From: "Gábor Boskovits" <boskovits@gmail.com>
To: "Björn Höfling" <bjoern.hoefling@bjoernhoefling.de>
Cc: Guix-devel <guix-devel@gnu.org>,
Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
Subject: Re: [outreach] Help trying to create R package
Date: Wed, 17 Oct 2018 10:21:27 +0200 [thread overview]
Message-ID: <CAE4v=piZSoRLFFSV_QzJTbyqSaqt=Zx6K0bLOF5_BfrCn7yEYg@mail.gmail.com> (raw)
In-Reply-To: <20181017091750.1c408b8d@alma-ubu>
[-- Attachment #1: Type: text/plain, Size: 4765 bytes --]
ÜHi Laura,
Björn Höfling <bjoern.hoefling@bjoernhoefling.de> ezt írta (időpont: 2018.
okt. 17., Sze 9:17):
> Hi Laura,
>
> On Tue, 16 Oct 2018 22:01:58 -0300
> Laura Lazzati <laura.lazzati.15@gmail.com> wrote:
>
> > On Tue, Oct 16, 2018 at 7:19 PM Björn Höfling
> > <bjoern.hoefling@bjoernhoefling.de> wrote:
> > >
> > > Hi Laura,
> > Hi! I had not answered yet because I thought I would be too verbose.
> > If so, please do a Laura -v instead of Laura -vvvvvvv.
> > Thanks for writing :) it encourages me a lot.
>
> You're welcome. It's nice to hear from your progress. Verbosity-level
> is fine :-)
>
> [..]
>
> > > Here is another one:
> > >
> > > guix package -s "^r-" | recsel -p name| grep '\S' | sort >r.txt
> >
> > Something I faced after writing, was that in the link one of you
> > provided: [1]https://guix.mdc-berlin.de/
> > I have all the packages that are already available in guix. I like
> > using the guix package command to practice that too, but i found it
> > practical to see packages easier. I found out that package aspi
> > (https://CRAN.R-project.org/package=aspi) is not available, and I
> > would like to ask you if you believe it is a good candidate.
> > One available package, according to [1] is r-abe
> > (https://cran.r-project.org/web/packages/abe/index.html)
>
> Sorry I have no clue of R at all. Could someone else please answer that
> question, is r-aspi a good candidate?
>
> https://cran.r-project.org/web/packages/aspi/index.html
>
>
> > I wanted to see the template, so I ran:
> > $ guix import cran abe
> > And got the template, that matches even the version, and everything
> > stated in the site.
> > But then I tried:
> > $ guix package -i r-abe and got no results.
>
This happens, as the installed guix doesn't know where to find the package
definition. There are several ways around that, for example see the -f flag
of guix package, in the invoking guix package section of the manual.
> > In fact, after running the command you have just provided, r-abe is
> > not appearing in the r.txt file.
> > I can't understand why that is happening. Am I missing something, or
> > is there maybe an inconsistency between [1] and the guix installed in
> > my foreign distro?
>
> Concerning r-abe: I don't know how the list at guix-hpc is created
> , how often it is updated or if there are extra packages in there. In
> your case, I suppose you lack behind:
>
> There is a commit for r-abe from 2019-09-13, so it is only a month old.
> I think you are lacking behind. Have you done a `guix pull`? That's the
> command used to update the package definitions.
>
> In case you already did a guix pull recently, and you still don't see
> it, there could be a problem with your $PATH, that the wrong guix is
> coming first. Do a `which guix`.
> Guix should be the one in ~/.config/guix/current/bin/guix
>
Yes, please run guix pull, and check which guix output.
>
> > Just wanted to install it to run guix edit to check if the suggested
> > packages were already available or if I needed to package them too,
> > but I have installed r-ade4, which has both imports and suggests, and
> > I have just run:
> > $guix import cran ade4
> > And noticed that it only states in the template the Import package
> > (MASS)
>
> If I see that right, for R we only add the "Imports" packages, as they
> are absolutely needed for compiling/running. All "Suggests" can be
> installed/used just at runtime. Please correct me anyone if I'm wrong,
> I'm not into R.
>
>
> > Here is my template for aspi (I named it for myself r-aspi.scm). I ran
> > guix download from its site, and also guix hash to convert it to
> > base32:
> >
> > (define-public r-aspi
> > (package
> > (name "r-aspi")
> > (version "0.2.0")
> > (source
> > (origin
> > (method url-fetch)
> > (uri (cran-uri "aspi" version))
> > (sha256
> > (base32
> > "a7izhueiqsdjs2eo7dfyb63cqje7mbqz6ennlyoynxxucbhpdnta"))))
> > (build-system r-build-system)
> > (home-page
> > "https://cran.r-project.org/web/packages/aspi/")
> > (synopsis
> > "Analysis of Symmetry of Parasitic Infections")
> > (description
> > "Tools for the analysis and visualization of bilateral asymmetry
> > in parasitic infections.")
> > (license gpl3+)))
> > And that's were I ended up today (it is still Tuesday, almost 10pm)
>
> I haven't done a full review, but that looks good. Next you need to get
> the guix sources and prepare a patch.
>
> That's described here:
>
>
> https://www.gnu.org/software/guix/manual/en/html_node/Contributing.html#Contributing
>
>
> Björn
>
Best regards,
g_bor
>
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next prev parent reply other threads:[~2018-10-17 8:21 UTC|newest]
Thread overview: 46+ messages / expand[flat|nested] mbox.gz Atom feed top
2018-10-13 13:36 [outreach] Help trying to create R package Laura Lazzati
2018-10-13 17:58 ` Gábor Boskovits
2018-10-13 18:25 ` Catonano
2018-10-14 0:40 ` Laura Lazzati
2018-10-15 22:47 ` Laura Lazzati
2018-10-16 5:44 ` Björn Höfling
2018-10-16 6:23 ` Björn Höfling
2018-10-16 8:28 ` Gábor Boskovits
2018-10-16 13:13 ` Laura Lazzati
2018-10-16 22:18 ` Björn Höfling
2018-10-17 1:01 ` Laura Lazzati
2018-10-17 7:17 ` Björn Höfling
2018-10-17 8:21 ` Gábor Boskovits [this message]
2018-10-17 14:27 ` Laura Lazzati
2018-10-17 16:38 ` Laura Lazzati
2018-10-17 17:13 ` Clément Lassieur
2018-10-17 17:50 ` Laura Lazzati
2018-10-18 1:36 ` Laura Lazzati
2018-10-18 6:54 ` Björn Höfling
2018-10-18 7:50 ` Gábor Boskovits
2018-10-18 14:49 ` Laura Lazzati
2018-10-18 15:15 ` Gábor Boskovits
2018-10-18 15:25 ` Laura Lazzati
2018-10-18 15:40 ` Gábor Boskovits
2018-10-18 16:18 ` Laura Lazzati
2018-10-18 17:26 ` Laura Lazzati
2018-10-18 17:41 ` Björn Höfling
2018-10-18 18:14 ` Ricardo Wurmus
2018-10-18 18:17 ` Laura Lazzati
2018-10-19 1:05 ` Laura Lazzati
2018-10-19 3:47 ` Laura Lazzati
2018-10-19 6:21 ` Gábor Boskovits
2018-10-19 7:09 ` Ricardo Wurmus
2018-10-19 7:29 ` Gábor Boskovits
2018-10-19 18:37 ` Laura Lazzati
2018-10-19 18:45 ` Gábor Boskovits
2018-10-19 20:35 ` Laura Lazzati
2018-10-19 21:25 ` Gábor Boskovits
2018-10-19 23:10 ` Laura Lazzati
2018-10-20 6:08 ` Björn Höfling
2018-10-20 6:34 ` Gábor Boskovits
2018-10-20 13:47 ` Laura Lazzati
2018-10-20 14:01 ` Ludovic Courtès
2018-11-02 19:44 ` Laura Lazzati
2018-11-02 20:12 ` Gábor Boskovits
2018-11-02 20:17 ` Laura Lazzati
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