Back to Build/check report for BioC 3.17 |
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This page was generated on 2023-02-08 01:15:06 -0000 (Wed, 08 Feb 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4164 |
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 |
To the developers/maintainers of the GeomxTools package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GeomxTools.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 791/2164 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
GeomxTools 3.3.0 (landing page) Nicole Ortogero
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | ERROR | skipped | |||||||||
Package: GeomxTools |
Version: 3.3.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data GeomxTools |
StartedAt: 2023-02-06 08:42:11 -0000 (Mon, 06 Feb 2023) |
EndedAt: 2023-02-06 08:51:23 -0000 (Mon, 06 Feb 2023) |
EllapsedTime: 551.8 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data GeomxTools ### ############################################################################## ############################################################################## * checking for file ‘GeomxTools/DESCRIPTION’ ... OK * preparing ‘GeomxTools’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘Developer_Introduction_to_the_NanoStringGeoMxSet.Rmd’ using rmarkdown --- finished re-building ‘Developer_Introduction_to_the_NanoStringGeoMxSet.Rmd’ --- re-building ‘GeomxSet_coercions.Rmd’ using rmarkdown Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| | | | 0% | |=================================== | 50% | |======================================================================| 100% Using method 'umap' 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| | | | 0% | |=================================== | 50% | |======================================================================| 100% Using method 'umap' 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Quitting from lines 313-314 (GeomxSet_coercions.Rmd) Error: processing vignette 'GeomxSet_coercions.Rmd' failed with diagnostics: there is no package called 'SpatialExperiment' --- failed re-building ‘GeomxSet_coercions.Rmd’ --- re-building ‘Protein_in_GeomxTools.Rmd’ using rmarkdown --- finished re-building ‘Protein_in_GeomxTools.Rmd’ SUMMARY: processing the following file failed: ‘GeomxSet_coercions.Rmd’ Error: Vignette re-building failed. Execution halted