[R-pkg-team] Bug#1070843: r-bioc-s4vectors: autopkgtest regression with r-base 4.4.0

[Graham Inggs]

Source: r-bioc-s4vectors
Version: 0.40.2+dfsg-1
Severity: serious
X-Debbugs-Cc: Dirk Eddelbuettel <edd at debian.org>
User: debian-ci at lists.debian.org
Usertags: regression

Hi Maintainer

r-bioc-s4vectors' autopkgtest regresses when tested with r-base 4.4.0
[1].  I've copied what I hope is the relevant part of the log below.

Regards
Graham


[1] https://ci.debian.net/packages/r/r-bioc-s4vectors/testing/amd64/


125s > S4Vectors:::.test()
129s Timing stopped at: 0.009 0 0.009
129s Error in var(x) : is.atomic(y) is not TRUE
129s In addition: Warning messages:
129s 1: In combineUniqueCols(X, Y, Z, use.names = FALSE) :
129s different values in multiple instances of column 'dup', ignoring this
129s column in DFrame 2
129s 2: In combineUniqueCols(X, Y, Z) :
129s different values for shared rows in multiple instances of column 'dup',
129s ignoring this column in DFrame 2
129s 3: In combineUniqueCols(x, y2) :
129s different values for shared rows in multiple instances of column 'X',
129s ignoring this column in DFrame 2
130s Loading required package: GenomeInfoDb
132s
132s
132s RUNIT TEST PROTOCOL -- Thu May 9 22:12:10 2024
132s ***********************************************
132s Number of test functions: 74
132s Number of errors: 1
132s Number of failures: 0
132s
132s
132s 1 Test Suite :
132s S4Vectors RUnit Tests - 74 test functions, 1 error, 0 failures
132s ERROR in test_Rle_numerical: Error in var(x) : is.atomic(y) is not TRUE
132s
132s Test files with failing tests
132s
132s test_Rle-utils.R
132s test_Rle_numerical
132s
132s
132s Error in BiocGenerics:::testPackage("S4Vectors") :
132s unit tests failed for package S4Vectors
132s Calls: <Anonymous> -> <Anonymous>
132s Execution halted