From mboxrd@z Thu Jan 1 00:00:00 1970 From: =?UTF-8?Q?G=C3=A1bor_Boskovits?= Subject: Re: [outreach] Help trying to create R package Date: Thu, 18 Oct 2018 17:40:14 +0200 Message-ID: References: <20181016074412.54757b18@alma-ubu> <20181016082350.75757e6b@alma-ubu> <20181017001851.71543cc9@alma-ubu> <20181017091750.1c408b8d@alma-ubu> <20181018085424.541e9287@alma-ubu> Mime-Version: 1.0 Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: quoted-printable Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:35365) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1gDAPc-0005Qr-DP for guix-devel@gnu.org; Thu, 18 Oct 2018 11:40:38 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1gDAPa-0002Nq-Kd for guix-devel@gnu.org; Thu, 18 Oct 2018 11:40:36 -0400 Received: from mail-oi1-x243.google.com ([2607:f8b0:4864:20::243]:35525) by eggs.gnu.org with esmtps (TLS1.0:RSA_AES_128_CBC_SHA1:16) (Exim 4.71) (envelope-from ) id 1gDAPa-000240-9Z for guix-devel@gnu.org; Thu, 18 Oct 2018 11:40:34 -0400 Received: by mail-oi1-x243.google.com with SMTP id 22-v6so24391711oiz.2 for ; Thu, 18 Oct 2018 08:40:27 -0700 (PDT) In-Reply-To: List-Id: "Development of GNU Guix and the GNU System distribution." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-devel-bounces+gcggd-guix-devel=m.gmane.org@gnu.org Sender: "Guix-devel" To: Laura Lazzati Cc: Guix-devel , Ricardo Wurmus Laura Lazzati ezt =C3=ADrta (id=C5=91pont: 201= 8. okt. 18., Cs, 17:26): > > On Thu, Oct 18, 2018 at 12:15 PM G=C3=A1bor Boskovits wrote: > > > > Hi Laura, > > > > Laura Lazzati ezt =C3=ADrta (id=C5=91pont:= 2018. > > okt. 18., Cs, 16:49): > > > > > > On Thu, Oct 18, 2018 at 4:50 AM G=C3=A1bor Boskovits wrote: > > > > > > > > Wow, Bj=C3=B6rn, you were so fast again :) > > > > > > > > I just got around this right now. > > > Again, thank both for being so kind :) > > > > > > > > Bj=C3=B6rn H=C3=B6fling ezt =C3= =ADrta (id=C5=91pont: > > > > 2018. okt. 18., Cs, 8:54): > > > > > > > > > > Hi Laura, > > > > > > > > > > On Wed, 17 Oct 2018 22:36:02 -0300 > > > > > Laura Lazzati wrote: > > > > > > > > > > > > > > > > > https://www.gnu.org/software/guix/manual/en/html_node/Contrib= uting.html#Contributing > > > > > > I have already read this chapter, but I am messed up. I have al= ready > > > > > > cloned from git, but I have some questions: > > > > > > 1) Do I need to install everything from the git repo in my dist= ro? > > > > > > > > > > I'm not sure if I understand you right. You ask if you "need to i= nstall > > > > > 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-fr= om-Git > > > > > > > > > > When building Guix from a checkout, the following packages are re= quired 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 thes= e. > > > 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 `. With= that, > > > > > Guix prepares an "environment" that can be directly used to build > > > > > . > > > > > > > > > > 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 t= hat > > > > > self-circularity :-)) > > > > > > > > > > When you are in, you can just follow the next steps described: > > > > > > > > > > ./bootstrap > > > This worked fine. > > > > > ./configure --localstatedir=3D/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 >=3D 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 > Oops, my bad, yes. I've checked this more thoroughly, on my system guild is provided by guile, which should be provided by guile. Could you ru= n a which guild and a which guile inside the guix environment guix? > > > > > 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-h= ello-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/bi= n > > > 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 > > > > > > > > > > Bj=C3=B6rn > > > > > > > > > > > > > > > > > > > > > > > Thank you! > > > > g_bor > > > > > > Regards :) > > > Laura > > Best regards, > > g_bor