| Age | Commit message (Expand) | Author |
|---|
| 2020-06-22 | gnu: python-plotly: Update to 4.8.1....But keep version 2.4.1 around for packages that still need it and for python2
support.
* gnu/packages/graph.scm (python-plotly): Update to 4.8.1.
[source]: Use git-fetch so that tests are also included.
[arguments]: Enable tests.
[home-page]: Follow redirect.
(python-plotly-2.4.1): New variable.
(python2-plotly): Inherit from python-plotly-2.4.1.
* gnu/packages/bioinformatics.scm (python-deeptools)[native-inputs]: Depend on
python-plotly-2.4.1.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| Pierre Langlois |
| 2020-06-22 | gnu: Add python-xarray....From 27ec21904f769c1e8114f767972d9037e1e9f68a Mon Sep 17 00:00:00 2001
From: Pierre Langlois <pierre.langlois@gmx.com>
Date: Thu, 18 Jun 2020 00:58:02 +0200
Subject: [PATCH 4/5] gnu: Add python-xarray.
* gnu/package/python-science.scm (python-xarray): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| Pierre Langlois |
| 2020-06-22 | gnu: Add python-retrying....* gnu/packages/python-xyz.scm (python-retrying): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| Pierre Langlois |
| 2020-06-22 | gnu: python-pandas: Update to 1.0.5....But also keep version 0.25.3 around for packages requiring an earlier
versions, as well as version 0.24.2 for a version with python2.
* gnu/packages/python-science.scm (python-pandas): Update to 1.0.5.
[arguments]: Adapt 'patch-which phase. Add new 'prepare-x phase. Do not
delete tests that depend on "moto", they are skipped automatically.
[propagated-inputs]: Add python-jinja2.
[inputs]: Add xsel and xclip.
[native-inputs]: Add xorg-server-for-tests so we can test clipboard support.
(python-pandas-0.24): New variable.
(python2-pandas): Inherit from python-pandas-0.25.
* gnu/packages/bioinformatics.scm (python-biom-format)[propagated-inputs]:
Switch to python-pandas-0.25.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| Pierre Langlois |
| 2020-06-22 | gnu: deeptools: Deprecate in favor of python-deeptools....And make sure python-deeptools's tests are running.
* gnu/packages/bioinformatics.scm (python-deeptools): Fetch source using git.
[native-inputs]: Add python-mock and python-nose.
(deeptools): Mark as deprecated.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| Pierre Langlois |
| 2020-06-22 | self: Build with Guile 3.0.3....* gnu/packages/guile.scm (guile-3.0/libgc-7): Inherit from GUILE-3.0.3.
| Ludovic Courtès |
| 2020-06-22 | deduplicate: Avoid traversing directories twice....Until now, we'd call (nar-sha256 file) unconditionally. Thus, if FILE
was a directory, we would traverse it for no reason, and then call
'deduplicate' on FILE, which would again traverse it.
This change also removes redundant (mkdir-p store) calls from the loop,
and avoids 'lstat' calls by using 'scandir*'.
* guix/store/deduplication.scm (deduplicate): Add named loop. Move
'mkdir-p' outside the loop. Use 'scandir*' instead of 'scandir'. Do
not call 'nar-sha256' when FILE has type 'directory.
| Ludovic Courtès |
| 2020-06-22 | compile: Build gnu/{packages,tests}/* with '-O1'....* guix/build/compile.scm (optimization-options): Use '-O1' for the
simple case.
| Ludovic Courtès |
| 2020-06-22 | gnu: emacs-helm: Update to 3.6.3....* gnu/packages/emacs-xyz.scm (emacs-helm): Update to 3.6.3.
| Pierre Neidhardt |
| 2020-06-22 | gnu: emacs-helm-fish-completion: Update to 0.5....* gnu/packages/emacs-xyz.scm (emacs-helm-fish-completion): Update to 0.5.
| Pierre Neidhardt |
| 2020-06-22 | gnu: js8call: Fix build....* gnu/packages/radio.scm (js8call)[inputs]: Use regular hamlib.
| Guillaume Le Vaillant |
| 2020-06-22 | gnu: wsjtx: Update to 2.2.1....* gnu/packages/radio.scm (wsjtx-hamlib): Update to 2.2.1.
[arguments]: Add a 'fix-tests' phase.
(wsjtx): Update to 2.2.1.
| Guillaume Le Vaillant |
| 2020-06-22 | gnu: qgis: Disable some failing tests....* gnu/packages/geo.scm (qgis)[arguments]: Disable a few more failing tests.
| Guillaume Le Vaillant |
| 2020-06-22 | gnu: Add r-rgreat....* gnu/packages/bioconductor.scm (r-rgreat): New variable.
| Ricardo Wurmus |
| 2020-06-22 | gnu: rust-libc-0.2: Don't skip build....* gnu/packages/crates-io.scm (rust-libc-0.2)[arguments]: Don't skip
build.
| Efraim Flashner |
| 2020-06-22 | gnu: rust-libc-0.2: Update to 0.2.71....* gnu/packages/crates-io.scm (rust-libc-0.2): Update to 0.2.71.
| Efraim Flashner |
| 2020-06-22 | gnu: rust-rayon-1.3: Rename to rust-rayon-1....* gnu/packages/crates-io.scm (rust-rayon-1.3): Rename to rust-rayon-1.
(rust-criterion-0.3, rust-criterion-0.2, rust-gimli-0.18,
rust-hashbrown-0.5, rust-indexmap-1.3, rust-jpeg-decoder-0.1,
rust-nasm-rs-0.1, rust-scroll-0.9, rust-syn-1.0, rust-syn-0.15)
[arguments]: Adjust accordingly.
* gnu/packages/gnome.scm (librsvg-next)[arguments]: Same.
* gnu/packages/rust-apps.scm (tokei)[arguments]: Same.
* gnu/packages/video.scm (rav1e)[arguments]: Same.
| Efraim Flashner |
| 2020-06-22 | gnu: Remove rust-rayon-1.1....* gnu/packages/crates-io.scm (rust-rayon-1.1): Remove variable.
(rust-criterion-0.2, rust-gimli-0.18, rust-hashbrown-0.5,
rust-jpeg-decoder-0.1, rust-scroll-0.9, rust-syn-0.15)
[arguments]: Replace rust-rayon-1.1 with 1.3.
| Efraim Flashner |
| 2020-06-22 | gnu: rust-rayon-core-1.7: Rename to rust-rayon-core-1....* gnu/packages/crates-io.scm (rust-rayon-core-1.7): Rename to
rust-rayon-core-1.
(rust-criterion-0.2, rust-rayon-1.3, rust-rayon-1.1, rust-rayon-0.8)
[arguments]: Adjust accordingly.
| Efraim Flashner |
| 2020-06-22 | gnu: Remove rust-rayon-core-1.5....* gnu/packages/crates-io.scm (rust-rayon-core-1.5): Remove variable.
(rust-criterion-0.2, rust-rayon-1.1) [arguments]: Replace
rust-rayon-core-1.5 with 1.7.
| Efraim Flashner |
| 2020-06-22 | gnu: sequoia: Fix typos....* gnu/packages/sequoia.scm (sequoia)[arguments]: Move unquote next to
the expression it applies to.
| Efraim Flashner |
| 2020-06-22 | gnu: rust-regex-1.3: Rename to rust-regex-1....* gnu/packages/crates-io.scm (rust-regex-1.3): Rename to rust-regex-1.
(rust-ansi-term-0.12, rust-bindgen-0.52, rust-bindgen-0.51,
rust-bindgen-0.50, rust-bindgen-0.37, rust-bindgen-0.49, rust-clap-2,
rust-compiletest-rs-0.3, rust-console-0.9, rust-console-0.7,
rust-docopt-1.1, rust-env-logger-0.7, rust-env-logger-0.6,
rust-env-logger-0.5, rust-gimli-0.18, rust-globset-0.4,
rust-grep-cli-0.1, rust-grep-matcher-0.1, rust-grep-regex-0.1,
rust-grep-searcher-0.1, rust-ignore-0.4, rust-lalrpop-0.17,
rust-lalrpop-util-0.17, rust-locale-config-0.3, rust-localeconfig-0.2,
rust-nom-5, rust-nom-4.2, rust-once-cell-1.2, rust-proptest-0.9,
rust-proptest-0.8, rust-pulldown-cmark-0.4, rust-regex-automata-0.1,
rust-rusqlite-0.19, rust-scan-fmt-0.2, rust-syn-1.0, rust-syn-0.15,
rust-ucd-parse-0.1, rust-version-sync-0.8) [arguments]: Adjust accordingly.
* gnu/packages/gnome.scm (librsvg-next)[arguments]: Same.
* gnu/packages/rust-apps.scm (fd, ripgrep, tokei, rust-cargo-c)
[arguments]: Same.
* gnu/packages/sequoia.scm (sequoia)[arguments]: Same.
| Efraim Flashner |
| 2020-06-22 | gnu: Remove rust-regex-1.1....* gnu/packages/crates-io.scm (rust-regex-1.1): Remove variable.
(rust-bindgen-0.50, rust-bindgen-0.49, rust-clap-2,
rust-compiletest-rs-0.2, rust-console-0.7, rust-docopt-1.1,
rust-env-logger-0.7, rust-env-logger-0.6, rust-env-logger-0.5,
rust-gimli-0.18, rust-globset-0.4, rust-grep-cli-0.1,
rust-grep-matcher-0.1, rust-grep-regex-0.1, rust-grep-searcher-0.1,
rust-ignore-0.4, rust-nom-5, rust-nom-4.2, rust-once-cell-1.2,
rust-proptest-0.9, rust-proptest-0.8, rust-pulldown-cmark-0.4,
rust-regex-automata-0.1, rust-rusqlite-0.19, rust-syn-0.15,
rust-ucd-parse-0.1, rust-version-sync-0.8) [arguments]: Replace
rust-regex-1.1 with 1.3.
* gnu/packages/rust-apps.scm (ripgrep)[arguments]: Same.
| Efraim Flashner |
| 2020-06-22 | gnu: Add rust-once-cell-0.1....* gnu/packages/crates-io.scm (rust-once-cell-0.1): New variable.
| Efraim Flashner |
| 2020-06-22 | gnu: Add rust-gettext-rs-0.4....* gnu/packages/crates-io.scm (rust-gettext-rs-0.4): New variable.
| Efraim Flashner |
| 2020-06-22 | gnu: Add rust-gettext-sys-0.19....* gnu/packages/crates-io.scm (rust-gettext-sys-0.19): New variable.
| Efraim Flashner |
| 2020-06-22 | gnu: Add rust-locale-config-0.2....* gnu/packages/crates-io.scm (rust-locale-config-0.2): New variable.
| Efraim Flashner |
| 2020-06-22 | gnu: Add rust-proptest-0.7....* gnu/packages/crates-io.scm (rust-proptest-0.7): New variable.
| Efraim Flashner |
| 2020-06-22 | gnu: Add rust-regex-syntax-0.4....* gnu/packages/crates-io.scm (rust-regex-syntax-0.4): New variable.
| Efraim Flashner |
| 2020-06-22 | gnu: Add rust-section-testing-0.0....* gnu/packages/crates-io.scm (rust-section-testing-0.0): New variable.
| Efraim Flashner |
| 2020-06-22 | gnu: rust-tempfile-3.1: Rename to rust-tempfile-3....* gnu/packages/crates-io.scm (rust-tempfile-3.1): Rename to ...
(rust-tempfile-3): .. this.
(rust-cairo-rs-0.8, rust-cairo-rs-0.7, rust-cc-1.0,
rust-compiletest-rs-0.3, rust-filetime-0.2, rust-gdk-pixbuf-sys-0.9,
rust-gio-sys-0.9, rust-git2-0.11, rust-glib-0.9, rust-glib-0.8,
rust-glib-sys-0.9, rust-gobject-sys-0.9, rust-handlebars-2.0,
rust-lscolors-0.6, rust-native-tls-0.2, rust-nix-0.15, rust-nix-0.14,
rust-no-panic-0.1, rust-pango-sys-0.9, rust-pangocairo-0.10,
rust-proptest-0.9, rust-proptest-0.8, rust-rustdoc-stripper-0.1,
rust-rustls-0.16, rust-rusty-fork-0.2, rust-sourcefile-0.1,
rust-tiff-0.2, rust-tokio-0.2, rust-tokio-fs-0.1, rust-tokio-uds-0.2,
rust-wayland-client-0.23, rust-wayland-client-0.21, rust-xattr-0.2)
[arguments]: Adjust accordingly.
* gnu/packages/rust-apps.scm (rust-cbindgen, tokei)[arguments]: Same.
* gnu/packages/sequoia.scm (sequoia)[arguments]: Same.
* gnu/packages/terminals.scm (alacritty)[arguments]: Same.
| Efraim Flashner |
| 2020-06-22 | gnu: Remove rust-tempfile-3.0....* gnu/packages/crates-io.scm (rust-tempfile-3.0): Remove variable.
(rust-compiletest-rs-0.3, rust-filetime-0.2, rust-handlebars-2.0,
rust-nix-0.15, rust-nix-0.14, rust-proptest-0.9, rust-proptest-0.8,
rust-rustls-0.16, rust-rusty-fork-0.2, rust-tiff-0.2, rust-tokei-fs-0.1,
rust-tokio-uds-0.2, rust-xattr-0.2) [arguments]: Replace
rust-tempfile-3.0 with 3.1.
* gnu/packages/rust-apps.scm (tokei)[arguments]: Same.
| Efraim Flashner |
| 2020-06-22 | gnu: rust-proptest-0.9: Update to 0.9.6....* gnu/packages/crates-io.scm (rust-proptest-0.9): Update to 0.9.
[arguments]: Don't skip build. In cargo-inputs replace rust-rand-0.4
with 0.6, rust-rand-chacha-0.2 with 0.1, rust-rand-xorshift-0.2 with 0.1.
| Efraim Flashner |
| 2020-06-22 | gnu: r-zoo: Move to (gnu packages cran)....* gnu/packages/statistics.scm (r-zoo): Move this variable from here...
* gnu/packages/cran.scm (r-zoo): ...to here.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-directlabels: Move to (gnu packages cran)....* gnu/packages/statistics.scm (r-directlabels): Move this variable from here...
* gnu/packages/cran.scm (r-directlabels): ...to here.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-boruta: Move to (gnu packages cran)....* gnu/packages/statistics.scm (r-boruta): Move this variable from here...
* gnu/packages/cran.scm (r-boruta): ...to here.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-boruta: Fix indentation and description....* gnu/packages/statistics.scm (r-boruta)[description]: Fix indentation, add
line breaks, and complete the first sentence fragment.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-fit-models: Update to 0.63....* gnu/packages/statistics.scm (r-fit-models): Update to 0.63.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-glmnet: Update to 4.0-2....* gnu/packages/statistics.scm (r-glmnet): Update to 4.0-2.
[propagated-inputs]: Add r-survival.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-rmarkdown: Update to 2.3....* gnu/packages/statistics.scm (r-rmarkdown): Update to 2.3.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-backports: Update to 1.1.8....* gnu/packages/statistics.scm (r-backports): Update to 1.1.8.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-ggplot2: Update to 3.3.2....* gnu/packages/statistics.scm (r-ggplot2): Update to 3.3.2.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-isoband: Update to 0.2.2....* gnu/packages/cran.scm (r-isoband): Update to 0.2.2.
[propagated-inputs]: Remove r-rcpp.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-zvcv: Update to 2.1.0....* gnu/packages/cran.scm (r-zvcv): Update to 2.1.0.
[propagated-inputs]: Remove r-partitions; add r-bh, r-dplyr, r-magrittr, and r-rlinsolve.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-umap: Update to 0.2.6.0....* gnu/packages/cran.scm (r-umap): Update to 0.2.6.0.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-ldheatmap: Update to 0.99-8....* gnu/packages/cran.scm (r-ldheatmap): Update to 0.99-8.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-nonnest2: Update to 0.5-4....* gnu/packages/cran.scm (r-nonnest2): Update to 0.5-4.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-rcppgsl: Update to 0.3.8....* gnu/packages/cran.scm (r-rcppgsl): Update to 0.3.8.
[native-inputs]: Remove r-knitr.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-ggeffects: Update to 0.15.0....* gnu/packages/cran.scm (r-ggeffects): Update to 0.15.0.
| Ricardo Wurmus |
| 2020-06-22 | gnu: r-bayestestr: Update to 0.7.0....* gnu/packages/cran.scm (r-bayestestr): Update to 0.7.0.
| Ricardo Wurmus |
