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This page was generated on 2024-03-27 11:35:46 -0400 (Wed, 27 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4667
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4403
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4426
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

Package 468/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CSSP 1.40.0  (landing page)
Chandler Zuo
Snapshot Date: 2024-03-25 14:05:07 -0400 (Mon, 25 Mar 2024)
git_url: https://git.bioconductor.org/packages/CSSP
git_branch: RELEASE_3_18
git_last_commit: b8eea8f
git_last_commit_date: 2023-10-24 09:55:01 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped
palomino4Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

BUILD results for CSSP on nebbiolo2


To the developers/maintainers of the CSSP package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CSSP.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: CSSP
Version: 1.40.0
Command: /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data CSSP
StartedAt: 2024-03-25 16:39:28 -0400 (Mon, 25 Mar 2024)
EndedAt: 2024-03-25 16:39:35 -0400 (Mon, 25 Mar 2024)
EllapsedTime: 7.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data CSSP
###
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* checking for file ‘CSSP/DESCRIPTION’ ... OK
* preparing ‘CSSP’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘cssp.rnw’ using Sweave
Warning: Package 'CSSP' is deprecated and will be removed from Bioconductor
  version 3.19
Read mappability file map_chr1.txt for chr1 
Read mappability file map_chr2.txt for chr2 
Read mappability file map_chr3.txt for chr3 
Read mappability file map_chr4.txt for chr4 
Read mappability file map_chr5.txt for chr5 
Read GC file gc_chr1.txt for chromosome chr1 
Read GC file gc_chr2.txt for chromosome chr2 
Read GC file gc_chr3.txt for chromosome chr3 
Read GC file gc_chr4.txt for chromosome chr4 
Read GC file gc_chr5.txt for chromosome chr5 
Read N file n_chr1.txt for chromosome chr1 
Read N file n_chr2.txt for chromosome chr2 
Read N file n_chr3.txt for chromosome chr3 
Read N file n_chr4.txt for chromosome chr4 
Read N file n_chr5.txt for chromosome chr5 
chromosomes in chiptag contains chr1,chr2,chr3,chr4,chr5
chromosomes in inputtag contains chr1,chr2,chr3,chr4,chr5
chromosomes in mappability contains chr1,chr2,chr3,chr4,chr5
chromosomes in GC contains chr1,chr2,chr3,chr4,chr5
chromosomes in N contains chr1,chr2,chr3,chr4,chr5
chiptag contains 201 bins for chromosome chr1
Read in values for 201 bins for chromosome chr1
chiptag contains 201 bins for chromosome chr2
Read in values for 201 bins for chromosome chr2
chiptag contains 201 bins for chromosome chr3
Read in values for 201 bins for chromosome chr3
chiptag contains 201 bins for chromosome chr4
Read in values for 201 bins for chromosome chr4
chiptag contains 201 bins for chromosome chr5
Read in values for 201 bins for chromosome chr5
===Constructing the design matrices===

Error: processing vignette 'cssp.rnw' failed with diagnostics:
 chunk 5 (label = 3) 
Error in splines::bs(map, knots = quantile(map[map < 0.9], prob = seq(0.1,  : 
  non-finite knots

--- failed re-building ‘cssp.rnw’

SUMMARY: processing the following file failed:
  ‘cssp.rnw’

Error: Vignette re-building failed.
Execution halted