gnu: make-rust-sysroot: Adjust for newer cross-gcc.

* gnu/packages/rust.scm (make-rust-sysroot/implementation)
[native-inputs]: Add gcc-14.

Change-Id: If9bc74bfe2e236accc39dc09e03b28dee62e332d

gnu: make-rust-sysroot: Simplify native-inputs.

* gnu/packages/rust.scm (make-rust-sysroot/implementation)
[native-inputs]: Combine the different modify-input branches into one.

Change-Id: Ia7df5d1566099f9934a76b2660f46a55547c88b9

gnu: make-rust-sysroot: Accept other mingw targets.

* gnu/packages/rust.scm (make-rust-sysroot/implementation)[arguments]:
Adjust the custom 'patch-for-mingw phase to generate the name of the
mingw input package based on the target architecture.
[inputs, native-inputs]: Use make-mingw-w64 to choose the mingw package
for the target.

Change-Id: I48638095a504675753e65fdb6f0286c31cebde66

gnu: glibc-dynamic-linker: Match all mingw systems.

* gnu/packages/bootstrap.scm (glibc-dynamic-linker): Match any system
which ends in '-mingw'.

Change-Id: I057e3d0abfc37f4b2b8784f444bbaf865c67ce3e

Partial revert "gnu: bootstrap: %bootstrap-gcc: Also wrap g++ for the 64bit Hurd."

This partially reverts commit 877b925df16740f9419d165d39cb7f191a86d5d1.

This part accidentally triggered a world rebuild for non-x86 architectures.

Change-Id: Iabc5422bb0e2bb37816ad437994af94d04830cb0

Partial revert "gnu: bootstrap: %bootstrap-glibc: Also fix libm.so."

This partially reverts commit 204fe1b1f05f4438d1cf72c568b45696e55e54c9.

This part accidentally triggered a world rebuild for non-x86 architectures.

Change-Id: I921984ef5eff58792ffc17b64675db6a8e79695c

Partial revert "gnu: make-bootstrap: Update gcc-static to gcc-14, for the 64bit Hurd."

This partially reverts commit ec8a5ec15f898e864705e5a5c834532e3fa8d0a4.

This part accidentally triggered a world rebuild for non-x86 architectures.

Change-Id: Id2f9bcbcda8dc86ea407e9a7857a854dc1a742b5

gnu: Add r-ggupset.

* gnu/packages/cran.scm (r-ggupset): New variable.

Change-Id: I044fff58b66dbb56e6b7fb1ebcb5353e7ab3d1f7

gnu: Add skewer.

* gnu/packages/bioinformatics.scm (skewer): New variable.

Change-Id: Ieeb95ed7449b91ea853d73ecca05e5436121df6a

gnu: packages/python-science: Update copyright header.

* gnu/packages/python-science.scm: Update copyright header for Antero
Mejr <antero@mailbox.org> .

Change-Id: I4153d51d74f7de1629d5a7851346021b77e7352d

gnu: Add python-scikit-surprise.

* gnu/packages/python-science.scm (python-scikit-surprise): New variable.

Change-Id: I9b5e13f0c985f34bb0bd759e76ebd27221a340a4
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>

gnu: ikiwiki: Fix build by disabling a test.

* gnu/packages/web.scm (ikiwiki)[arguments]: In stage "pre-check", disable
failing "t/t.po" test.

Change-Id: I4fc1240512b4d3df3ece837521116aee5746e181

Revert "news: Add entry for the Guix survey."

This reverts commit cd26d76fedb7ab13ad91bd5dcfce119892b8e62e.  See discussion
at <https://issues.guix.gnu.org/74549>.  Let's keep news.scm to direct user
impact/software (or at least not set a different precedent here).

Change-Id: I1a72474ad3c79bc59100979f35f0216f68f4e88e

doc: contributing: Remove --base=auto

* doc/contributing.texi(Sending a Patch Series): Remove --base=auto from
  examples

Change-Id: Idd421f9d6b592d6a314edfaa66404dee4c1b2241

doc: Explain `git format-patch` revision format

* doc/contributing.texi(Sending a Patch Series): Add a note about
`git format-patch` revision format and link to git documentation.

Change-Id: Ie08f85dc19e3804165fb184664b74e85a804d7c4

gnu: r-rcdt: Add missing input.

* gnu/packages/cran.scm (r-rcdt)[native-inputs]: Add r-testthat.

Change-Id: Ic5358aee6d5174052266dc01b81f618edf931cd2

import/cran: Enhance import pattern.

* guix/import/cran.scm (import-pattern): Comment; capture direct namespace
imports as well as silent imports.

Change-Id: Ia54035d6f230d695aa950adb3e691cbce4f2d416

import/cran: Also add set-HOME phase when R.cache exists.

* guix/import/cran.scm (phases-for-inputs): Add "R.cache" to the list.

Change-Id: Ia65beb7cd535de10b024d108a97db0169045fe1f

gnu: r-msnid: Disable vignettes.

* gnu/packages/bioconductor.scm (r-msnid)[arguments]: Disable vignettes.

Change-Id: I47dc4cf5b6d80699d4f22b2b92382ada7ca3322a

gnu: r-pcaexplorer: Add missing inputs.

* gnu/packages/bioconductor.scm (r-pcaexplorer)[native-inputs]: Add
r-airway and r-org-hs-eg-db.

Change-Id: Id559bea8cd4308058a06158e74d3e13d7f645572