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7738 Commits

Author SHA1 Message Date
Ricardo Wurmus 0fc4213642 gnu: r-viridis: Update to 0.3.4. 
* gnu/packages/statistics.scm (r-viridis): Update to 0.3.4.
 2016-04-26 17:06:18 +02:00
Ricardo Wurmus 3646bf2082 gnu: r-matrixstats: Update to 0.50.1. 
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.50.1.
 2016-04-26 17:06:18 +02:00
Ricardo Wurmus 799ef55b15 gnu: r-r-rsp: Update to 0.21.0. 
* gnu/packages/statistics.scm (r-r-rsp): Update to 0.21.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 801e9e7399 gnu: r-r-utils: Update to 2.3.0. 
* gnu/packages/statistics.scm (r-r-utils): Update to 2.3.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus b2436f6af9 gnu: r-r-oo: Update to 1.20.0. 
* gnu/packages/statistics.scm (r-r-oo): Update to 1.20.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 887d45d466 gnu: r-r-methodss3: Update to 1.7.1. 
* gnu/packages/statistics.scm (r-r-methodss3): Update to 1.7.1.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 1e4abc0fee gnu: r-xml: Update to 3.98-1.4. 
* gnu/packages/statistics.scm (r-xml): Update to 3.98-1.4.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 1647e10ebd gnu: r-gridextra: Update to 2.2.1. 
* gnu/packages/statistics.scm (r-gridextra): Update to 2.2.1.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 810e4195fd gnu: r-gtable: Update to 0.2.0. 
* gnu/packages/statistics.scm (r-gtable): Update to 0.2.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 0d1ffadc1d gnu: r-rmarkdown: Update to 0.9.5. 
* gnu/packages/statistics.scm (r-rmarkdown): Update to 0.9.5.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 408c2d6937 gnu: r-plotrix: Update to 3.6-1. 
* gnu/packages/statistics.scm (r-plotrix): Update to 3.6-1.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus cf3568a05d gnu: r-devtools: Update to 1.11.0. 
* gnu/packages/statistics.scm (r-devtools): Update to 1.11.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus b5c574c61d gnu: r-rstudioapi: Update to 0.5. 
* gnu/packages/statistics.scm (r-rstudioapi): Update to 0.5.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 06a4af1283 gnu: r-git2r: Update to 0.14.0. 
* gnu/packages/statistics.scm (r-git2r): Update to 0.14.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 904fa49de6 gnu: r-roxygen2: Update to 5.0.1. 
* gnu/packages/statistics.scm (r-roxygen2): Update to 5.0.1.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 2448c723b7 gnu: r-cluster: Update to 2.0.4. 
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.4.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 618dbdd7c0 gnu: r-memoise: Update to 1.0.0. 
* gnu/packages/statistics.scm (r-memoise): Update to 1.0.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 8e4edf0802 gnu: r-microbenchmark: Update to 1.4-2.1. 
* gnu/packages/statistics.scm (r-microbenchmark): Update to 1.4-2.1.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus bb61b765c0 gnu: r-knitr: Update to 1.12.3. 
* gnu/packages/statistics.scm (r-knitr): Update to 1.12.3.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 1cfa88e988 gnu: r-formatr: Update to 1.3. 
* gnu/packages/statistics.scm (r-formatr): Update to 1.3.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 49089e06ec gnu: r-evaluate: Update to 0.8.3. 
* gnu/packages/statistics.scm (r-evaluate): Update to 0.8.3.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 2c8fa9d702 gnu: r-bh: Update to 1.60.0-1. 
* gnu/packages/statistics.scm (r-bh): Update to 1.60.0-1.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus b268e49691 gnu: r-ggplot2: Update to 2.1.0. 
* gnu/packages/statistics.scm (r-ggplot2): Update to 2.1.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus cf2e19a95a gnu: r-scales: Update to 0.4.0. 
* gnu/packages/statistics.scm (r-scales): Update to 0.4.0.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 9ee6d314c4 gnu: r-stringi: Update to 1.0-1. 
* gnu/packages/statistics.scm (r-stringi): Update to 1.0-1.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus a99bed8cf3 gnu: r-munsell: Update to 0.4.3. 
* gnu/packages/statistics.scm (r-munsell): Update to 0.4.3.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus fe2087ccd8 gnu: r-digest: Update to 0.6.9. 
* gnu/packages/statistics.scm (r-digest): Update to 0.6.9.
[arguments]: Disable tests and vignettes.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus bae7953852 gnu: Add r-hexbin. 
* gnu/packages/statistics.scm (r-hexbin): New variable.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 94b7e9b7b4 gnu: Add r-tidyr. 
* gnu/packages/statistics.scm (r-tidyr): New variable.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus c26c062838 gnu: Add r-openssl. 
* gnu/packages/statistics.scm (r-openssl): New variable.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 35b2001a14 gnu: Add r-praise. 
* gnu/packages/statistics.scm (r-praise): New variable.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus fb868e3395 gnu: r-acsnminer: Update to 0.16.01.29. 
* gnu/packages/bioinformatics.scm (r-acsnminer): Update to 0.16.01.29.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus e1c2ad6777 gnu: r-qtl: Update to 1.39-5. 
* gnu/packages/bioinformatics.scm (r-qtl): Update to 1.39-5.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 2ff8212eb9 gnu: r-curl: Update to 0.9.7. 
* gnu/packages/web.scm (r-curl): Update to 0.9.7.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus c0bfa472bd gnu: r-htmlwidgets: Update to 0.6. 
* gnu/packages/web.scm (r-htmlwidgets): Update to 0.6.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 46a2d1b66f gnu: r-servr: Update to 0.4. 
* gnu/packages/web.scm (r-servr): Update to 0.4.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus 73d5d4aa63 gnu: r-jsonlite: Update to 0.9.19. 
* gnu/packages/web.scm (r-jsonlite): Update to 0.9.19.
 2016-04-26 17:06:17 +02:00
Ricardo Wurmus c587725a69 gnu: r-rcpp: Update to 0.12.4. 
* gnu/packages/statistics.scm (r-rcpp): Update to 0.12.4.
 2016-04-26 17:06:17 +02:00
Roel Janssen 6b49a37e6b gnu: Add filevercmp. 
* gnu/packages/bioinformatics.scm (filevercmp): New variable.
 2016-04-26 16:41:15 +02:00
Efraim Flashner 547cb17daf gnu: pinentry: Update to 0.9.7. 
* gnu/packages/gnupg.scm (pinentry): Update to 0.9.7.
 2016-04-26 15:28:54 +03:00
Alex Kost 82f4414271 gnu: manaplus: Update to 1.6.4.23. 
* gnu/packages/games.scm (manaplus): Update to 1.6.4.23.
 2016-04-26 12:41:26 +03:00
Alex Kost d1dfa22f9f gnu: git-modes: Update to 1.2.2. 
* gnu/packages/emacs.scm (git-modes): Update to 1.2.2.
 2016-04-26 12:41:26 +03:00
Alex Kost ffefa3da1a gnu: emacs-with-editor: Update to 2.5.1. 
* gnu/packages/emacs.scm (emacs-with-editor): Update to 2.5.1.
 2016-04-26 12:41:26 +03:00
Alex Kost edf6015c7d gnu: magit: Update to 2.6.1. 
* gnu/packages/emacs.scm (magit): Update to 2.6.1.
 2016-04-26 12:41:25 +03:00
Kei Yamashita f674439433 gnu: Add xfce4-taskmanager. 
* gnu/packages/xfce.scm (xfce4-taskmanager): Add variable.
 2016-04-26 09:25:03 +08:00
Eric Bavier f79ee25f32 gnu: woff2: Fix build parallelism. 
* gnu/packages/patches/woff2-libbrotli.patch: Add dependency of
executables on object files.
 2016-04-25 18:38:50 -05:00
Efraim Flashner a800018e03 gnu: python2-pysnptools: Update to 0.3.9. 
* gnu/packages/python.scm (python2-pysnptools): Update to 0.3.9.
[propagated-inputs]: Add python2-pytz. Move python2-pandas ...
[inputs]: ... to here. Add python2-dateutil-2, python2-six.
 2016-04-25 23:35:39 +03:00
Efraim Flashner 783fb0a3a2 gnu: python-terminado: Update to 0.6. 
* gnu/packages/python.scm (python-terminado): Update to 0.6.
[inputs]: Remove python-setuptools. Move python-nose ...
[native-inputs]: ... to here.
[properties]: Define python2-variant.
(python2-terminado): Build with 'strip-python2-variant'.
[native-inputs]: Add python2-setuptools.
 2016-04-25 17:19:54 +03:00
Efraim Flashner bdb67d846c gnu: python-singledispatch: Rearrange inputs. 
* gnu/packages/python.scm (python-singledispatch)[propagated-inputs]:
Move python-six ...
[inputs]: ... to here.
 2016-04-25 17:17:51 +03:00
Efraim Flashner b455439bcd gnu: python-tornado: Rearrange inputs. 
* gnu/packages/python.scm (python-tornado)[properties]: Define
python2-variant.
[inputs]: Remove python-certifi, move python-backports-abc here from
native-inputs.
[native-inputs]: Remove python-setuptools.
(python2-tornado): Build with 'strip-python2-variant'.
[native-inputs]: Add python2-setuptools.
 2016-04-25 15:50:22 +03:00
Efraim Flashner fc899d4f73 gnu: python-seaborn: Update to 0.7.0. 
* gnu/packages/python.scm (python-seaborn): Update to 0.7.0.
[native-inputs]: Remove python-setuptools.
(python2-seaborn): Build with 'strip-python2-variant'.
[propagated-inputs]: Add python2-pytz.
[native-inputs]: Add python2-setuptools.
 2016-04-25 15:28:00 +03:00
Efraim Flashner 4260372671 gnu: python-pandas: Rearrange inputs. 
* gnu/packages/python.scm (python-pandas)[propagated-inputs]: Move
python-pytz, python-dateutil-2 ...
[inputs]: ... to here.
 2016-04-25 15:27:59 +03:00
宋文武 85f0945916 gnu: xfce: Add ristretto. 
* gnu/packages/xfce.scm (xfce)[propagated-inputs]: Add ristretto.
 2016-04-25 08:30:54 +08:00
Kei Yamashita 8e6352870d gnu: Add ristretto. 
* gnu/packages/xfce.scm (ristretto): Add variable.
 2016-04-25 08:27:53 +08:00
Leo Famulari 763dd00b72 gnu: ncmpcpp: Update to 0.7.4. 
* gnu/packages/mpd.scm (ncmpcpp): Update to 0.7.4.
 2016-04-24 19:25:29 -04:00
Leo Famulari 74182c4f31 gnu: borg: Update to 1.0.2. 
* gnu/packages/backup.scm (borg): Update to 1.0.2.
 2016-04-24 18:59:06 -04:00
David Thompson 4960beaa23 gnu: haunt: Update to 0.2. 
* gnu/packages/guile.scm (haunt): Update to 0.2.
[native-inputs]: Add pkg-config and texinfo.
[propagated-inputs]: Add guile-reader.
 2016-04-24 18:01:33 -04:00
Erik Edrosa 76e6e663f5
gnu: guile-minikanren: Remove extra .scm on files. 
* gnu/packages/guile.scm (guile-minikanren): Remove extra .scm appended
to files.
 2016-04-24 23:47:21 +02:00
Ludovic Courtès ae20189681
gnu: guix: Update development snapshot. 
* gnu/packages/package-management.scm (guix-devel): Update to 80627f5.
 2016-04-24 23:46:06 +02:00
Leo Famulari 80c1375974 gnu: openldap: Update to 2.4.44 [fixes CVE-2015-6908]. 
* gnu/packages/openldap.scm (openldap)[replacement]: New field.
(openldap-2.4.44): New variable.
 2016-04-24 15:01:41 -04:00
Efraim Flashner f0412aa2bd gnu: python-feedgenerator: Update to 1.8. 
* gnu/packages/python.scm (python-feedgenerator): Update to 1.8.
[arguments]: Remove configure flags.
[inputs]: Move python-setuptools, python-pytz, python-six ...
[native-inputs]: ... to here.
[home-page]: Update project's home-page.
 2016-04-24 21:49:42 +03:00
Efraim Flashner d9f2dece1f gnu: pelican: Rearrange inputs. 
* gnu/packages/python.scm (pelican)[native-inputs]: Remove
python-setuptools.
[propagated-inputs]: Move python-feedgenerator, python-jinja2,
python-pygments, python-docutils, python-pytz, python-blinker,
python-unidecode, python-six, python-dateutil-2 ...
[inputs]: ... to here.
 2016-04-24 21:20:42 +03:00
Efraim Flashner 194d0d9843 gnu: python2-itsdangerous: Use 'strip-python2-variant'. 
* gnu/packages/python.scm (python2-itsdangerous): Use
'strip-python2-variant'.
[native-inputs]: Add python2-setuptools.
(python-itsdangerous)[inputs]: Remove python-setuptools.
[properties]: Define python2-variant.
 2016-04-24 20:41:15 +03:00
Efraim Flashner 59f151ec54 gnu: python2-oauthlib: Use python2-variant. 
* gnu/packages/python.scm (python2-oauthlib): Use 'strip-python2-variant'.
[native-inputs]: Add python2-setuptools.
(python-oauthlib)[inputs]: Remove python-setuptools.
[properties]: Define python2-variant for python2-oauthlib.
 2016-04-24 20:31:23 +03:00
Ben Woodcroft 79b555edeb gnu: samtools: Update to 1.3.1. 
* gnu/packages/bioinformatics.scm (samtools): Update to 1.3.1.
 2016-04-24 09:45:07 +10:00
Mark H Weaver e969b140a4 Revert "Merge branch 'gnome-updates'" 
This reverts commit 63655d459e, reversing
changes made to 80627f51f0.
 2016-04-23 13:13:53 -04:00
Mark H Weaver 267061ba0b Revert "gnu: inkscape: Fix build with glibmm-2.48." 
This reverts commit 0118c6ab62.
 2016-04-23 13:12:53 -04:00
Mark H Weaver e4a7039e46 Revert "gnu: geoclue: Update to 2.4.3." 
This reverts commit 71a8d3b67c.
 2016-04-23 13:12:51 -04:00
Mark H Weaver c4eefd63fa Revert "gnu: gjs: Skip test_utf8_inout test." 
This reverts commit 63e7796f62.
 2016-04-23 13:12:49 -04:00
宋文武 63e7796f62 gnu: gjs: Skip test_utf8_inout test. 
* gnu/packages/gnome.scm (gjs)[arguments]: Skip test_utf8_inout test.
 2016-04-23 20:15:32 +08:00
宋文武 71a8d3b67c gnu: geoclue: Update to 2.4.3. 
* gnu/packages/gnome.scm (geoclue): Update to 2.4.3.
 2016-04-23 20:15:32 +08:00
Mark H Weaver 0118c6ab62 gnu: inkscape: Fix build with glibmm-2.48. 
* gnu/packages/patches/inkscape-drop-wait-for-targets.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/inkscape.scm (inkscape)[source]: Add patch.
 2016-04-23 05:05:18 -04:00
Leo Famulari e993fb8493 gnu: imlib2: Fix CVE-2016-4024. 
* gnu/packages/patches/imlib2-CVE-2016-4024.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/image.scm (imlib2): Use it.
 2016-04-22 23:59:37 -04:00
Leo Famulari baa8be83e9 gnu: imlib2: Update to 1.4.8. 
gnu/packages/image.scm (imlib2): Update to 1.4.8.
 2016-04-22 23:58:33 -04:00
宋文武 63655d459e Merge branch 'gnome-updates' 2016-04-23 10:19:32 +08:00
Mark H Weaver 80627f51f0 gnu: webkitgtk-2.4: Update to 2.4.11. 
* gnu/packages/webkit.scm (webkitgtk-2.4): Update to 2.4.11.
 2016-04-22 22:05:45 -04:00
Mark H Weaver bd2048585a gnu: webkitgtk: Update to 2.12.1. 
* gnu/packages/webkit.scm (webkitgtk): Update to 2.12.1.
 2016-04-22 22:05:45 -04:00
Mark H Weaver c1ed117941 gnu: linux-libre-4.1: Update to 4.1.22. 
* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.22.
 2016-04-22 21:50:00 -04:00
Mark H Weaver 01963db007 gnu: linux-libre-4.4: Update to 4.4.8. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.8.
 2016-04-22 21:50:00 -04:00
Mark H Weaver a2cc073aa2 gnu: linux-libre: Update to 4.5.2. 
* gnu/packages/linux.scm (linux-libre): Update to 4.5.2.
 2016-04-22 21:50:00 -04:00
Mathieu Lirzin dc9bdb1e27 gnu: Add acpi. 
* gnu/packages/linux.scm (acpi): New variable.
 2016-04-21 17:49:10 +02:00
Efraim Flashner f8f83e9d21 gnu: python-mox3: Update to 0.14.0. 
* gnu/packages/openstack.scm (python-mox3): Update to 0.14.0.
[inputs]: Move python-fixtures, python-pbr, python-setuptools,
python-six, python-testtools ...
[native-inputs]: ... to here.
 2016-04-20 16:18:58 +03:00
Efraim Flashner 4b42bd941b gnu: python-stevedore: Update to 1.12.0. 
* gnu/packages/openstack.scm (python-stevedore): Update to 1.12.0.
[inputs]: Move python-setuptools, python-docutils, python-mock,
python-oslotest, python-sphinx ...
[native-inputs]: ... to here.
 2016-04-20 16:18:58 +03:00
Ricardo Wurmus 458b47e31b gnu: armadillo: Update to 6.700.4. 
* gnu/packages/maths.scm (armadillo): Update to 6.700.4.
 2016-04-20 14:21:30 +02:00
Leo Famulari 083b3a0e25 gnu: git: Update to 2.7.4 [fixes CVE-2016-2315 and CVE-2016-2324]. 
* gnu/packages/version-control.scm (git): Update to 2.7.4.
(git-manpages)[source]: Update hash.
 2016-04-19 20:39:05 -04:00
Efraim Flashner ab39d8cbc1 gnu: aria2: Update to 1.22.0. 
* gnu/packages/bittorrent.scm (aria2): Update to 1.22.0.
 2016-04-20 02:49:51 +03:00
Efraim Flashner ad25a1fab4 gnu: mpv: Update to 0.17.0. 
* gnu/packages/video.scm (mpv): Update to 0.17.0.
 2016-04-19 23:52:42 +03:00
Hartmut Goebel 1ad15c1669 gnu: Rename Java packages to match new naming specification. 
* gnu/packages/bioinformatics.scm (htsjdk): Rename to...
(java-htsjdk): ...this.
(ngs-java): Rename to...
(java-ngs): ...this.
(ncbi-vdb)[arguments,inputs]: Use new name.
* gnu/packages/java.scm (swt): Rename to...
(java-swt): ...this.
* gnu/packages/music.scm (tuxguitar)[make-flags,inputs,arguments]: Use
new name of package "swt".
 2016-04-19 16:55:03 +02:00
Ricardo Wurmus 4d16cc5133 gnu: python2-plastid: Propagate setuptools. 
* gnu/packages/bioinformatics.scm (python2-plastid)[native-inputs]: Move
python2-setuptools from here...
[propagated-inputs]: ...to here.
 2016-04-19 16:12:51 +02:00
Ricardo Wurmus 8694dca8f3 gnu: r: Update to 3.2.5. 
* gnu/packages/statistics.scm (r): Update to 3.2.5.
 2016-04-19 14:44:29 +02:00
Ricardo Wurmus 349a314765 gnu: Add icedtea-8. 
* gnu/packages/java.scm (icedtea-8): New variable.
 2016-04-19 14:44:29 +02:00
宋文武 a4e885f626 glib: Fix tests. 
* gnu/packages/glib.scm (glib)[arguments]: Disable the "/application/local-actions"
test in 'disable-failing-tests' phase.
 2016-04-19 20:02:44 +08:00
Ricardo Wurmus f94bf1983b gnu: Add python-plastid. 
* gnu/packages/bioinformatics.scm (python-plastid, python2-plastid): New
  variables.
 2016-04-19 12:16:01 +02:00
Ricardo Wurmus 4db9433aa0 gnu: Add python-twobitreader. 
* gnu/packages/bioinformatics.scm (python-twobitreader,
  python2-twobitreader): New variables.
 2016-04-19 12:16:01 +02:00
Danny Milosavljevic 3fd4b90d1d gnu: Add cabextract. 
* gnu/packages/compression.scm (cabextract): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-04-18 16:02:53 -04:00
Kei Yamashita c21a256272 gnu: Add dillo. 
* gnu/packages/dillo.scm: New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Add it.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-04-18 15:45:41 -04:00
Kei Yamashita cf1b55bd32 gnu: fltk: Add Xft support. 
* gnu/packages/fltk.scm (fltk)[inputs]: Add libxft.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-04-18 15:39:34 -04:00
Ludovic Courtès cd76fbde6f gnu: vlc: Make 'plugins.dat' generation reproducible. 
Fixes <http://bugs.gnu.org/23307>.

* gnu/packages/video.scm (vlc)[arguments]: Add #:phases.
 2016-04-18 15:39:43 +02:00
Ludovic Courtès 4ef2721b52 gnu: vlc: Do not capture the build time. 
* gnu/packages/video.scm (vlc)[source]: Add 'snippet'.
 2016-04-18 12:08:31 +02:00
Ludovic Courtès b4dff93550 gnu: vlc: Build against ffmpeg 2.8. 
Fixes <http://bugs.gnu.org/23256>.
Reported by Christopher Allan Webber <cwebber@dustycloud.org>.

* gnu/packages/video.scm (vlc): Use FFMPEG-2.8 instead of FFMPEG.
 2016-04-18 11:58:15 +02:00