system: Export default gdbinit.

* gnu/system/shadow.scm (%default-gdbinit): Extract from
default-skeletons, export.
(default-skeletons): Use %default-gdbinit.

Change-Id: Ia5188f8083a83ad4cdb96e234dbd730b1bfe0072

system: Export default xdefaults.

* gnu/system/shadow.scm (%default-xdefaults): Extract from
default-skeletons, export.
(default-skeletons): Use %default-xdefaults.

Change-Id: I44018516ec3687a68d32ca5c86c41bc29507a273

system: Export default zprofile.

* gnu/system/shadow.scm (%default-zprofile): Extract from
default-skeletons, export.
(default-skeletons): Use %default-zprofile.

Change-Id: I6c6e158bca2e462a2eae709fbc2c25a2c7f3f8b4

system: Export default bash-profile.

gnu/system/shadow.scm (%default-bash-profile): Extract from
default-skeletons, export.
(default-skeletons): Use %default-bash-profile.

Change-Id: I45641b1091daee3495a5f92bdc1a63050e0cc59e

teams: Add Wilko Meyer to kernel.

* etc/teams.scm: Add Wilko Meyer.

Change-Id: Ia7b85a090a4d8e81689bd137e1d12cb3708aa760
Signed-off-by: Leo Famulari <leo@famulari.name>

gnu: abjad-ext-ipython: Fix build.

* gnu/packages/music.scm (abjad-ext-ipython): Fix build.
[propagated-inputs]: Add python-sphinx-autodoc-typehints.

Change-Id: Id20c0527e61b8be194c5387c6c43fdf82ab5ff09

gnu: python-deepdish: Fix build.

* gnu/packages/python-science.scm (python-deepdish): Fix build.
[build-system]: Swap to pyproject-build-system.
[arguments]<#:test-flags>: Silent failing tests.

Change-Id: I4c4df66fc80434aaf5b95a7a62b83e0c1c02a4c6

import/cran: Add more invalid package names and translations.

These were encountered in a mass import of Bioconductor packages.

* guix/import/cran.scm (invalid-packages): Add "rtools".
(transform-sysname): Add aliases for Python and bioinformatics packages.

Change-Id: I97e13cee10c2ee85d4b9296d91afccbdbcec4946

import/cran: Add more invalid package names and translations.

* guix/import/cran.scm (invalid-packages): Add "build-essential".
(transform-sysname): Add aliases for openssl, libxml2, and zlib.

Change-Id: Ia142ebc388dbcd47caf3b2c5165bc21227bc1832

gnu: Add samtools-1.14.

* gnu/packages/bioinformatics.scm (samtools-1.14): New variable.

Change-Id: I0bd35b3865d7a417f55f1f768f7eb0c78a795e0f

gnu: samtools: Update to 1.19.

* gnu/packages/bioinformatics.scm (samtools): Update to 1.19.
[source]: Simplify snippet.

Change-Id: If0e02bbbc8e0443eb418c078dc47525f432d7ebe

gnu: htslib: Update to 1.19.

* gnu/packages/bioinformatics.scm (htslib): Update to 1.19.

Change-Id: I4d66d8ce37bfd335411a2acc6060f9a8c20c9e4a

gnu: htscodecs: Update to 1.6.0.

* gnu/packages/bioinformatics.scm (htscodecs): Update to 1.6.0.

Change-Id: Ibd5be30e8fbe7fe5d0ef494c1b1e0cd9ec3333cc

gnu: Add python-prisma.

* gnu/packages/databases.scm (python-prisma): New variable.

Change-Id: I7df9b5600fb49ef46a73678323bc29993f35fae2

gnu: Add python-strenum.

* gnu/packages/python-xyz.scm (python-strenum): New variable.

Change-Id: I6b6d64024db9358ea0a65cfd6c7cd6f94747de42

gnu: python-readpaf: Explicitly disable tests.

* gnu/packages/bioinformatics.scm (python-readpaf)[arguments]: Disable tests.

Change-Id: I28ddfa46675b74bd5073c12e5d33bcbf9dee8252

gnu: python-pyls-black: Fix build.

* gnu/packages/patches/python-pyls-black-41.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/python-xyz.scm (python-pyls-black)[source]: Add patch.
[build-system]: Use pyproject-build-system.
[arguments]: Disable one failing test.

Change-Id: I14b2982644e58c0b43d76838febc6dfceb220b15

import: crate: Simplify find-crate-version.

* guix/import/crate.scm (find-crate-version): Reuse
nonyanked-crate-versions, max-crate-version-of-semver.

Change-Id: I976a3b5a397f0d6a7d723804a98356544bfc7da3

import: crate: Update to latest semver version.

* guix/import/crate.scm (min-element, max-crate-version-of-semver,
nonyanked-crate-versions): New procedures.
(import-release)[version]: Update to the requested version or the newest
semver-compatible version.

Co-authored by David Elsing <david.elsing@posteo.net>
Change-Id: I72b081147c4eb9faf482f159b7145aaaf9f91f29

doc: Fix mistakes in the manual.

Recommended by Christian Miller.

* doc/guix.texi (Packages with Multiple Outputs): Replace 'a packages'
with 'a package'.
(Invoking guix time-machine): Don't assume knowledge and give an
explicit link to Back to the Future.
(Invoking guix pack): Remove doubled word.
(Build Systems): Same.
(Debugging Build Failures): 'inspect' is not a command to be run.
(Invoking guix import): Remove doubled word.
(Invoking guix size): Remove stray word.
(Invoking guix processes): Replace 'guix environment' with 'guix shell'.
(Base Services): Add missing word.
(Networking Setup): Adjust a/an usage.
(Networking Services): Remove stray symbol.  Add space between two
words.
(Desktop Services): Remove stray symbol from example.
(Database Services): Document default postgresql version.
(Web Services): Adjust indentation.
(Audio Services): Add missing newline.
(Miscellaneous Services): Switch 'get' to 'gets'.
(Bootloader Configuration): Remove stray symbol.
(Secure Shell): Remove marks around accepted values.
(Installing Debugging Files): Replace 'is' with 'it'.
(Full-Source Bootstrap): Remove doubled word.
(Preparing to Use the Bootstrap Binaries): Same.

Change-Id: Ifbf2677dff7642c6531384145363d7611286e48b