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2021-02-03Merge branch 'master' into core-updatesChristopher Baines
2021-02-01gnu: kaldi-gstreamer-server: Wrap with GUIX_PYTHONPATH.Maxim Cournoyer
* gnu/packages/machine-learning.scm (kaldi-gstreamer-server): [phases]{install}: Replace PYTHONPATH with GUIX_PYTHONPATH.
2021-02-01gnu: Adjust package collection to Wrap using GUIX_PYTHONPATH.Maxim Cournoyer
This change was automated using: $ git ls-files | grep .scm | \ xargs sed 's/(getenv "PYTHONPATH")/(getenv "GUIX_PYTHONPATH")/' -i $ git ls-files | grep .scm | \ xargs sed 's/`("PYTHONPATH"/`("GUIX_PYTHONPATH"/' -i * gnu/packages/admin.scm (nmap): (dstat): Wrap using GUIX_PYTHONPATH. * gnu/packages/audio.scm (jack-2): (carla): Likewise. * gnu/packages/benchmark.scm (fio): Likewise. * gnu/packages/bioinformatics.scm (couger): Likewise. (gess, find-circ, filtlong, nanopolish): Likewise. * gnu/packages/cdrom.scm (cdemu-client): Likewise. * gnu/packages/chemistry.scm (avogadro): Likewise. * gnu/packages/connman.scm (econnman): Likewise. * gnu/packages/cups.scm (hplip): Likewise. * gnu/packages/debug.scm (scanmem): Likewise. * gnu/packages/display-managers.scm (lightdm): Likewise. * gnu/packages/ebook.scm (cozy): Likewise. * gnu/packages/education.scm (anki): Likewise. * gnu/packages/engineering.scm (kicad, volk, freecad): Likewise. * gnu/packages/game-development.scm (renpy): Likewise. * gnu/packages/games.scm (roguebox-adventures) (seahorse-adventures, kajongg): Likewise. * gnu/packages/gimp.scm (gimp, glimpse): Likewise. * gnu/packages/glib.scm (itstool): Likewise. * gnu/packages/gnome.scm (gnome-music, gtg, rhythmbox): Likewise. (eolie, d-feet, gedit, caribou, gnome-shell, authenticator) (gnome-todo, orca, passwordsafe, terminator, setzer) (libratbag, komikku): Likewise. * gnu/packages/gps.scm (gpsd): Likewise. * gnu/packages/gtk.scm (gtk-doc): Likewise. * gnu/packages/ibus.scm (ibus, ibus-libpinyin, ibus-anthy) (ibus-libhangul): Likewise. * gnu/packages/inkscape.scm (inkscape-1.0): Likewise. * gnu/packages/linux.scm (bcc): Likewise. * gnu/packages/mail.scm (notifymuch): Likewise. * gnu/packages/maths.scm (units): Likewise. * gnu/packages/music.scm (solfege): Likewise. * gnu/packages/networking.scm (blueman): Likewise. * gnu/packages/patchutils.scm (patchwork): Likewise. * gnu/packages/photo.scm (rapid-photo-downloader, entangle): Likewise. * gnu/packages/plotutils.scm (asymptote): Likewise. * gnu/packages/presentation.scm (presentty): Likewise. * gnu/packages/screen.scm (byobu): Likewise. * gnu/packages/storage.scm (ceph): Likewise. * gnu/packages/syndication.scm (liferea): Likewise. * gnu/packages/task-management.scm (blanket): Likewise. * gnu/packages/text-editors.scm (manuskript): Likewise. * gnu/packages/version-control.scm (gitless, cgit, git-when-merged) (git-imerge): Likewise. * gnu/packages/video.scm (pitivi): Likewise. * gnu/packages/virtualization.scm (criu): Likewise. * gnu/packages/xfce.scm (catfish): Likewise.
2021-02-01gnu: ghmm: Do not set PYTHONPATH.Maxim Cournoyer
* gnu/packages/machine-learning.scm (ghmm): Remove trailing #t. [phases]: Do not reorder the check phase after the install phase. {fix-PYTHONPATH}: Remove phase.
2021-02-01gnu: tensorflow: Do not alter PYTHONPATH.Maxim Cournoyer
* gnu/packages/machine-learning.scm (tensorflow)[phases]: Delete trailing #t. {fix-python-build}: Do not alter PYTHONPATH.
2021-01-31gnu: Add python-threadpoolctl.Efraim Flashner
* gnu/packages/machine-learning.scm (python-threadpoolctl): New variable.
2021-01-27gnu: python-xyz: Move a few modules to (gnu packages python-build).Maxim Cournoyer
* gnu/packages/python-xyz.scm (python-pep517): Inherit from python-pep517-bootstrap. Remove the inherited common fields. (python-poetry-core, python-wheel) (python-toml): Move to ... * gnu/packages/python-build.scm: ... here, a new module. (python-pep517-bootstrap): New package. * gnu/local.mk (GNU_SYSTEM_MODULES): Register the new module.
2021-01-15gnu: python-xyz: Move a few modules to (gnu packages python-build).Maxim Cournoyer
* gnu/packages/python-xyz.scm (python-pep517): Inherit from python-pep517-bootstrap. Remove the inherited common fields. (python-poetry-core, python-wheel) (python-toml): Move to ... * gnu/packages/python-build.scm: ... here, a new module. (python-pep517-bootstrap): New package. * gnu/local.mk (GNU_SYSTEM_MODULES): Register the new module.
2020-12-12gnu: python-onnx: Update to 1.8.0.Vinicius Monego
* gnu/packages/machine-learning.scm (python-onnx): Update to 1.8.0. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2020-11-25gnu: Add python-opentsne.Vinicius Monego
* gnu/packages/machine-learning.scm (python-opentsne): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
2020-11-25gnu: Add python-pynndescent.Vinicius Monego
* gnu/packages/machine-learning.scm (python-pynndescent): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
2020-10-05gnu: python-keras: Fix build.Maxim Cournoyer
Fixes <https://issues.guix.gnu.org/39562>. * gnu/packages/machine-learning.scm (python-keras)[phases]{check}: Apply upstream fix to test_topology.py. Skip the failing test_selu test. Reported-by: Pierre Neidhardt <mail@ambrevar.xyz>
2020-10-02gnu: ocaml-mcl: Fix build.Maxim Cournoyer
It was failing on a /bin/sh occurrence patched twice in the configure script: sh: ./configure:/gnu/store/...-bash-minimal-5.0.16/gnu/store/...-bash-minimal-5.0.1:bad interpreter: No such file or directory * gnu/packages/machine-learning.scm (ocaml-mcl)[phases]{patch-paths}: Do not patch the configure script.
2020-09-11gnu: r-adaptivesparsity: Move to (gnu packages cran).zimoun
* gnu/packages/machine-learning.scm (r-adaptivesparsity): Move from here... * gnu/packages/cran.scm (r-adaptivesparsity): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-08-30gnu: vowpal-wabbit: Install more headers.Efraim Flashner
* gnu/packages/machine-learning.scm (vowpal-wabbit)[arguments]: Add 'install-more-headers phase to install more headers.
2020-08-13gnu: dlib: Install shared library.Efraim Flashner
Reported by Hamzeh Nasajpour <h.nasajpour@pantherx.org>. * gnu/packages/machine-learning.scm (dlib)[arguments]: Add configure-flag to build shared library. Remove custom 'delete-static-library phase.
2020-08-11gnu: openfst: Update to 1.7.9.Tobias Geerinckx-Rice
* gnu/packages/machine-learning.scm (openfst): Update to 1.7.9.
2020-08-03gnu: Add python-onnx.Vinicius Monego
* gnu/packages/machine-learning.scm (python-onnx): New variable. * gnu/packages/patches/python-onnx-use-system-googletest.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2020-07-12gnu: Remove ".git" from "https://github/…/….git".Ludovic Courtès
Until now, 'lookup-origin' and thus 'lookup-origin-revision' in (guix swh) would sometimes return #f for these because the ".git" URLs are redirects to the non-".git" URLs. Consequently, 'guix lint -c archival' would keep saying "scheduled Software Heritage archival"; likewise, the fallback download code would fail. * gnu/packages/ada.scm, gnu/packages/admin.scm, gnu/packages/aidc.scm, gnu/packages/algebra.scm, gnu/packages/android.scm, gnu/packages/animation.scm, gnu/packages/arcan.scm, gnu/packages/assembly.scm, gnu/packages/audio.scm, gnu/packages/authentication.scm, gnu/packages/avr.scm, gnu/packages/axoloti.scm, gnu/packages/backup.scm, gnu/packages/bash.scm, gnu/packages/benchmark.scm, gnu/packages/bioconductor.scm, gnu/packages/bioinformatics.scm, gnu/packages/bittorrent.scm, gnu/packages/boost.scm, gnu/packages/build-tools.scm, gnu/packages/c.scm, gnu/packages/calendar.scm, gnu/packages/cdrom.scm, gnu/packages/check.scm, gnu/packages/chemistry.scm, gnu/packages/chez.scm, gnu/packages/clojure.scm, gnu/packages/code.scm, gnu/packages/compression.scm, gnu/packages/compton.scm, gnu/packages/coq.scm, gnu/packages/cpp.scm, gnu/packages/cran.scm, gnu/packages/crypto.scm, gnu/packages/curl.scm, gnu/packages/databases.scm, gnu/packages/datastructures.scm, gnu/packages/debug.scm, gnu/packages/disk.scm, gnu/packages/distributed.scm, gnu/packages/django.scm, gnu/packages/dlang.scm, gnu/packages/dns.scm, gnu/packages/docker.scm, gnu/packages/education.scm, gnu/packages/efi.scm, gnu/packages/elixir.scm, gnu/packages/emacs-xyz.scm, gnu/packages/embedded.scm, gnu/packages/emulators.scm, gnu/packages/engineering.scm, gnu/packages/erlang.scm, gnu/packages/fabric-management.scm, gnu/packages/file-systems.scm, gnu/packages/finance.scm, gnu/packages/firmware.scm, gnu/packages/flashing-tools.scm, gnu/packages/fonts.scm, gnu/packages/fontutils.scm, gnu/packages/fpga.scm, gnu/packages/game-development.scm, gnu/packages/games.scm, gnu/packages/genealogy.scm, gnu/packages/genimage.scm, gnu/packages/geo.scm, gnu/packages/gimp.scm, gnu/packages/gl.scm, gnu/packages/gnome-xyz.scm, gnu/packages/gnome.scm, gnu/packages/gnuzilla.scm, gnu/packages/golang.scm, gnu/packages/gpodder.scm, gnu/packages/graph.scm, gnu/packages/graphics.scm, gnu/packages/graphviz.scm, gnu/packages/groff.scm, gnu/packages/groovy.scm, gnu/packages/gtk.scm, gnu/packages/guile-xyz.scm, gnu/packages/guile.scm, gnu/packages/hardware.scm, gnu/packages/haskell-apps.scm, gnu/packages/haskell-xyz.scm, gnu/packages/hexedit.scm, gnu/packages/i2p.scm, gnu/packages/ibus.scm, gnu/packages/image-processing.scm, gnu/packages/image-viewers.scm, gnu/packages/image.scm, gnu/packages/ipfs.scm, gnu/packages/java-graphics.scm, gnu/packages/java-maths.scm, gnu/packages/java.scm, gnu/packages/javascript.scm, gnu/packages/jrnl.scm, gnu/packages/julia.scm, gnu/packages/jupyter.scm, gnu/packages/kodi.scm, gnu/packages/language.scm, gnu/packages/lego.scm, gnu/packages/less.scm, gnu/packages/libusb.scm, gnu/packages/linux.scm, gnu/packages/lirc.scm, gnu/packages/lisp-xyz.scm, gnu/packages/llvm.scm, gnu/packages/logging.scm, gnu/packages/lolcode.scm, gnu/packages/lua.scm, gnu/packages/lxde.scm, gnu/packages/lxqt.scm, gnu/packages/machine-learning.scm, gnu/packages/mail.scm, gnu/packages/markup.scm, gnu/packages/maths.scm, gnu/packages/maven.scm, gnu/packages/mes.scm, gnu/packages/messaging.scm, gnu/packages/monitoring.scm, gnu/packages/mpd.scm, gnu/packages/music.scm, gnu/packages/networking.scm, gnu/packages/node-xyz.scm, gnu/packages/ocaml.scm, gnu/packages/ocr.scm, gnu/packages/onc-rpc.scm, gnu/packages/opencl.scm, gnu/packages/opencog.scm, gnu/packages/pantheon.scm, gnu/packages/password-utils.scm, gnu/packages/patchutils.scm, gnu/packages/pdf.scm, gnu/packages/perl6.scm, gnu/packages/phabricator.scm, gnu/packages/popt.scm, gnu/packages/printers.scm, gnu/packages/prolog.scm, gnu/packages/protobuf.scm, gnu/packages/pulseaudio.scm, gnu/packages/python-crypto.scm, gnu/packages/python-web.scm, gnu/packages/python-xyz.scm, gnu/packages/qt.scm, gnu/packages/radio.scm, gnu/packages/rails.scm, gnu/packages/rdf.scm, gnu/packages/rednotebook.scm, gnu/packages/rpc.scm, gnu/packages/rsync.scm, gnu/packages/ruby.scm, gnu/packages/rust.scm, gnu/packages/scheme.scm, gnu/packages/screen.scm, gnu/packages/security-token.scm, gnu/packages/selinux.scm, gnu/packages/serialization.scm, gnu/packages/shells.scm, gnu/packages/shellutils.scm, gnu/packages/simh.scm, gnu/packages/sml.scm, gnu/packages/ssh.scm, gnu/packages/statistics.scm, gnu/packages/stenography.scm, gnu/packages/sync.scm, gnu/packages/syncthing.scm, gnu/packages/synergy.scm, gnu/packages/telephony.scm, gnu/packages/terminals.scm, gnu/packages/tex.scm, gnu/packages/texinfo.scm, gnu/packages/text-editors.scm, gnu/packages/textutils.scm, gnu/packages/time.scm, gnu/packages/tmux.scm, gnu/packages/tor.scm, gnu/packages/toys.scm, gnu/packages/version-control.scm, gnu/packages/video.scm, gnu/packages/vim.scm, gnu/packages/virtualization.scm, gnu/packages/vlang.scm, gnu/packages/vnc.scm, gnu/packages/vpn.scm, gnu/packages/web-browsers.scm, gnu/packages/web.scm, gnu/packages/wireservice.scm, gnu/packages/wm.scm, gnu/packages/wxwidgets.scm, gnu/packages/xdisorg.scm, gnu/packages/xml.scm, gnu/packages/xorg.scm, tests/lint.scm: Remove trailing ".git" from 'git-reference' URL.
2020-07-01gnu: Move some lisp libraries.Guillaume Le Vaillant
Move the 3 lisp libraries that are not in lisp-xyz.scm with the others. * gnu/packages/machine-learning.scm (sbcl-cl-libsvm-format, cl-libsvm-format, ecl-cl-libsvm-format, sbcl-cl-online-learning, cl-online-learning, ecl-cl-online-learning, sbcl-cl-random-forest, cl-random-forest, ecl-cl-random-forest): Move to ... * gnu/packages/lisp-xyz.scm (sbcl-cl-libsvm-format, cl-libsvm-format, ecl-cl-libsvm-format, sbcl-cl-online-learning, cl-online-learning, ecl-cl-online-learning, sbcl-cl-random-forest, cl-random-forest, ecl-cl-random-forest): ... here.
2020-06-23gnu: lightgbm: Don't use unstable tarball.Efraim Flashner
* gnu/packages/machine-learning.scm (lightgbm)[source]: Download using git-fetch. [arguments]: Adjust custom 'check phase accordingly.
2020-06-16gnu: python-ipython: Use python-prompt-toolkit-2.Ricardo Wurmus
This prevents conflicting variants of python-prompt-toolkit from being installed, which prevented jupyter from being installed. * gnu/packages/python-xyz.scm (python-ipython)[propagated-inputs]: Replace python-prompt-toolkit with python-prompt-toolkit-2. (python-widgetsnbextension)[propagated-inputs]: Do not use prompt-toolkit-2-instead-of-prompt-toolkit on python-ipykernel. (python-ipywidgets)[propagated-inputs]: Do not use prompt-toolkit-2-instead-of-prompt-toolkit on python-ipython. (python-jupyter-console)[propagated-inputs]: Do not use prompt-toolkit-2-instead-of-prompt-toolkit on python-ipykernel. (prompt-toolkit-2-instead-of-prompt-toolkit): Remove variable. * gnu/packages/machine-learning.scm (python-iml)[propagated-inputs]: Do not use prompt-toolkit-2-instead-of-prompt-toolkit on python-ipython.
2020-06-10gnu: dlib: Update to 19.20.Tobias Geerinckx-Rice
* gnu/packages/machine-learning.scm (dlib): Update to 19.20.
2020-06-07gnu: sbcl-cl-random-forest: Remove obsolete fix.Guillaume Le Vaillant
* gnu/packages/machine-learning.scm (sbcl-cl-random-forest)[arguments]: Remove 'add-sb-cltl2-dependency' phase.
2020-05-30gnu: python-prompt-toolkit: Update to 3.0.5.Edouard Klein
* gnu/packages/machine-learning.scm (python-iml)[propagated-inputs]: Pin implicit python-prompt-toolkit dependency to version 2. * gnu/packages/python-xyz.scm (python-widgetsnbextension)[propagated-inputs]: Pin implicit python-prompt-toolkit dependency to version 2. (python-ipywidgets)[propagated-inputs]: Pin implicit python-prompt-toolkit dependency to version 2. (python-jupyter-console)[propagated-inputs]: Pin explicit python-prompt-toolkit dependency to version 2. (python-prompt-toolkit): Update to version 3.0.5. [propagated-inputs]: Remove PYTHON-SIX and PYTHON-PYGMENTS. [home-page]: Adjust to current. (python-prompt-toolkit-2): New variable. (prompt-toolkit-2-instead-of-prompt-toolkit): New variable. (python2-prompt-toolkit): Keep at version 2. (python-prompt-toolkit-1): Inherit from version 2. Signed-off-by: Marius Bakke <marius@gnu.org>
2020-05-30gnu: python-iml: Move nose from propagated to native input.Edouard Klein
* gnu/packages/machine-learning.scm (python-iml)[propagated-inputs]: Move PYTHON-NOSE ... [native-inputs]: ... here. Signed-off-by: Marius Bakke <marius@gnu.org>
2020-05-26gnu: python-iml: Use HTTPS home page.Edouard Klein
* gnu/packages/machine-learning.scm (python-iml)[home-page]: s/http/https/ Signed-off-by: Marius Bakke <marius@gnu.org>
2020-05-25gnu: tensorflow: Fix build with python-3.8.Efraim Flashner
* gnu/packages/machine-learning.scm (tensorflow)[arguments]: Also import python-version from python-build-system. Adjust 'python3.7-compatibility to also add python-3.8 compatibility. Adjust 'install-python to not hardcode the python version.
2020-04-30Merge branch 'master' into core-updatesMarius Bakke
Conflicts: gnu/local.mk gnu/packages/backup.scm gnu/packages/emacs-xyz.scm gnu/packages/guile.scm gnu/packages/lisp.scm gnu/packages/openldap.scm gnu/packages/package-management.scm gnu/packages/web.scm gnu/packages/xorg.scm
2020-04-30gnu: kaldi-gstreamer-server: Fix bug.Ricardo Wurmus
* gnu/packages/machine-learning.scm (kaldi-gstreamer-server)[arguments]: Patch master_server.py before build.
2020-04-30gnu: kaldi-gstreamer-server: Use Tornado 6.Ricardo Wurmus
* gnu/packages/machine-learning.scm (kaldi-gstreamer-server)[inputs]: Replace python-tornado with python-tornado-6.
2020-04-29gnu: kaldi-gstreamer-server: Update to 0-2.f68cab4.Ricardo Wurmus
* gnu/packages/machine-learning.scm (kaldi-gstreamer-server): Update to 0-2.f68cab4. [inputs]: Replace python-2 with python-wrapper, python2-pygobject with python-pygobject, python2-pyyaml with python-pyyaml, and python2-tornado with python-tornado; remove python2-ws4py-for-kaldi-gstreamer-server and python2-futures.
2020-04-28gnu: python-scikit-learn: Make python-joblib a propagated input.Konrad Hinsen
* gnu/packages/machine-learning.scm (python-scikit-learn) [native-inputs]: Move 'python-joblib' to ... [propagated-inputs]: ... here. Signed-off-by: Mathieu Othacehe <m.othacehe@gmail.com>
2020-04-28gnu: gst-kaldi-nnet2-online: Update to 0-2.cb227ef.Ricardo Wurmus
* gnu/packages/machine-learning.scm (gst-kaldi-nnet2-online): Update to 0-2.cb227ef.
2020-04-28gnu: kaldi: Update to 0-2.d4791c0.Ricardo Wurmus
* gnu/packages/machine-learning.scm (kaldi): Update to 0-2.d4791c0.
2020-04-27gnu: Add python-scikit-rebate.Roel Janssen
* gnu/packages/machine-learning.scm (python-scikit-rebate): New variable.
2020-04-13Merge branch 'master' into core-updatesMarius Bakke
2020-04-12gnu: shogun: Fix grammar of "allows to combine" to "combines".Vagrant Cascadian
* gnu/packages/machine-learning (shogun): Fix grammar.
2020-03-30Merge branch 'master' into core-updatesMarius Bakke
Conflicts: gnu/packages/admin.scm gnu/packages/commencement.scm gnu/packages/guile.scm gnu/packages/linux.scm gnu/packages/package-management.scm gnu/packages/pulseaudio.scm gnu/packages/web.scm
2020-03-29gnu: vowpal-wabbit: Don't use unstable tarball.Efraim Flashner
* gnu/packages/machine-learning.scm (vowpal-wabbit)[source]: Download using git-fetch. [arguments]: Add custom 'make-files-writable phase.
2020-03-21Merge branch 'master' into core-updatesMarius Bakke
2020-03-21gnu: python-scikit-learn: Use HTTPS home page.Tobias Geerinckx-Rice
* gnu/packages/machine-learning.scm (python-scikit-learn)[home-page]: Use HTTPS.
2020-03-21gnu: TensorFlow: Correct gRPC input.Marius Bakke
* gnu/packages/machine-learning.scm (tensorflow)[native-inputs]: Move GRPC:STATIC ... [inputs]: ... here.
2020-03-21gnu: gRPC: Update to 1.27.3.Marius Bakke
* gnu/packages/rpc.scm (grpc): Update to 1.27.3. [arguments]: Add "-DgRPC_ABSL_PROVIDER=package" in #:configure-flags. [inputs]: Add ABSEIL-CPP. (grpc-1.16.1): New public variable. * gnu/packages/hyperledger.scm (hyperledger-iroha)[inputs]: Change from GRPC to GRPC-1.16. * gnu/packages/machine-learning.scm (tensorflow)[native-inputs, inputs]: Likewise.
2020-03-21gnu: gRPC: Move to (gnu packages rpc).Marius Bakke
* gnu/packages/machine-learning.scm (grpc): Move to ... * gnu/packages/rpc.scm: ... here. New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Adjust accordingly. * gnu/packages/hyperledger.scm: Adjust module imports.
2020-03-18Merge branch 'master' into core-updatesMarius Bakke
2020-03-14Merge branch 'master' into core-updatesMarius Bakke
2020-03-17gnu: shogun: Use HTTPS home page.Tobias Geerinckx-Rice
* gnu/packages/machine-learning.scm (shogun)[home-page]: Use HTTPS.
2020-03-15gnu: python2-scikit-learn: Downgrade to 0.20.4.Marius Bakke
This is a follow-up to commit 546893c2965c8114e4d7cfe1de46c46664ec4b9e. * gnu/packages/machine-learning.scm (python-scikit-learn)[properties]: New field. (python2-scikit-learn)[version, source]: New fields.
2020-03-12gnu: grpc: Build shared libraries.Efraim Flashner
* gnu/packages/machine-learning.scm (grpc)[outputs]: Add static. [arguments]: Copy configure-flags from cmake-build-system. Add custom phases 'configure-shared, 'install-shared-libraries and 'move-static-libs to build shared libs and move static libs to their own output. (tensorflow)[native-inputs]: Add grpc:static.
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