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This page was generated on 2023-05-26 06:18:17 -0000 (Fri, 26 May 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.0 (2023-04-21) -- "Already Tomorrow" 4254
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BUILD results for STROMA4 on kunpeng2


To the developers/maintainers of the STROMA4 package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/STROMA4.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 2000/2197HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
STROMA4 1.25.0  (landing page)
Sadiq Saleh
Snapshot Date: 2023-05-25 13:29:39 -0000 (Thu, 25 May 2023)
git_url: https://git.bioconductor.org/packages/STROMA4
git_branch: devel
git_last_commit: e44a7fc
git_last_commit_date: 2023-04-25 14:53:15 -0000 (Tue, 25 Apr 2023)
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

Summary

Package: STROMA4
Version: 1.25.0
Command: /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data STROMA4
StartedAt: 2023-05-26 02:19:23 -0000 (Fri, 26 May 2023)
EndedAt: 2023-05-26 02:19:43 -0000 (Fri, 26 May 2023)
EllapsedTime: 20.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data STROMA4
###
##############################################################################
##############################################################################


* checking for file ‘STROMA4/DESCRIPTION’ ... OK
* preparing ‘STROMA4’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘STROMA4-vignette.Rnw’ using Sweave
Loading required package: Biobase
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

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: BiocParallel
Loading required package: cluster
Loading required package: matrixStats

Attaching package: ‘matrixStats’

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

    anyMissing, rowMedians

--Assigning properties to expression data--
--There are duplicated genes. Using most variable to collapse--
----206 out of 297 total genes matching for D.stroma.property----
----104 out of 567 total genes matching for B.stroma.property----
----315 out of 458 total genes matching for T.stroma.property----
----20 out of 27 total genes matching for E.stroma.property----
--Assigning properties to expression data--
--There are duplicated genes. Using most variable to collapse--
----1064 out of 1105 total genes matching for MSL.property----
----671 out of 710 total genes matching for M.property----
----1146 out of 1205 total genes matching for LAR.property----
----670 out of 705 total genes matching for IM.property----
----449 out of 473 total genes matching for BL1.property----
----269 out of 291 total genes matching for BL2.property----
--Assigning properties to expression data--
--There are duplicated genes. Using most variable to collapse--
----206 out of 297 total genes matching for D.stroma.property----
----1064 out of 1105 total genes matching for MSL.property----
----671 out of 710 total genes matching for M.property----
----104 out of 567 total genes matching for B.stroma.property----
----1146 out of 1205 total genes matching for LAR.property----
----670 out of 705 total genes matching for IM.property----
----315 out of 458 total genes matching for T.stroma.property----
----449 out of 473 total genes matching for BL1.property----
----20 out of 27 total genes matching for E.stroma.property----
----269 out of 291 total genes matching for BL2.property----
Error: processing vignette 'STROMA4-vignette.Rnw' failed with diagnostics:
unable to run pdflatex on 'STROMA4-vignette.tex'
LaTeX errors:
! LaTeX Error: File `a4wide.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *> 
         
l.11 ^^M
        
!  ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘STROMA4-vignette.Rnw’

SUMMARY: processing the following file failed:
  ‘STROMA4-vignette.Rnw’

Error: Vignette re-building failed.
Execution halted