gnu: Fix source-url for some java packages.

For the apache updater to find the updates, the path-part of the source-url
must start with a single slash.

* gnu/packages/java.scm (java-apache-ivy,
  java-httpcomponents-httpcore)[source]: Fix url.

gnu: Add upstream-name to some java packages.

This will make the apache updater work.

* gnu/packages/java.scm Jjava-commons-bcel, java-commons-bsf,
  java-commons-dbcp, java-commons-jcs, java-commons-logging-minimal,
  java-commons-pool, java-httpcomponents-httpclient): [properies]: New field.

gnu: onetbb: Update to 2022.3.0.

* gnu/packages/oneapi.scm (onetbb): Update to 2022.3.0.

Change-Id: If883a90957fc3e01eb62bfc72c9d1359ba029e94

gnu: Add emacs-helm-comint.

* gnu/packages/emacs-xyz.scm (emacs-helm-comint): New variable.

Merges guix/guix#5290

Change-Id: I38fc5d3ec8eedb12f878125a99dedbc2ae742eeb

gnu: emacs-xyz: Add emacs-nftables-mode.

* gnu/packages/emacs-xyz (emacs-nftables-mode): New variable.

Merges guix/guix#5484

Change-Id: I4ec20df10c5ed902fd995aea8738c6c4afd76470
Modified-by: Cayetano Santos <csantosb@inventati.org>
Signed-off-by: Cayetano Santos <csantosb@inventati.org>

gnu: luanti: Update luanti-paths patch, per upstream comments.

* gnu/packages/patches/luanti-paths.patch: Update and add upstream-status
reference.

Change-Id: Id98ed5b20d24560f9a9b2b3aff03294e385fd468

gnu: emacs-lua-mode: 20221027-2.2f6b8d7.

* gnu/packages/emacs-xyz.scm (emacs-lua-mode): Update to 20221027-2.2f6b8d7.

Change-Id: Ic1bf4aee70e6ca95a17a50ea93bfc956cccaf037

gnu: hh-suite: Adjust for GCC@14.

* gnu/packages/bioinformatics.scm (hh-suite)[arguments]: New phase.

Change-Id: Ic1c6078febbffe6a81393c8a114ac4b41d269cda

gnu: phyml: Add font required by documentation.

* gnu/packages/bioinformatics.scm (phyml):
[native-inputs]: Add texlive-ec.
[arguments]<phases>: Replace /homeless-shelter by /tmp.

Change-Id: I2a1d1fb343d2dd333846093fece511fe8af1cd6e

gnu: velvet: Adjust for GCC@14 and documentation building.

* gnu/packages/bioinformatics.scm (velvet)
[arguments]:<make-flags>: Add incompatible-pointer-types.
<phases>: Allow TeXlive to create font.
[native-inputs]: Add texlive-ec.

Fixes: guix/guix#5471
Change-Id: I0d44b763a77a64c900f09efdea30d8a89d3b2496
Signed-off-by: Andreas Enge <andreas@enge.fr>

gnu: spindle: Fix missing dependency.

* gnu/packages/admin.scm (spindle)[inputs]: Add zlib.

Change-Id: If5b088f957a282921d931f52f5baf68ef34c0d24
Signed-off-by: Andreas Enge <andreas@enge.fr>

gnu: frei0r-plugins: Update source URI.

* gnu/packages/video.scm (frei0r-plugins)[source]: Update URI.

Reported-by: Nessah on IRC.
Change-Id: I28a32f89c0307f2cde0e573ebc075d19b272e5ca

gnu: cpuinfo: Update to 0.0-6.b3b2596.

* gnu/packages/parallel.scm (cpuinfo): Update to 0.0-6.b3b2596.
[native-inputs]: Add python-wrapper.
[arguments]<#:phases>: Remove ’skip-bad-test.
<#:configure-flags>: Use G-Expressions.

Merges guix/guix#5315

Change-Id: I3e69d6aea35656beda8992bab5114ddddad03872

gnu: debianutils: Use po4a-minimal.

Fixes #5372.

* gnu/packages/debian.scm (debianutils)[native-inputs]: Replace po4a
with po4a-minimal.

Change-Id: I55138731912fa7f616b0489b6f1517e8df575834

guix: lint: Check if minimal packages should be native-inputs.

* guix/lint.scm (check-inputs-should-be-native): Add minimal variants of
packages.

Change-Id: I8a05a5390092d776cb30c424b11645e650636ec0

guix: lint: Add another package to the minimal variant list.

* guix/lint.scm (check-inputs-should-use-a-minimal-variant): Add po4a.

Change-Id: Ibba2cfe0067690bd1c4c6768af4b6e1924758792

gnu: pijul: Add git integration.

* gnu/packages/version-control.scm (pijul)[arguments]: Add git to the
features.
[inputs]: Add libgit2-1.3, libssh2.

Change-Id: I1f66c818bb113187bcf4996a093fd40617a5cdc1

gnu: kodi: Fix build.

* gnu/packages/kodi.scm (kodi)[arguments]<#:phases>: Update versions in paths
  to match recent updates of java-commons-lang3 and java-commons-text.

Change-Id: Ibac3f22e01958581ca3dc1f2f2d1bfdb9111aeb5

gnu: java-commons-text: Update to 1.15.0.

* gnu/packages/java.scm (java-commons-text): Update to 1.15.0.

Change-Id: I9739199f2a994f2a7586dc24ae4e1efda53ed62e

gnu: java-commons-lang3: Update to 3.20.0.

* gnu/packages/java.scm (java-commons-lang3): Update to 3.20.0.
  [source]: Remove patch.
* gnu/packages/patches/java-commons-lang-fix-dependency.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Unregister patch.

Change-Id: I1d1c75d3e2204f6bc7d1eeaff29349024094d9f4