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* gnu/packages/geo.scm (josm): Update to 18360.
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* gnu/packages/bioinformatics.scm (stringtie): Update to 2.2.0.
[source]: Simplify snippet.
[arguments]: Add make-flags; update build phases.
[inputs]: Remove samtools-0.1; add bzip2, htslib-for-stringtie, and
libdeflate.
[license]: Change to Expat license.
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* gnu/packages/bioinformatics.scm (htslib-for-stringtie): New variable.
* gnu/packages/patches/htslib-for-stringtie.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
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* gnu/packages/security-token.scm (python-yubikey-manager): Update to 4.0.7.
[arguments]: Remove build phase customization; disable tests.
[inputs]: Remove yubikey-personalization and libusb.
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* gnu/packages/security-token.scm (python-fido2): Update to 0.9.3.
[source]: Do not use gexp for snippet.
[arguments]: Disable tests; remove trailing #T from build phase.
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* gnu/packages/gnome-xyz.scm (gpaste): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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* gnu/packages/python-xyz.scm (python-pystitcher): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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* gnu/packages/python-xyz.scm (python-pypdf3): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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* gnu/packages/python-xyz.scm (python-validators): Update to 0.18.2.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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* gnu/packages/maths.scm (dealii): Update to 9.3.2.
[source]: Add dealii-fix-compiliation-with-boost-1.78.patch and
dealii-fix-sundials.patch.
[inputs]: Use simplified format.
[native-inputs]: Use simplified format.
* gnu/packages/patches/dealii-fix-compiliation-with-boost-1.78.patch:
New file.
* gnu/packages/patches/dealii-fix-sundials.patch: New file.
* gnu/local.mk: Add new patch files.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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* gnu/packages/license.scm (reuse): Update to 0.14.0.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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* gnu/packages/emacs-xyz.scm (emacs-org-transclusion): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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* gnu/packages/mail.scm (notmuch)[native-inputs]: Remove labels.
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* gnu/packages/mail.scm (notmuch): Update to 0.34.3.
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* gnu/packages/emacs-xyz.scm (emacs-keycast): Update to 1.1.2.
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* gnu/packages/emacs-xyz.scm (emacs-org-fragtog): Update to 0.4.1.
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* gnu/packages/emacs-xyz.scm (emacs-posframe): Update to 1.1.6.
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* gnu/packages/package-management.scm (guix-build-coordinator): Update to
0-47.048c609.
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Earlier, the bind-rpc field of <laminar-configuration> was not used at
all. This was a bug.
* gnu/services/ci.scm (laminar-shepherd-service): Use bind-rpc to set
LAMINAR_BIND_RPC environment variable.
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* gnu/packages/video.scm (handbrake): Update to 1.5.1.
Signed-off-by: Leo Famulari <leo@famulari.name>
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* gnu/packages/music.scm (hydrogen): Update to 1.1.1.
Signed-off-by: Leo Famulari <leo@famulari.name>
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* gnu/packages/music.scm (strawberry): Update to 1.0.1.
Signed-off-by: Leo Famulari <leo@famulari.name>
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* gnu/packages/code.scm (kcov)[description]: Remove operating systems.
Edit slightly.
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* gnu/packages/code.scm (kcov): Update to 40.
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* gnu/packages/chez.scm (chez-scheme): Update to 9.5.6.
[source]: Remove patch.
[arguments]: Don't explicitly return #t from phases.
* gnu/packages/patches/chez-scheme-build-util-paths-backport.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
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* gnu/packages/mail.scm (astroid)[inputs]:
Remove input labels.
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* gnu/packages/mail.scm (astroid)[inputs]: Substitute webkitgtk-with-libsoup2
for webkitgtk.
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* gnu/packages/gnome.scm (libsoup-minimal): Update to 3.0.4.
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* gnu/packages/irc.scm (ii): Update to 1.9.
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* gnu/packages/firmware.scm (eg25-manager): Update to 0.4.2.
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* gnu/packages/diffoscope.scm (diffoscope): Update to 199.
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* gnu/packages/golang.scm (go-1.17): Update to 1.17.6.
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* gnu/packages/golang.scm (go-1.16): Update to 1.16.13.
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* gnu/packages/chromium.scm (ungoogled-chromium)[native-inputs]: Remove
the "master-preferences" gexp input. Remove all labels.
[arguments]: Convert to gexp. Inline the above-mentioned gexp. Remove one
usage of "gcc" label while at it.
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* gnu/packages/chromium.scm (ungoogled-chromium)[arguments]: Don't set CFLAGS
and CXXFLAGS, as the build system already does the right thing.
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* gnu/packages/chromium.scm (ungoogled-chromium)[arguments]: Remove substitution.
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* gnu/packages/chromium.scm (ungoogled-chromium)[inputs]: Remove labels.
[arguments]: Use SEARCH-INPUT-FILE & co as appropriate.
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* gnu/packages/linux.scm (i2c-tools)[arguments]: Use #$output to fix
cross-compilation.
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* gnu/packages/admin.scm (xfel): New variable.
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* gnu/packages/julia-xyz.scm (julia-simd): Update to 3.4.0.
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* gnu/packages/julia-xyz.scm (julia-bioalignments): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-intervaltrees): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-biosequences): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-biosymbols): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-yaml): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-stringencodings): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-automa): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-scanbyte): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-simd): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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* gnu/packages/julia-xyz.scm (julia-twiddle): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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