Your message dated Sun, 20 Sep 2020 23:33:39 +0000
with message-id <[email protected]>
and subject line Bug#970038: fixed in r-cran-seurat 3.2.1-1
has caused the Debian Bug report #970038,
regarding r-cran-seurat: dependency is missing (hdf5r)
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
970038: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=970038
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: r-cran-seurat
Version: 3.2.0-1
Severity: important
Dear Maintainer,
r-cran-remotes has not migrated to testing because of a regression detected by
autopkgtest:
https://ci.debian.net/data/autopkgtest/testing/amd64/r/r-cran-seurat/6977467/log.gz
This is the important part:
── 1. Error: (unknown) (@test_load_10X.R#34) ──────────────────────────────────
Please install hdf5r to read HDF5 files
Backtrace:
1. Seurat::Load10X_Spatial(data.dir = "../testdata/visium")
2. Seurat::Read10X_h5(...)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 392 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 1 ]
1. Error: (unknown) (@test_load_10X.R#34)
After some digging I noticed that the main change in version 3.2 is "Support
for analysis and visualization of spatially resolved datasets", and the
Seurat::Load10X_Spatial and Seurat::Read10X_h5 pre-processing functions depend
on the hdf5r R package. AFAICS this new dependency it is not available in the
archive. So in order to enable this feature the hdf5r package is needed. As
soon as we have this package in the archive it should be added as a test and
runtime dependency.
Cheers!
--
Lucas Kanashiro
--- End Message ---
--- Begin Message ---
Source: r-cran-seurat
Source-Version: 3.2.1-1
Done: Steffen Moeller <[email protected]>
We believe that the bug you reported is fixed in the latest version of
r-cran-seurat, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Steffen Moeller <[email protected]> (supplier of updated r-cran-seurat package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Mon, 14 Sep 2020 14:41:02 +0200
Source: r-cran-seurat
Architecture: source
Version: 3.2.1-1
Distribution: unstable
Urgency: medium
Maintainer: Debian R Packages Maintainers <[email protected]>
Changed-By: Steffen Moeller <[email protected]>
Closes: 970038
Changes:
r-cran-seurat (3.2.1-1) unstable; urgency=medium
.
[ Andreas Tille ]
* Test-Depends: r-cran-hdf5r (closes: #970038)
.
[ Steffen Moeller ]
* New upstream version
Also adding r-cran-hdf5r as a runtime dependency.
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