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep,
      grepl, intersect, is.unsorted, lapply, Map, mapply, match, mget,
      order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
      rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
      union, unique, unsplit, which, which.max, which.min
  
  
  Attaching package: ‘S4Vectors’
  
  The following object is masked from ‘package:base’:
  
      expand.grid
  
  Loading required package: IRanges
  Loading required package: GenomicRanges
  Loading required package: GenomeInfoDb
  Loading required package: SummarizedExperiment
  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")'.
  
  Loading required package: DelayedArray
  Loading required package: matrixStats
  
  Attaching package: ‘matrixStats’
  
  The following objects are masked from ‘package:Biobase’:
  
      anyMissing, rowMedians
  
  Loading required package: BiocParallel
  
  Attaching package: ‘DelayedArray’
  
  The following objects are masked from ‘package:matrixStats’:
  
      colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
  
  The following objects are masked from ‘package:base’:
  
      aperm, apply, rowsum
  
  Error: package or namespace load failed for ‘DESeq2’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
   namespace ‘xfun’ 0.15 is being loaded, but >= 0.19 is required
  In addition: Warning message:
  package ‘matrixStats’ was built under R version 3.6.3 
  Execution halted

Work dir:
  /home/j/chipseq_20210330/data/work/4e/c7a9b7394c7760781354adda99f45c

Tip: when you have fixed the problem you can continue the execution adding the option `-resume` to the run command line