[Bioc-devel] msqrob2 0.99.3 valid push and build started but no build report
L|even@C|ement @end|ng |rom UGent@be
Thu Apr 29 19:43:29 CEST 2021
My apologies for mailing you again.
I noticed that you are assigned to our msqrob2 package so I took the liberty to mail you directly.
I have pushed msqrob2 version 0.99.3 yesterday.
I received following message: "Received a valid push on git.bioconductor.org<http://git.bioconductor.org>; starting a build for commit id: 167129e2e63d0077079a1b16e2406eed1a5e950c"
But I do not seem to get a build report.
With the latest version update msqrob2 0.99.3 I tried to address as many notes as possible so as to lighten the burden for your review.
However, I did not know how I had to address the warning in the bioconductor build of msqrob2 0.99.2
"Found the following significant warnings:
Warning: no function found corresponding to methods exports from 'S4Vectors' for: 'combineRows' "
This warning did not occur in the build of msqrob2 0.99.1. with dependency on R 4.0 while it does version 0.99.2 that included a dependency on R 4.1.
I checked all files in the R/ directory and the NAMESPACE file of the msqrob2 package and I do not seem to find where I use the combineRows function. I guess it is imported by one of the packages that msqrob2 depends upon, e.g. QFeatures and summarizedExperiment import from S4vectors.
I also do not seem to have this warning on my system. (See sessionInfo below). On my system the R CMD checks run without warnings and notes and the BiocChecks also run without warnings nor errors and with 4 notes.
Thank you for handling our package,
R Under development (unstable) (2021-02-19 r80028)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Catalina 10.15.7
Matrix products: default
attached base packages:
 parallel stats4 stats graphics grDevices utils datasets
 methods base
other attached packages:
 msqrob2_0.99.2 QFeatures_1.1.3
 MultiAssayExperiment_1.17.13 SummarizedExperiment_1.21.1
 Biobase_2.51.0 GenomicRanges_1.43.3
 GenomeInfoDb_1.27.6 IRanges_2.25.6
 S4Vectors_0.29.7 BiocGenerics_0.37.1
 MatrixGenerics_1.3.1 matrixStats_0.58.0
loaded via a namespace (and not attached):
 nlme_3.1-152 ProtGenerics_1.23.7 bitops_1.0-6
 fs_1.5.0 xopen_1.0.0 usethis_2.0.1
 devtools_2.4.0 httr_1.4.2 rprojroot_2.0.2
 tools_4.1.0 utf8_1.1.4 R6_2.5.0
 lazyeval_0.2.2 withr_2.4.1 prettyunits_1.1.1
 processx_3.5.1 curl_4.3 compiler_4.1.0
 graph_1.69.0 cli_2.4.0 BiocCheck_1.27.13
 xml2_1.3.2 desc_1.3.0 DelayedArray_0.17.9
 callr_3.7.0 RBGL_1.67.0 digest_0.6.27
 commonmark_1.7 stringr_1.4.0 minqa_1.2.4
 stringdist_0.9.6.3 XVector_0.31.1 pkgconfig_2.0.3
 lme4_1.1-26 sessioninfo_1.1.1 fastmap_1.1.0
 limma_3.47.8 rlang_0.4.10 rstudioapi_0.13
 jsonlite_1.7.2 BiocParallel_1.25.4 RCurl_1.98-1.2
 magrittr_2.0.1 GenomeInfoDbData_1.2.4 Matrix_1.3-2
 Rcpp_1.0.6 fansi_0.4.2 MsCoreUtils_1.3.2
 lifecycle_1.0.0 stringi_1.5.3 MASS_7.3-53.1
 zlibbioc_1.37.0 pkgbuild_1.2.0 biocViews_1.59.3
 grid_4.1.0 crayon_1.4.1 lattice_0.20-41
 splines_4.1.0 knitr_1.31 ps_1.5.0
 pillar_1.5.0 optparse_1.6.6 RUnit_0.4.32
 boot_1.3-27 codetools_0.2-18 pkgload_1.2.1
 XML_3.99-0.5 glue_1.4.2 remotes_2.3.0
 BiocManager_1.30.10 vctrs_0.3.6 nloptr_126.96.36.199
 testthat_3.0.2 rcmdcheck_1.3.3 getopt_1.20.3
 purrr_0.3.4.9000 cachem_1.0.4 xfun_0.21
 AnnotationFilter_1.15.0 roxygen2_7.1.1 tibble_3.1.0
 memoise_2.0.0 statmod_1.4.35 ellipsis_0.3.1
[[alternative HTML version deleted]]
More information about the Bioc-devel