mbox series

[bug#47010,00/10] Move some Bioconductor packages to (gnu packages bioconductor).

Message ID 20210308175558.62461-1-zimon.toutoune@gmail.com
Headers show
Series Move some Bioconductor packages to (gnu packages bioconductor). | expand

Message

Simon Tournier March 8, 2021, 5:55 p.m. UTC 
Hi,

Janitor [1] patch set.  It moves Bioconductor packages from (gnu packages
bioinformatics) to (gnu packages bioconductor).  Far to be complete; still 6
pacth set like this one are coming...

1: <https://lists.gnu.org/archive/html/guix-commits/2020-09/msg00416.html>


To transfer the Copyright, I use:

   git --no-pager log --date=format:"%Y" --format="%ad %an %s" --grep=r-<name>

Then, after the move, I run:

   ./pre-inst-env guix build r-<name> --no-grafts
   ./pre-inst-env guix build r-<name> --no-grafts --check

and at the end of the series, I run:

    make as-derivation

to check that "guix pull" is not broken; just in case.

Last, I have not carefully checked the imported modules, so it could
be possible to perhaps remove couple of #:use-module (gnu packages <useless>)
in gnu/packages/bioinformatics.scm.

All the best,
simon

zimoun (10):
  gnu: r-genefilter: Move to (gnu packages bioconductor).
  gnu: r-deseq2: Move to (gnu packages bioconductor).
  gnu: r-dexseq: Move to (gnu packages bioconductor).
  gnu: r-annotationforge: Move to (gnu packages bioconductor).
  gnu: r-rbgl: Move to (gnu packages bioconductor).
  gnu: r-gseabase: Move to (gnu packages bioconductor).
  gnu: r-category: Move to (gnu packages bioconductor).
  gnu: r-gostats: Move to (gnu packages bioconductor).
  gnu: r-shortread: Move to (gnu packages bioconductor).
  gnu: r-systempiper: Move to (gnu packages bioconductor).

 gnu/packages/bioconductor.scm   | 354 ++++++++++++++++++++++++++++++++
 gnu/packages/bioinformatics.scm | 354 --------------------------------
 2 files changed, 354 insertions(+), 354 deletions(-)


base-commit: 612dc6dbe0904f39238a89d3b63ee66abd861b51

Comments

Ricardo Wurmus March 12, 2021, 1:54 p.m. UTC | #1 
Thank you, pushed to the “master” branch with commit df6b3c25bb.