[R-pkg-team] Bug#972553: r-cran-seurat: autopkgtest regression

[Graham Inggs]

Source: r-cran-seurat
Version: 3.1.5-1
Severity: serious
Tags: sid bullseye
X-Debbugs-CC: debian-ci at lists.debian.org
User: debian-ci at lists.debian.org
Usertags: regression

Hi Maintainer

Since 2020-09-25, r-cran-seurat's autopkgtests have been failing in
testing [1], due to r-cran-hdf5r and r-bioc-monocle not being
available there.

However,  r-cran-seurat's tests currently also fail in unstable on
armhf [2], where r-cran-hdf5r
 and r-bioc-monocle are both available.

I've copied what I hope is the relevant part of the log below.

Regards
Graham


[1] https://ci.debian.net/packages/r/r-cran-seurat/testing/amd64/
[2] https://ci.debian.net/packages/r/r-cran-seurat/unstable/armhf/


> test_check("Seurat")
Registered S3 method overwritten by 'cli':
  method     from
  print.boxx spatstat
── 1. Error: (unknown) (@test_load_10X.R#34)  ──────────────────────────────────
HDF5-API ../../../src/H5T.c in H5Tget_class(): line 1876: not a datatype
        class: HDF5
        major: Invalid arguments to routine
        minor: Inappropriate type
Backtrace:
 1. Seurat::Load10X_Spatial(data.dir = "../testdata/visium")
 2. Seurat::Read10X_h5(...)
 4. hdf5r:::`[.H5D`(...)
 5. x$read(...)
 6. self$read_low_level(...)

══ testthat results  ═══════════════════════════════════════════════════════════
[ OK: 429 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 1 ]
1. Error: (unknown) (@test_load_10X.R#34)

Error: testthat unit tests failed
Execution halted