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;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2015 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2017 Mathieu Othacehe <m.othacehe@gmail.com>
;;;
;;; This file is part of GNU Guix.
;;;
;;; GNU Guix is free software; you can redistribute it and/or modify it
;;; under the terms of the GNU General Public License as published by
;;; the Free Software Foundation; either version 3 of the License, or (at
;;; your option) any later version.
;;;
;;; GNU Guix is distributed in the hope that it will be useful, but
;;; WITHOUT ANY WARRANTY; without even the implied warranty of
;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
;;; GNU General Public License for more details.
;;;
;;; You should have received a copy of the GNU General Public License
;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.

(define-module (test-cran)
  #:use-module (gnu packages statistics)
  #:use-module (guix import cran)
  #:use-module (guix tests)
  #:use-module (srfi srfi-1)
  #:use-module (srfi srfi-64)
  #:use-module (srfi srfi-26)
  #:use-module (ice-9 match))

(define description "
Package: My-Example
Type: Package
Title: Example package
Version: 1.2.3
Date: 2015-12-10
Author: Ricardo Wurmus
Maintainer: Guix Schmeeks <guix@gnu.org>
URL: http://gnu.org/s/my-example
Description: This is a long description
spanning multiple lines: and it could confuse the parser that this line is very long or perhaps the fact that
there is a colon : on the lines.
  And: this line continues the description.
biocViews: 0
SystemRequirements: Cairo (>= 0)
Depends: A C++11 compiler. Version 4.6.* of g++ (as
	currently in Rtools) is insufficient; versions 4.8.*, 4.9.* or
	later will be fine.
License: GPL (>= 3)
Imports: Rcpp (>= 0.11.5), proto, Scales
LinkingTo: Rcpp, BH
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-07-14 14:15:16
")

(define description-alist
  (description->alist description))

(define simple-alist
  '(("Key"        . "Value")
    ("SimpleList" . "R, Rcpp, something, whatever")
    ("BadList"    . "This is not a real list, you know?")
    ("List"       . "R (>= 2.2), BH (for no reason), GenomicRanges")))

(test-begin "cran")

(test-assert "description->alist: contains all valid keys"
  (let ((keys '("Package" "Type" "Title" "Version" "Date"
                "Author" "Maintainer" "URL" "Description"
                "SystemRequirements" "Depends" "License"
                "Imports" "biocViews" "LinkingTo"
                "NeedsCompilation" "Repository"
                "Date/Publication")))
    (lset= string=? keys (map car description-alist))))

(test-equal "listifyx: return empty list if key cannot be found"
  '()
  ((@@ (guix import cran) listify) simple-alist "Letters"))

(test-equal "listify: split comma-separated value into elements"
  '("R" "Rcpp" "something" "whatever")
  ((@@ (guix import cran) listify) simple-alist "SimpleList"))

(test-equal "listify: strip off parentheses"
  '("R" "BH" "GenomicRanges")
  ((@@ (guix import cran) listify) simple-alist "List"))

(test-equal "listify: ignore values that are no lists"
  '()
  ((@@ (guix import cran) listify) simple-alist "BadList"))

(test-equal "r-mininal is not a cran package"
  #f
  ((@@ (guix import cran) cran-package?) r-minimal))

(test-assert "description->package"
  ;; Replace network resources with sample data.
  (mock ((guix build download) url-fetch
         (lambda* (url file-name
                       #:key
                       (mirrors '()) verify-certificate?)
           (with-output-to-file file-name
             (lambda ()
               (display
                (match url
                  ("mirror://cran/src/contrib/My-Example_1.2.3.tar.gz"
                   "source")
                  (_ (error "Unexpected URL: " url))))))))
    (match (description->package 'cran description-alist)
      (('package
         ('name "r-my-example")
         ('version "1.2.3")
         ('source ('origin
                    ('method 'url-fetch)
                    ('uri ('cran-uri "My-Example" 'version))
                    ('sha256
                     ('base32
                      (? string? hash)))))
         ('properties ('quasiquote (('upstream-name . "My-Example"))))
         ('build-system 'r-build-system)
         ('inputs ('list 'cairo))
         ('propagated-inputs
          ('list 'r-bh 'r-proto 'r-rcpp 'r-scales))
         ('home-page "http://gnu.org/s/my-example")
         ('synopsis "Example package")
         ('description
          "\
This is a long description spanning multiple lines: and it could confuse the
parser that this line is very long or perhaps the fact that there is a colon :
on the lines.  And: this line continues the description.")
         ('license 'gpl3+))
       #t)
      (x
       (begin
         (format #t "~s\n" x)
         (pk 'fail x #f))))))

(test-end "cran")
/machine?id=c8e41af7be47fdd3ae16765d5cf892582f5a407a'>machine/digital-ocean: Use nightly Guix....* gnu/machine/digital-ocean.scm (guix-infect): Fetch latest Guix build from ci.guix.gnu.org. Ricardo Wurmus 2022-10-17guix: Fix typos....These typos were found and reported through weblate. * gnu/packages/audio.scm (wildmidi)[description]: Fix typo. * gnu/packages/games.scm (cgoban)[description]: Fix typo. * gnu/services/version-control.scm (gitolite-service-type)[description]: Fix typo. * gnu/installer/newt/substitutes.scm (run-substitutes-page): Remove full stop at end of title. * gnu/machine/ssh.scm (machine-ssh-configuration-system): Move punctuation outside of quotes. * guix/scripts/home.scm (process-action): Remove trailing space before newline. * guix/scripts/system.scm (show-help): Fix typo. * guix/scripts/environment.scm (with-store/maybe): Fix typo. Julien Lepiller 2022-09-26machine: ssh: Parameterize '%current-system' early on....Fixes <https://issues.guix.gnu.org/58084>. Reported by Maxim Cournoyer <maxim.cournoyer@gmail.com>. Previously, "sanity checks" and other operations would happen in a context where '%current-system' has its default value. Thus, running 'guix deploy' on x86_64-linux machine for an aarch64-linux one would lead things like '%base-initrd-modules' to see "x86_64-linux" as the '%current-system' value, in turn making the wrong choices. * gnu/machine/ssh.scm (check-deployment-sanity)[assertions]: Wrap in 'parameterize'. (deploy-managed-host): Likewise for the 'mlet' body. Ludovic Courtès 2022-09-04Fix misspelling of GUIX_DIGITAL_OCEAN_TOKEN....* gnu/machine/digital-ocean.scm (maybe-raise-missing-api-key-error): Fix misspelling of GUIX_DIGITAL_OCEAN_TOKEN. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org> Matthew James Kraai 2022-03-01initrd: Use non-hyphenated kernel command-line parameter names....This is to make it less surprising, given the common convention sets forth by the kernel Linux command-line parameters. * gnu/build/linux-boot.scm (boot-system): Rename '--load', '--repl', '--root' and '--system' to 'gnu.load', 'gnu.repl', 'root' and 'gnu.system', respectively. Adjust doc. (find-long-option): Adjust doc. * gnu/installer/parted.scm (installer-root-partition-path): Adjust accordingly. * gnu/system.scm (bootable-kernel-arguments): Add a VERSION argument and update doc. Use VERSION to conditionally return old style vs new style initrd arguments. (%boot-parameters-version): Increment to 1. (operating-system-boot-parameters): Adjust doc. (operating-system-boot-parameters-file): Likewise. * gnu/system/linux-initrd.scm (raw-initrd, base-initrd): Likewise. * doc/guix.texi: Adjust doc. * gnu/build/activation.scm (boot-time-system): Adjust accordingly. * gnu/build/hurd-boot.scm (boot-hurd-system): Likewise. * gnu/packages/commencement.scm (%final-inputs-riscv64): Adjust comment. Maxim Cournoyer 2022-01-16machine: ssh: Add 'safety-checks?' field....Fixes <https://issues.guix.gnu.org/52766>. Reported by Michael Rohleder <mike@rohleder.de>. * gnu/machine/ssh.scm (<machine-ssh-configuration>)[safety-checks?]: New field. (machine-check-file-system-availability): Return the empty list when 'safety-checks?' is false. (machine-check-initrd-modules): Likewise. * doc/guix.texi (Invoking guix deploy): Document it. Ludovic Courtès 2022-01-09machine: ssh: Open a single SSH session per machine....Previously, any call to 'managed-host-remote-eval' and similar would open a new SSH session to the host. With this change, an SSH session is opened once, cached, and then reused by all subsequent calls to 'machine-ssh-session'. * gnu/machine/ssh.scm (<machine-ssh-configuration>): Add 'this-machine-ssh-configuration'. [session]: Mark as thunked and change default value to an 'open-machine-ssh-session*' call. (open-machine-ssh-session, open-machine-ssh-session*): New procedures. (machine-ssh-session): Replace inline code by call to 'open-machine-ssh-session'. Ludovic Courtès 2021-08-29Migrate to the new 'targets' field of bootloader-configuration....The old 'target' field is deprecated; adjust the sources to use the new 'targets' one instead. * doc/guix-cookbook.texi<target>: Replace by 'targets'. * gnu/bootloader/grub.scm: Likewise. * gnu/installer/parted.scm: Likewise. * gnu/machine/digital-ocean.scm: Likewise. * gnu/system/examples/asus-c201.tmpl: Likewise * gnu/system/examples/bare-bones.tmpl: Likewise * gnu/system/examples/bare-hurd.tmpl: Likewise * gnu/system/examples/beaglebone-black.tmpl: Likewise * gnu/system/examples/desktop.tmpl: Likewise * gnu/system/examples/docker-image.tmpl: Likewise * gnu/system/examples/lightweight-desktop.tmpl: Likewise * gnu/system/examples/vm-image.tmpl: Likewise * gnu/system/examples/yggdrasil.tmpl: Likewise * gnu/system/hurd.scm: Likewise * gnu/system/images/hurd.scm: Likewise * gnu/system/images/novena.scm: Likewise * gnu/system/images/pine64.scm: Likewise * gnu/system/images/pinebook-pro.scm: Likewise * gnu/system/images/rock64.scm: Likewise * gnu/system/install.scm: Likewise * gnu/system/vm.scm: Likewise * gnu/tests.scm: Likewise * gnu/tests/ganeti.scm: Likewise * gnu/tests/install.scm: Likewise * gnu/tests/nfs.scm: Likewise * gnu/tests/telephony.scm: Likewise * tests/boot-parameters.scm: Likewise * tests/system.scm: Likewise Maxim Cournoyer 2021-06-20services: openssh: Replace 'without-password' by 'prohibit-password'....For some time, OpenSSH's option 'PermitRootLogin' has deprecated the ambiguous argument 'without-password' with 'prohibit-password'. * doc/guix.texi (Network Services): Replace 'without-password by 'prohibit-password. * gnu/machine/digital-ocean.scm (guix-infect): Change system configuration to use 'prohibit-password. * gnu/services/ssh.scm (openssh-configuration): Change comment to use 'prohibit-password. (openssh-config-file): Add support for 'prohibit-password to 'permit-root-login'. Warn about deprecated 'without-password usage. * gnu/tests/ganeti.scm (%ganeti-os): Replace 'without-password by 'prohibit-password. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr> Brice Waegeneire 2021-06-03machine: ssh: Respect calling convention for monadic procedures....Fixes a regression introduced in 2885c3568edec35086f8feeae5b60259cbea407c. Reported by Mathieu Othacehe. * gnu/machine/ssh.scm (deploy-managed-host)[eval/error-handling]: Return two values in the standard case. Ludovic Courtès 2021-06-01machine: ssh: Gracefully handle failure of the effectful bits....Previously, '&inferior-exception' raised by 'upgrade-shepherd-services' and co. would go through as-is, leaving users with an ugly backtrace. * gnu/machine/ssh.scm (deploy-managed-host): Define 'eval/error-handling' and use it in lieu of EVAL as arguments to 'switch-to-system', 'upgrade-shepherd-services', and 'install-bootloader'. Ludovic Courtès 2021-02-25machine: ssh: Use 'formatted-message'....* gnu/machine/ssh.scm (machine-check-initrd-modules): Use 'formatted-message' instead of 'format' + '&message'. Ludovic Courtès 2021-01-04machine: ssh: Do not import the host (guix config), really....This is a followup to 70ffa8af1e93ab8a92c4622745e9cb4a2782f3c8, which did not really solve the problem. * gnu/machine/ssh.scm (not-config?): New procedure. (machine-boot-parameters): Use it as an argument to 'source-module-closure'. Ludovic Courtès 2020-12-21system: Allow separated /boot and encrypted root....* gnu/bootloader/grub.scm (grub-configuration-file): New parameter store-crypto-devices. [crypto-devices]: New helper function. [builder]: Use crypto-devices. * gnu/machine/ssh.scm (roll-back-managed-host): Use boot-parameters-store-crypto-devices to provide its contents to the bootloader configuration generation process. * gnu/tests/install.scm (%encrypted-root-not-boot-os, %encrypted-root-not-boot-os): New os declaration. (%encrypted-root-not-boot-installation-script): New script, whose contents were initially taken from %encrypted-root-installation-script. (%test-encrypted-root-not-boot-os): New test. * gnu/system.scm (define-module): Export operating-system-bootoader-crypto-devices and boot-parameters-store-crypto-devices. (<boot-parameters>): Add field store-crypto-devices. (read-boot-parameters): Parse store-crypto-devices field. [uuid-sexp->uuid]: New helper function extracted from device-sexp->device. (operating-system-bootloader-crypto-devices): New function. (operating-system-bootcfg): Use operating-system-bootloader-crypto-devices to provide its contents to the bootloader configuration generation process. (operating-system-boot-parameters): Add store-crypto-devices to the generated boot-parameters. (operating-system-boot-parameters-file): Likewise to the file with the serialized structure. * guix/scripts/system.scm (reinstall-bootloader): Use boot-parameters-store-crypto-devices to provide its contents to the bootloader configuration generation process. * tests/boot-parameters.scm (%default-store-crypto-devices): New variable. (%grub-boot-parameters, test-read-boot-parameters): Use %default-store-crypto-devices. (tests store-crypto-devices): New tests. Miguel Ángel Arruga Vivas 2020-11-09machine: ssh: Do not import the host (guix config)....* gnu/machine/ssh.scm (machine-boot-parameters): Use 'make-config.scm' for (guix config). Ludovic Courtès 2020-11-01system: Add store-directory-prefix to boot-parameters....Fixes <http://issues.guix.gnu.org/44196> * gnu/machine/ssh.scm (roll-back-managed-host): Use boot-parameters-store-directory-prefix. * gnu/system.scm (define-module): Export boot-parameters-store-directory-prefix. (<boot-parameters>)[store-directory-prefix]: New field. It is used to generate the correct paths when /gnu/store is installed on a btrfs subvolume whose name doesn't match the final runtime path, as the bootloader doesn't have knowledge about the final mounting points. [boot-parameters-store-directory-prefix]: New accessor. (read-boot-parameters): Read directory-prefix from store field. (operating-system-boot-parameters-file): Add directory-prefix to store field. * guix/scripts/system.scm (reinstall-bootloader): Use boot-parameters-store-directory-prefix. * test/boot-parameters.scm (%default-btrfs-subvolume, %default-store-directory-prefix): New variables. (%grub-boot-parameters): Use %default-store-directory-prefix. (%default-operating-system): Use %default-btrfs-subvolume. (test-boot-parameters): Add directory-prefix. (test optional fields): Add test for directory-prefix. (test os store-directory-prefix): New test. Miguel Ángel Arruga Vivas