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This page was generated on 2021-09-21 12:05:36 -0400 (Tue, 21 Sep 2021).

BUILD results for FRASER on nebbiolo2

To the developers/maintainers of the FRASER package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/FRASER.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 666/2029HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FRASER 1.5.0  (landing page)
Christian Mertes
Snapshot Date: 2021-09-20 14:50:09 -0400 (Mon, 20 Sep 2021)
git_url: https://git.bioconductor.org/packages/FRASER
git_branch: master
git_last_commit: 8ebdd0a
git_last_commit_date: 2021-05-19 12:51:54 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    ERROR  skipped
riesling1Windows Server 2019 Standard / x64  OK    ERROR  skippedskipped
merida1macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: FRASER
Version: 1.5.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data FRASER
StartedAt: 2021-09-20 17:19:43 -0400 (Mon, 20 Sep 2021)
EndedAt: 2021-09-20 17:21:20 -0400 (Mon, 20 Sep 2021)
EllapsedTime: 96.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data FRASER
###
##############################################################################
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* checking for file ‘FRASER/DESCRIPTION’ ... OK
* preparing ‘FRASER’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘FRASER.Rnw’ using knitr
Mon Sep 20 17:21:15 2021: Start counting the split reads ...
Mon Sep 20 17:21:15 2021: Count split reads for sample: sample1
Mon Sep 20 17:21:16 2021: Count split reads for sample: sample2
Mon Sep 20 17:21:17 2021: Count split reads for sample: sample3
Mon Sep 20 17:21:18 2021 : count ranges need to be merged ...
Mon Sep 20 17:21:18 2021: Create splice site indices ...
Mon Sep 20 17:21:18 2021: Writing split counts to folder: /tmp/Rtmp8et5t0/savedObjects/Data_Analysis/splitCounts
Mon Sep 20 17:21:18 2021: Identifying introns with read count <= 20 in all samples...
Mon Sep 20 17:21:18 2021: Start counting the non spliced reads ...
Mon Sep 20 17:21:18 2021: In total 20 splice junctions are found.
Mon Sep 20 17:21:20 2021: In total 38 splice sites (acceptor/donor) will be counted ...
Mon Sep 20 17:21:20 2021: Count non spliced reads for sample: sample1
Quitting from lines 192-231 (FRASER.Rnw) 
Error: processing vignette 'FRASER.Rnw' failed with diagnostics:
BiocParallel errors
  element index: 1, 2, 3
  first error: object 'fout_annot' not found
--- failed re-building ‘FRASER.Rnw’

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

Error: Vignette re-building failed.
Execution halted