Re: [outreach] Help trying to create R package

[Laura Lazzati <laura.lazzati.15@gmail.com>]

On Thu, Oct 18, 2018 at 12:15 PM Gábor Boskovits <boskovits@gmail.com> wrote:
>
> Hi Laura,
>
> Laura Lazzati <laura.lazzati.15@gmail.com> ezt írta (időpont: 2018.
> okt. 18., Cs, 16:49):
> >
> > On Thu, Oct 18, 2018 at 4:50 AM Gábor Boskovits <boskovits@gmail.com> wrote:
> > >
> > > Wow, Björn, you were so fast again :)
> > >
> > > I just got around this right now.
> > Again, thank both for being so kind :)
> > >
> > > Björn Höfling <bjoern.hoefling@bjoernhoefling.de> ezt írta (időpont:
> > > 2018. okt. 18., Cs, 8:54):
> > > >
> > > > Hi Laura,
> > > >
> > > > On Wed, 17 Oct 2018 22:36:02 -0300
> > > > Laura Lazzati <laura.lazzati.15@gmail.com> wrote:
> > > >
> > > >
> > > > > > https://www.gnu.org/software/guix/manual/en/html_node/Contributing.html#Contributing
> > > > > I have already read this chapter, but I am messed up. I have already
> > > > > cloned from git, but I have some questions:
> > > > > 1) Do I need to install everything from the git repo in my distro?
> > > >
> > > > I'm not sure if I understand you right. You ask if you "need to install
> > > > everything from the git in my distro?". I don't get that. Let me tell
> > > > what I mean:
> > > >
> > > > You cloned that one, right?
> > > >
> > > > git clone https://git.savannah.gnu.org/git/guix.git
> > > >
> > > > That is the source code of Guix. I.e. when you do a
> > > >
> > > > guix package -i hello
> > > >
> > > > then you use the binary "guix" command that you installed in the
> > > > beginning. And the repository you cloned is just the source code, there
> > > > is nothing in there that you need to install.
> > > >
> > > >
> > > > Maybe you ment the list of software that is written here:
> > > >
> > > > https://www.gnu.org/software/guix/manual/en/guix.html#Building-from-Git
> > > >
> > > > When building Guix from a checkout, the following packages are required in addition to those mentioned in the installation instructions (see Requirements).
> > > >
> > > >     GNU Autoconf;
> > > >     GNU Automake;
> > > >     GNU Gettext;
> > > >     GNU Texinfo;
> > > >     Graphviz;
> > > >     GNU Help2man (optional).
> > > >
> > > > So, yeah. In order to compile Guix from source, you need all these.
> > I was indeed trying to do this.
> >
> > > >
> > > > But wait, read the next sentence. You have guix already installed. Guix
> > > > provides a VERY nice command, `guix envirionment <PACKAGE>`. With that,
> > > > Guix prepares an "environment" that can be directly used to build
> > > > <PACKAGE>.
> > > >
> > > > So, if you enter:
> > > >
> > > > guix environment guix
> > I have just did this :)
> Great.
> > > >
> > > > then Guix will know best what software in which version it needs in
> > > > order to build guix (in this case, itself, don't get trapped by that
> > > > self-circularity :-))
> > > >
> > > > When you are in, you can just follow the next steps described:
> > > >
> > > > ./bootstrap
> > This worked fine.
> > > > ./configure --localstatedir=/var
> >
> > This did not, I am getting this error:
> >
> > configure: checking for guile 2.2
> > configure: found guile 2.2
> > checking for guile-2.2... /usr/bin/guile-2.2
> > checking for Guile version >= 2.2... 2.2.3
> > checking for guild-2.2... no
> > checking for guile-config-2.2... no
> > checking for guile-tools-2.2... no
> > configure: error: 'guild' binary not found; please check your
> > guile-2.x installation.
> >
>
> I don't know what to make of this, but you could try guix environment
> guix --ad-hoc guild.
> Please see if that helps, if not then I will have a closer look at this.
I restored everything to the snapshot where I ended cloning guix.
I get this error when trying to run guix environme guix --ad-hoc guild:
guix environment: error: guild: unknown package

>
> > Then ran
> > $guix package -i guile
> > Same error running configure.
> > $guix package -s guild
> > $guix package -i guildhall
> > And my output of guix -I, however, is:
> > hello    2.10    out    /gnu/store/bihfrh609gkxb9dp7n96wlpigiv3krfy-hello-2.10
> > recutils    1.7    out
> > /gnu/store/6h02na6yz9smc7c7g62ss03kp4yhqpc1-recutils-1.7
> > glibc-locales    2.27    out
> > /gnu/store/s28fmfrq8r0c688x59cj0fcyh2pv87nj-glibc-locales-2.27
> > glibc-utf8-locales    2.27    out
> > /gnu/store/mbns811n696fl7g060cx6jqjh75mlj8i-glibc-utf8-locales-2.27
> > nss-certs    3.36.1    out
> > /gnu/store/h8qlwgwhg6jr0kp5ihy90cgb6h0q1fj9-nss-certs-3.36.1
> > r-ade4    1.7-11    out
> > /gnu/store/980xl9a58nd6f22wzwsmv9mkhv7pq3hh-r-ade4-1.7-11
> > guile    2.2.4    out    /gnu/store/p9wm67w3rfw3hlb9iljgvsfn84mz4w9d-guile-2.2.4
> > guildhall    0-1.2fe2cc539    out
> > /gnu/store/kd2mvhr18yphrkiqgavw0w0r0n5bfchn-guildhall-0-1.2fe2cc539
> >
> > Something weird  is that in configure output I see there is a /usr/bin
> > mentioned, so I went to that dir, ran
> > $ ll | grep guile
> > lrwxrwxrwx  1 root root          23 oct 10 22:55 guile ->
> > /etc/alternatives/guile*
> > lrwxrwxrwx  1 root root          43 jul 17 10:42 guile-2.2 ->
> > ../lib/x86_64-linux-gnu/guile-2.2/bin/guile*
> >
> > And can't figure out why I have that links.
> >
> > > > make
> > > >
> > > > When that went all through well, you can install the "hello"
> > > > application:
> > > >
> > > > ./pre-inst-env guix package -i hello
> > > >
> > > > The "./pre-inst-env" tells that you want to use the guix command that
> > > > you just built, not the one that is somewhere else on your path.
> > > >
> > > > Now you just go on:
> > > >
> > > > > 2) How do I convert my template into a package? I can't figure out
> > > > > that part.
> > > >
> > > > You don't have to CONVERT. That template IS a package:
> > > >
> > > > > > (define-public r-aspi
> > > > > > (package
> > > > > >   (name "r-aspi")
> > > >
> > > > What you do is you just open the file gnu/packages/r.scm and add your
> > > > "(define... " at the end.
> > > >
> > > > Ehh, wait, there is no file r.scm. It is either cran.scm or
> > > > bioinformatics.scm.
> > > >
> > > > Then you are done. Try to build it:
> > > >
> > > > ./pre-inst-env guix build r-aspi
> > > >
> > > > Björn
> > > >
> > > >
> > > >
> > >
> > > Thank you!
> > > g_bor
> >
> > Regards :)
> > Laura
> Best regards,
> g_bor