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This page was generated on 2023-04-12 10:55:21 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.1 LTS)x86_644.3.0 alpha (2023-04-03 r84154) 4547
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_64R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" 4333
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

BUILD results for baySeq on nebbiolo1


To the developers/maintainers of the baySeq package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/baySeq.git to reflect on this report. See Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 140/2207HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
baySeq 2.33.0  (landing page)
Thomas J. Hardcastle
Snapshot Date: 2023-04-11 14:00:16 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/baySeq
git_branch: devel
git_last_commit: fd24c8e
git_last_commit_date: 2022-11-01 11:04:42 -0400 (Tue, 01 Nov 2022)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    ERROR  skipped
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped

Summary

Package: baySeq
Version: 2.33.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data baySeq
StartedAt: 2023-04-11 15:51:42 -0400 (Tue, 11 Apr 2023)
EndedAt: 2023-04-11 15:54:15 -0400 (Tue, 11 Apr 2023)
EllapsedTime: 152.3 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data baySeq
###
##############################################################################
##############################################################################


* checking for file ‘baySeq/DESCRIPTION’ ... OK
* preparing ‘baySeq’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘baySeq.Rnw’ using Sweave
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated,
    eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind,
    rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit,
    which.max, which.min

Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

The following objects are masked from ‘package:base’:

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: abind
Loading required package: parallel
Finding priors...done.
Length of priorReps:1000
Length of priorSubset:1000
Length of subset:1000
Length of postRows:1000
Finding priors...done.
Finding posterior likelihoods...Length of priorReps:0
Length of priorSubset:3000
Length of subset:3000
Length of postRows:3000
Analysing part 1 of 1
Preparing data...........................................................done.
Estimating likelihoods......done!
done.
Warning in summarisePosteriors(cD) :
  No orderings contained in countData object.
Finding priors...done.
Finding posterior likelihoods...Length of priorReps:0
Length of priorSubset:3000
Length of subset:3000
Length of postRows:3000
Analysing part 1 of 1
Preparing data.........................................................done.
Estimating likelihoods......done!
done.
--- finished re-building ‘baySeq.Rnw’

--- re-building ‘baySeq_generic.Rnw’ using Sweave
Finding priors...done.
Finding posterior likelihoods...Length of priorReps:0
Length of priorSubset:1000
Length of subset:1000
Length of postRows:1000
Analysing part 1 of 1
Preparing data..........................................................done.
Estimating likelihoods......done!
Warning in makeOrderings(listPosts[[cc]]) :
  No valid ordering function available.
done.
Finding priors...done.
Finding posterior likelihoods...Length of priorReps:0
Length of priorSubset:1000
Length of subset:1000
Length of postRows:1000
Analysing part 1 of 1
Preparing data....................................................done.
Estimating likelihoods......done!
Warning in makeOrderings(listPosts[[cc]]) :
  No valid ordering function available.
done.
Finding priors...done.
Finding posterior likelihoods...Length of priorReps:0
Length of priorSubset:1000
Length of subset:1000
Length of postRows:1000
Analysing part 1 of 1
Preparing data......................................................done.
Estimating likelihoods......done!
done.
Finding priors...done.
Finding posterior likelihoods...Length of priorReps:0
Length of priorSubset:1000
Length of subset:1000
Length of postRows:1000
Analysing part 1 of 1
Preparing data............................................................done.
Estimating likelihoods......done!
done.

Error: processing vignette 'baySeq_generic.Rnw' failed with diagnostics:
 chunk 20 
Error in pET %in% c("iteratively", "BIC") && (any(sapply(modelPriorValues,  : 
  'length = 2' in coercion to 'logical(1)'

--- failed re-building ‘baySeq_generic.Rnw’

SUMMARY: processing the following file failed:
  ‘baySeq_generic.Rnw’

Error: Vignette re-building failed.
Execution halted