GNU bug report logs - #61656
[PATCH 00/24] Update some Bioconductor packages

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Ricardo Wurmus <rekado <at> elephly.net>
Cc: tracker <at> debbugs.gnu.org
Subject: bug#61656: closed ([PATCH 00/24] Update some Bioconductor packages)
Date: Fri, 24 Feb 2023 07:14:02 +0000

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Your message dated Fri, 24 Feb 2023 08:12:53 +0100
with message-id <87356vk02q.fsf <at> elephly.net>
and subject line Re: [bug#61656] [PATCH 00/24] Update some Bioconductor packages
has caused the debbugs.gnu.org bug report #61656,
regarding [PATCH 00/24] Update some Bioconductor packages
to be marked as done.

(If you believe you have received this mail in error, please contact
help-debbugs <at> gnu.org.)


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61656: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=61656
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From: Simon Tournier <zimon.toutoune <at> gmail.com>
To: guix-patches <at> gnu.org
Cc: Simon Tournier <zimon.toutoune <at> gmail.com>
Subject: [PATCH 00/24] Update some Bioconductor packages
Date: Mon, 20 Feb 2023 16:59:51 +0100

Hi,

Noting that the recent CRAN update breaks r-cytolib, here is a fix by
updating.  So let also take the opportunity for an update of Bioconductor.

Cheers,
simon


Simon Tournier (24):
  gnu: r-cytolib: Update to 2.10.1.
  gnu: r-annotationforge: Update to 1.40.1.
  gnu: r-bsgenome: Update to 1.66.3.
  gnu: r-deseq2: Update to 1.38.3.
  gnu: r-edger: Update to 3.40.2.
  gnu: r-genefilter: Update to 1.80.3.
  gnu: r-genomeinfodb: Update to 1.34.9.
  gnu: r-genomicfeatures: Update to 1.50.4.
  gnu: r-impute: Update to 1.72.3.
  gnu: r-limma: Update to 3.54.1.
  gnu: r-stringdb: Update to 2.10.1.
  gnu: r-variantannotation: Update to 1.44.1.
  gnu: r-oligo: Update to 1.62.2.
  gnu: r-interactionset: Update to 1.26.1.
  gnu: r-dnacopy: Update to 1.72.3.
  gnu: r-lpsymphony: Update to 1.26.3.
  gnu: r-massspecwavelet: Update to 1.64.1.
  gnu: r-biocfilecache: Update to 2.6.1.
  gnu: r-variancepartition: Update to 1.28.4.
  gnu: r-preprocesscore: Update to 1.60.2.
  gnu: r-scuttle: Update to 1.8.4.
  gnu: r-scran: Update to 1.26.2.
  gnu: r-gviz: Update to 1.42.1.
  gnu: r-tximeta: Update to 1.16.1.

 gnu/packages/bioconductor.scm | 99 +++++++++++++++++------------------
 1 file changed, 48 insertions(+), 51 deletions(-)


base-commit: 53e27f8abf1163e29fb5fc17af38b90a67a18138
-- 
2.38.1

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: Simon Tournier <zimon.toutoune <at> gmail.com>
Cc: 61656-done <at> debbugs.gnu.org
Subject: Re: [bug#61656] [PATCH 00/24] Update some Bioconductor packages
Date: Fri, 24 Feb 2023 08:12:53 +0100

Hi Simon,

> Noting that the recent CRAN update breaks r-cytolib, here is a fix by
> updating.  So let also take the opportunity for an update of Bioconductor.

Thank you for noticing, fixing, and upgrading!

I applied them all.

-- 
Ricardo

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