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This page was generated on 2023-04-12 10:55:23 -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 dasper on nebbiolo1


To the developers/maintainers of the dasper package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/dasper.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 491/2207HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
dasper 1.9.1  (landing page)
David Zhang
Snapshot Date: 2023-04-11 14:00:16 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/dasper
git_branch: devel
git_last_commit: 3fa8472
git_last_commit_date: 2023-03-30 12:36:59 -0400 (Thu, 30 Mar 2023)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    ERROR  skipped
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped

Summary

Package: dasper
Version: 1.9.1
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data dasper
StartedAt: 2023-04-11 16:16:36 -0400 (Tue, 11 Apr 2023)
EndedAt: 2023-04-11 16:18:39 -0400 (Tue, 11 Apr 2023)
EllapsedTime: 123.4 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 dasper
###
##############################################################################
##############################################################################


* checking for file ‘dasper/DESCRIPTION’ ... OK
* preparing ‘dasper’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘dasper.Rmd’ using rmarkdown
unsorted interval: chr21	26021921	26022042
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 84
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	26021921	26022042
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 84
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	6456880	6456950
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 4
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	6456880	6456950
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 4
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
building whole annotation region map done
2 chromosomes for annotated regions read
2 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 624
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
building whole annotation region map done
2 chromosomes for annotated regions read
2 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 624
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	25880549	26171128
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 22
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	25880549	26171128
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 22
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	26021921	26022042
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 84
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	26021921	26022042
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 84
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	26021921	26022042
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 84
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	6456880	6456950
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 4
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	6456880	6456950
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 4
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	6456880	6456950
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 4
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
building whole annotation region map done
2 chromosomes for annotated regions read
2 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 624
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
building whole annotation region map done
2 chromosomes for annotated regions read
2 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 624
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
building whole annotation region map done
2 chromosomes for annotated regions read
2 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 624
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	25880549	26171128
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 22
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	25880549	26171128
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 22
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
unsorted interval: chr21	25880549	26171128
, falling back to slower matching (doesn't affect BAM processing)
For potentially faster BigWig reading performance, please sort your argument to --annotations (BED) file via sort -k1,1 -k2,2n and re-run megadepth.
building whole annotation region map done
2 chromosomes for annotated regions read
1 chromosomes for annotated regions read, collapsed
total number of annotations in collapsed: 22
Processing /home/biocbuild/.cache/R/BiocFileCache/3768704b46bc0b_SRR660824_SRS389722_SRX222703_male_lung.bw
Quitting from lines 284-291 (dasper.Rmd) 
Error: processing vignette 'dasper.Rmd' failed with diagnostics:
BiocParallel errors
  1 remote errors, element index: 1
  1 unevaluated and other errors
  first remote error:
Error in eval(expr, envir, enclos): AttributeError: module 'sklearn' has no attribute 'ensemble'


--- failed re-building ‘dasper.Rmd’

SUMMARY: processing the following file failed:
  ‘dasper.Rmd’

Error: Vignette re-building failed.
Execution halted