ff43d95807
gnu: python-joblib: Update to 0.13.0.
...
* gnu/packages/python.scm (python-joblib): Update to 0.13.0.
[source](snippet): Remove.
[arguments]: Remove 'disable-failing-tests' phase. Add custom check phase.
[native-inputs]: Remove PYTHON-NOSE, PYTHON-SPHINX, PYTHON-DOCUTILS and
PYTHON-NUMPYDOC. Add PYTHON-PYTEST.
2018-11-20 00:57:49 +01:00
89d88b8530
gnu: python-natsort: Update to 5.4.1.
...
* gnu/packages/python.scm (python-natsort): Update to 5.4.1.
[arguments]: Add #:modules. Replace 'check' phase with custom pytest
invokation.
[native-inputs]: Remove PYTHON-PYTEST-CACHE, PYTHON-PYTEST-FLAKES and
PYTHON-PYTEST-PEP8. Add PYTHON-PYTEST and PYTHON-PYTEST-MOCK.
(python2-natsort)[native-inputs]: Remove PYTHON2-ENUM34 and PYTHON2-MOCK.
2018-11-20 00:57:48 +01:00
4a4f3e771b
gnu: z3: Update to 4.8.1.
...
* gnu/packages/maths.scm (z3): Update to 4.8.1.
2018-11-20 00:57:48 +01:00
fb525bfd83
gnu: z3: Fetch source using git.
...
* gnu/packages/maths.scm (z3)[source]: Change to GIT-FETCH.
2018-11-20 00:57:48 +01:00
cc661cb348
gnu: xonotic: Symlink to xonotic data instead of copying into xonotic.
...
* gnu/packages/games.scm (xonotic)[arguments]: Modify the phase
'install-data so it creates a symlink to xonotic's data instead of
copying it into the xonotic package.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-19 23:11:38 +01:00
c3276dbecb
gnu: Add autotalent.
...
* gnu/packages/audio.scm (autotalent): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-19 23:11:38 +01:00
887437ee0e
gnu: git-when-merged: Fix license.
...
Reported by Mark H Weaver <mhw@netris.org>.
* gnu/packages/version-control.scm (git-when-merged)[license]: Change to
GPL2+.
2018-11-19 23:11:38 +01:00
4db71841ee
gnu: r-shinyfiles: Update to 0.7.2.
...
* gnu/packages/web.scm (r-shinyfiles): Update to 0.7.2.
2018-11-19 17:20:05 +01:00
0adf04a2d3
gnu: r-mclust: Update to 5.4.2.
...
* gnu/packages/statistics.scm (r-mclust): Update to 5.4.2.
2018-11-19 17:19:44 +01:00
185663e568
gnu: r-openssl: Update to 1.1.
...
* gnu/packages/statistics.scm (r-openssl): Update to 1.1.
2018-11-19 17:19:15 +01:00
749872a5ed
gnu: r-biocmanager: Update to 1.30.4.
...
* gnu/packages/cran.scm (r-biocmanager): Update to 1.30.4.
2018-11-19 17:18:41 +01:00
278e0f6506
gnu: r-ggeffects: Update to 0.7.0.
...
* gnu/packages/cran.scm (r-ggeffects): Update to 0.7.0.
2018-11-19 17:18:19 +01:00
fba7dbe76c
gnu: r-sjstats: Update to 0.17.2.
...
* gnu/packages/cran.scm (r-sjstats): Update to 0.17.2.
2018-11-19 17:17:54 +01:00
1659c5dd27
gnu: r-ggpubr: Update to 0.2.
...
* gnu/packages/cran.scm (r-ggpubr): Update to 0.2.
2018-11-19 17:17:25 +01:00
e396b37822
gnu: r-recipes: Update to 0.1.4.
...
* gnu/packages/cran.scm (r-recipes): Update to 0.1.4.
2018-11-19 17:17:03 +01:00
e21659c70b
gnu: r-dimred: Update to 0.2.2.
...
* gnu/packages/cran.scm (r-dimred): Update to 0.2.2.
2018-11-19 17:16:35 +01:00
c2e26dc156
gnu: r-ensembldb: Update to 2.6.2.
...
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.2.
2018-11-19 16:46:32 +01:00
e038819138
gnu: r-msnbase: Update to 2.8.1.
...
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.1.
2018-11-19 16:46:00 +01:00
4535a7b0f5
gnu: r-genomeinfodb: Update to 1.18.1.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.18.1.
2018-11-19 16:33:35 +01:00
5497214d80
gnu: Add clojure-algo-monads.
...
* gnu/packages/lisp.scm (clojure-algo-monads): New public variable.
2018-11-19 12:10:06 +01:00
2cab1d4a7d
gnu: Add clojure-tools-macro.
...
* gnu/packages/lisp.scm (clojure-tools-macro): New public variable.
2018-11-19 12:09:53 +01:00
eea5530c9f
gnu: Add clojure-algo-generic.
...
* gnu/packages/lisp.scm (clojure-algo-generic): New public variable.
2018-11-19 12:09:39 +01:00
c784ffa0c4
gnu: Add clojure-core-match.
...
* gnu/packages/lisp.scm (clojure-core-match): New public variable.
2018-11-19 12:09:15 +01:00
d2a659e5bf
gnu: Add clojure-instaparse.
...
* gnu/packages/lisp.scm (clojure-instaparse): New public variable.
2018-11-19 12:08:26 +01:00
df730f6757
build-system: Add 'clojure-build-system'.
...
* guix/build-system/clojure.scm, guix/build/clojure-build-system.scm: New
files.
* guix/build/clojure-utils.scm (@*, @@*): New macros.
(%source-dirs, %test-dirs, %compile-dir, %main-class, %omit-source?,
%aot-include, %aot-exclude, %tests?, %test-include, %test-exclude,
%clojure-regex): New variables.
(package-name->jar-names, canonicalize-relative-path, find-files*,
file-sans-extension, relative-path->clojure-lib-string, find-clojure-libs,
compiled-from?, include-list\exclude-list, eval-with-clojure, create-jar):
New procedures.
* Makefile.am (MODULES): Add them.
* doc/guix.texi (Build Systems): Document 'clojure-build-system'.
2018-11-19 12:07:44 +01:00
53f316ab90
guix: Add clojure-utils.
...
* guix/build/clojure-utils.scm: New file.
* gnu/packages/lisp.scm (clojure)[arguments]: Use it.
* Makefile.am (MODULES): Add it.
2018-11-19 12:05:19 +01:00
d0ad97115a
gnu: clojure: Use (guix build java-utils) to simplify build phases.
...
* gnu/packages/lisp.scm (clojure)[arguments]: Use 'ant-build-javadoc',
'install-jars' and 'install-javadoc' in build phases.
2018-11-19 12:02:26 +01:00
8da9187a5a
gnu: clojure: Refactor to ensure there's a single list of libraries.
...
This avoids having to update multiple lists.
* gnu/packages/lisp.scm (clojure)[native-inputs]: Use new local variable.
[arguments]: Adjust build phases accordingly.
2018-11-19 12:02:09 +01:00
df0a180421
gnu: clojure: Remove 'remove-archives' snippet.
...
This is no longer needed since clojure now makes official source releases
in github.
* gnu/packages/lisp.scm (clojure)[source]: Remove it.
[native-inputs]: Remove it in 'submodule'.
[arguments]: Adjust 'unpack-submodule-sources' phase accordingly.
2018-11-19 12:01:48 +01:00
28e32b14e4
gnu: clojure: Move from java to lisp.
...
* gnu/packages/java.scm (clojure): Move from here...
* gnu/packages/lisp.scm (clojure): ...to here.
2018-11-19 12:01:25 +01:00
f4ee41c960
gnu: python-kivy: Update to 1.10.1
...
* gnu/packages/python.scm (python-kivy): Update to 1.10.1.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-19 09:59:08 +01:00
5e9ce98af7
gnu: help2man: Add 1.47.8.
...
* gnu/packages/man.scm (help2man/latest): New variable.
2018-11-19 09:59:08 +01:00
1372754dc0
gnu: fuse-exfat: Update to 1.3.0.
...
* gnu/packages/linux.scm (fuse-exfat): Update to 1.3.0.
2018-11-19 09:59:08 +01:00
c39f3e1c43
gnu: diffoscope: Update to 105.
...
* gnu/packages/package-management.scm (diffoscope): Update to 105.
2018-11-19 09:59:07 +01:00
1d6669afef
guix system: Fix 'init'.
...
Fixes a regression introduced in
52ee4479ef
2018-11-19 09:59:07 +01:00
5c40a69f71
gnu: Add libfdk 'FDK AAC' library.
...
* gnu/packages/audio.scm (libfdk): New variable.
2018-11-18 18:19:34 -05:00
ab6caf4f1d
guix system: Clarify 'perform-action'.
...
* guix/scripts/system.scm (perform-action): Move non-monadic local
variables outside the 'mlet' form.
2018-11-18 23:37:45 +01:00
52ee4479ef
guix system: De-monadify bootloader installation script.
...
* guix/scripts/system.scm (bootloader-installer-derivation): Rename
to...
(bootloader-installer-script): ... this. Use 'scheme-file' instead of
'gexp->file'.
(perform-action): Adjust accordingly. Move 'lower-object' call to the
point where DRVS is computed.
2018-11-18 23:37:45 +01:00
6e47628d4c
guix system: Simplify bootloader package handling.
...
* guix/scripts/system.scm (perform-action): Remove 'bootloader-package'
variable. Pass (bootloader-package bootloader) as the 2nd argument to
'bootloader-installer-derivation'. Remove BOOTLOADER-PACKAGE from DRVS
since it's redundant.
2018-11-18 23:37:45 +01:00
8bff7dc2ad
vm: Remove explicit calls to 'operating-system-derivation'.
...
* gnu/system/vm.scm (iso9660-image): Change 'os-drv' to 'os' and remove
call to 'operating-system-derivation'.
(system-qemu-image): Likewise.
(system-qemu-image/shared-store): Likewise.
2018-11-18 23:37:45 +01:00
9782c82217
system: De-monadify 'operating-system-bootcfg'.
...
* gnu/system.scm (operating-system-bootcfg): Remove 'mlet*' and
'lower-object' call.
* gnu/system/vm.scm (system-disk-image)
(system-qemu-image/shared-store): Adjust accordingly.
* guix/scripts/system.scm (perform-action): Add 'lower-object' call for
BOOTCFG.
2018-11-18 23:37:45 +01:00
5ece56dc73
system: Please Emacs.
...
* gnu/system.scm (operating-system-bootcfg): Remove opening parenthesis
at the beginning of the line in the docstring to placate Emacs.
2018-11-18 23:37:44 +01:00
35b4468127
system: De-monadify 'operating-system-boot-parameters'.
...
* gnu/system.scm (operating-system-boot-parameters): Turn to direct
style instead of monadic.
(operating-system-bootcfg): Adjust accordingly.
(operating-system-boot-parameters-file): Likewise.
2018-11-18 23:37:44 +01:00
e34ae75dc1
linux-initrd: Return file-like objects instead of monadic values.
...
This is an incompatible change visible to users via the 'initrd' field
of 'operating-system'. However, assuming the user's 'initrd' value
tail-calls to 'raw-initrd' or 'base-initrd', the switch to non-monadic
style is invisible.
* gnu/system/linux-initrd.scm (expression->initrd): Use 'computed-file'
instead of 'gexp->derivation'.
(raw-initrd, base-initrd): Adjust docstring to mention non-monadic
return.
* gnu/system/vm.scm (expression->derivation-in-linux-vm): Adjust
accordingly.
* gnu/system.scm (operating-system-directory-base-entries)
(operating-system-initrd-file)
(operating-system-boot-parameters): Adjust accordingly.
* doc/guix.texi (operating-system Reference)
(Initial RAM Disk): Update.
2018-11-18 23:37:44 +01:00
a7ef45d9de
system: Simplify kernel argument handling.
...
* gnu/system.scm (bootable-kernel-arguments): Remove 'kernel-arguments'
parameter and return only the base list of kernel arguments. Rename
'system.drv' to 'system'.
(operating-system-kernel-arguments): Adjust accordingly and remove
'system.drv' parameter.
(read-boot-parameters-file): Adjust accordingly. Remove 'if params'
since dominating code assumed PARAMS is always true.
(operating-system-boot-parameters): Remove 'system.drv' parameter; add
#:system-kernel-arguments? instead and honor it.
(operating-system-bootcfg): Adjust accordingly.
(operating-system-boot-parameters-file): Likewise.
* gnu/system/vm.scm (system-qemu-image/shared-store-script): Remove
'os-drv' variable. Adjust call to 'operating-system-kernel-arguments'.
2018-11-18 23:37:44 +01:00
46c296dcc4
bootloader: De-monadify configuration file generators.
...
* gnu/bootloader/extlinux.scm: Remove unneeded imports.
(extlinux-configuration-file): Use 'computed-file' instead of
'gexp->derivation'.
* gnu/bootloader/grub.scm (svg->png): Likewise.
(grub-background-image, eye-candy): Adjust accordingly, return
non-monadically.
(grub-configuration-file): Likewise, and use 'computed-file' instead of
'gexp->derivation'.
* gnu/bootloader/u-boot.scm: Remove unneeded imports.
* gnu/system.scm: Add 'lower-object' call.
2018-11-18 23:37:44 +01:00
b297934437
activation: Aways pass '-d HOME' to 'useradd'.
...
Fixes <https://bugs.gnu.org/33422 >.
Reported by fps.
* gnu/build/activation.scm (add-user): Always pass "-d HOME" when HOME
is true. Pass "--create-home" only when HOME, CREATE-HOME?, and SYSTEM?
are true.
(activate-users+groups): Pass #:create-home? create-home? to
'ensure-user'.
* gnu/tests/base.scm (run-basic-test)["accounts"]: Test 'passwd:dir' as
well.
2018-11-18 23:37:25 +01:00
564cf93f2a
gnu: ocaml: Update to 4.7.0.
...
Update ocaml to the latest version and fixes dependent packages by
updating them or by adding new inputs, such as ocaml-num and ocamlbuild,
that were removed from the core ocaml package. Rename packages that
cannot be built with the new compiler with an ocaml4.02 prefix. Add
ocaml4.02 dependencies.
* gnu/packages/ocaml.scm (ocaml): Update to 4.7.0.
(ocaml-4.02, ocamlbuild, camlp4-4.02, ocaml-num, ocaml4.02-menhir)
(ocaml4.02-lablgtk, ocaml4.02-findlib, ocaml4.02-ounit, ocaml4.02-camlzip)
(ocaml4.02-ocamlmod, ocaml4.02-zarith, ocaml4.02-qcheck, ocaml4.02-qtest)
(ocaml4.02-stringext, ocaml4.02-bisect, dune, ocaml-migrate-parsetree)
(ocaml-ppx-tools-versioned, ocaml-ppx-tools-versioned)
(ocaml4.02-bitstring, ocaml4.02-result, ocaml4.02-topkg, ocaml4.02-rresult)
(ocaml4.02-sqlite3, ocaml4.02-csv, ocaml4.02-mtime, ocaml4.02-cmdliner)
(ocaml4.02-fmt, ocaml4.02-astring, ocaml4.02-alcotest, ocaml4.02-ppx-tools)
(ocaml4.02-react, ocaml4.02-ssl, ocaml4.02-lwt, ocaml-lwt-log)
(ocaml4.02-lwt-log, ocaml4.02-logs, ocaml4.02-fpath, ocaml4.02-bos)
(ocaml4.02-xmlm, ocaml4.02-ulex, ocaml4.02-uchar, ocaml4.02-uutf)
(ocaml4.02-jsonm, ocaml4.02-ocurl, ocaml4.02-base64, ocaml4.02-omake)
(ocaml4.02-batteries, ocaml4.02-pcre, ocaml4.02-oasis)
(ocaml4.02-js-build-tools, ocaml4.02-cppo, ocaml-seq, ocaml4.02-seq)
(ocaml4.02-re, ocaml4.02-ocplib-endian, ocaml4.02-easy-format)
(ocaml4.02-piqilib, ocaml4.02-uuidm, ocaml4.02-graph, ocaml4.02-piqi)
(ocaml4.02-camomile, ocaml4.02-zed, ocaml4.02-lambda-term): New packages.
(opam): Update to 2.0.0.
(camlp4): Update to 4.07+1.
(camlp5): Update to 7.06.
(hevea): Update to 2.32.
(coq)[inputs]: Add ocaml-num.
(emacs-tuareg): Update to 2.2.0.
(ocaml-menhir)[native-inputs]: Add ocamlbuild.
(ocaml-lablgtk): Update to 2.18.6.
(unison)[inputs]: Use ocaml-4.02.
(ocaml-findlib): Update to 1.8.0.
(ocaml-ounit)[native-inputs]: Add ocamlbuild.
(ocamlmod): Update to 0.0.9.
(ocaml-frontc)[arguments]: Use ocaml-4.02.
(ocaml-qcheck)[native-inputs]: Add ocamlbuild.
(ocaml-qtest)[native-inputs]: Remove ocaml-findlib and add ocamlbuild.
(ocaml-stringext)[native-inputs]: Add ocamlbuild.
(ocaml-bisect): Update to 1.3.1.
(ocaml4.01-bisect): Downgrade to 1.3.
(ocaml-bitstring): Update to 3.1.0.
(ocaml-topkg)[native-inputs]: Add ocamlbuild.
(ocaml-rresult)[native-inputs]: Add ocamlbuild.
(ocaml-sqlite3)[native-inputs]: Add ocamlbuild.
(ocaml-csv)[native-inputs]: Add ocamlbuild.
(ocaml-mtime)[native-inputs]: Add ocamlbuild.
(ocaml-cmdliner)[native-inputs]: Add ocamlbuild.
(ocaml-fmt)[native-inputs]: Add ocamlbuild.
(ocaml-astring)[native-inputs]: Add ocamlbuild.
(ocaml-alcotest)[native-inputs]: Add ocamlbuild.
(ocaml-ppx-tools)[native-inputs]: Add ocamlbuild.
(ocaml-react)[native-inputs]: Add ocamlbuild.
(ocaml-ssl)[arguments]: Return #t in phases.
(ocaml-lwt): Update to 4.1.0.
(ocaml-logs)[native-inputs]: Add ocamlbuild.
(ocaml-fpath)[native-inputs]: Add ocamlbuild.
(ocaml-bos)[native-inputs]: Add ocamlbuild.
(ocaml-xmlm): Update to 1.3.0.
(ocaml-ulex): Update to 1.2.0.
(ocaml-uchar)[native-inputs]: Add ocamlbuild.
(ocaml-uutf): Update to 1.0.1.
(ocaml-jsonm): Update to 1.0.1.
(ocaml-ocurl): Update to 0.8.2.
(ocaml-base64)[native-inputs]: Add ocamlbuild.
(ocamlify)[native-inputs]: Use ocaml-4.02.
(omake): Update to 0.10.3.
(ocaml-batteries): Update to 2.9.0.
(ocaml-pcre)[native-inputs]: Add ocamlbuild.
(ocaml-expect): Update 0.0.6.
(ocaml4.02-fileutils): Update to 0.5.3.
(ocaml-oasis): Update 0.4.11.
(ocaml-js-build-tools)[native-inputs]: Add ocamlbuild.
(ocaml-bin-prot): Rename to ocaml4.02-bin-prot.
(ocaml-fieldslib): Rename to ocaml4.02-fieldslib.
(ocaml-ppx-core): Rename to ocaml4.02-ppx-core.
(ocaml-ppx-optcomp): Rename to ocaml4.02-ppx-optcomp.
(ocaml-ppx-driver): Rename to ocaml4.02-ppx-driver.
(ocaml-cppo): Update to 1.6.5.
(ocaml-ppx-deriving): Rename to ocaml4.02-ppx-deriving.
(ocaml-ppx-type-conv): Rename to ocaml4.02-ppx-type-conv.
(ocaml-ppx-inline-test): Rename to ocaml4.02-ppx-inline-test.
(ocaml-ppx-bench): Rename to ocaml4.02-ppx-bench.
(ocaml-ppx-compare): Rename to ocaml4.02-ppx-compare.
(ocaml-sexplib): Rename to ocaml4.02-sexplib.
(ocaml-typerep): Rename to ocaml4.02-typerep.
(ocaml-variantslib): Rename to ocaml4.02-variantslib.
(ocaml-ppx-sexp-conv): Rename to ocaml4.02-ppx-sexp-conv.
(ocaml-ppx-variants-conv): Rename to ocaml4.02-ppx-variants-conv.
(ocaml-ppx-here): Rename to ocaml4.02-ppx-here.
(ocaml-ppx-assert): Rename to ocaml4.02-ppx-assert.
(ocaml-ppx-enumerate): Rename to ocaml4.02-ppx-enumerate.
(ocaml-ppx-let): Rename to ocaml4.02-ppx-let.
(ocaml-ppx-typerep-conv): Rename to ocaml4.02-ppx-typerep-conv.
(ocaml-ppx-sexp-value): Rename to ocaml4.02-ppx-sexp-value.
(ocaml-ppx-pipebang): Rename to ocaml4.02-ppx-pipebang.
(ocaml-ppx-bin-prot): Rename to ocaml4.02-ppx-bin-prot.
(ocaml-ppx-fail): Rename to ocaml4.02-ppx-fail.
(ocaml-ppx-custom-printf): Rename to ocaml4.02-ppx-custom-printf.
(ocaml-ppx-sexp-message): Rename to ocaml4.02-ppx-sexp-message.
(ocaml-ppx-fields-conv): Rename to ocaml4.02-ppx-fields-conv.
(ocaml-re): Update to 1.8.0.
(ocaml-ppx-expect): Rename to ocaml4.02-ppx-expect.
(ocaml-ppx-jane): Rename to ocaml4.02-ppx-jane.
(ocaml-core-kernel): Rename to ocaml4.02-core-kernel.
(ocaml-async-kernel): Rename to ocaml4.02-async-kernel.
(ocaml-async-rpc-kernel): Rename to ocaml4.02-async-rpc-kernel.
(ocaml-core): Rename to ocaml4.02-core.
(ocaml-async-unix): Rename to ocaml4.02-async-unix.
(ocaml-async-extra): Rename to ocaml4.02-async-extra.
(ocaml-async): Rename to ocaml4.02-async.
(ocaml-ocplib-endian)[native-inputs]: Update to 1.0.
(ocaml-cstruct): Rename to ocaml4.02-cstruct.
(ocaml-hex): Rename to ocaml4.02-hex.
(ocaml-ezjsonm): Rename to ocaml4.02-ezjsonm.
(ocaml-uri): Rename to ocaml4.02-uri.
(optcomp): Use ocaml-4.02.
(ocaml-piqilib): Update to 0.6.14.
(ocaml-uuidm)[native-inputs]: Add ocamlbuild.
(ocaml-graph): Update to 1.8.8.
(ocaml-piqi): Update to 0.7.6.
(bap): Update to 1.3.0.
(ocaml-camomile): Update to 1.0.1.
(ocaml-jbuilder): Use ocaml-4.02.
(ocaml-lambda-term): Update to 1.13.
(ocaml-utop): Update to 2.2.0.
(ocaml-integers)[native-inputs]: Add ocamlbuild.
(ocaml-ctypes): Update to 0.14.0.
(ocaml-ocb-stubblr)[native-inputs]: Add ocamlbuild.
(ocaml-tsdl)[native-inputs]: Add ocamlbuild.
* gnu/packages/machine-learning.scm (ocaml-mcl): Use ocaml-4.02.
* gnu/packages/maths.scm (cubicle): Update to 1.1.2.
* gnu/packages/patches/ocaml-bisect-fix-camlp4-in-another-directory.patch:
Update patch.
* guix/build-system/ocaml.scm: (default-ocaml4.02, default-ocaml4.02-findlib)
(package-with-ocaml4.02, strip-ocaml4.02-variant): New variables.
2018-11-18 18:51:08 +01:00
5a0affba3f
build-system/ocaml: Use invoke and return #t.
...
* guix/build/ocaml-build-system.scm (configure, build, check, install)
(prepare-install): Use invoke and return #t.
2018-11-18 18:40:53 +01:00
1472d19abf
gnu: maxima: Fix tests on i686 and x86_64.
...
* gnu/packages/maths.scm (maxima)[arguments]: Replace check phase.
2018-11-18 11:58:38 -05:00
Marius Bakke