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From: "Björn Höfling" <bjoern.hoefling@bjoernhoefling.de>
To: Laura Lazzati <laura.lazzati.15@gmail.com>
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 00:18:51 +0200	[thread overview]
Message-ID: <20181017001851.71543cc9@alma-ubu> (raw)
In-Reply-To: <CAPNLzUNS27cyYwBYf1RZQ01OAuJQW+mOtj_bhPn4zXotmydexw@mail.gmail.com>

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Hi Laura,

On Tue, 16 Oct 2018 10:13:23 -0300
Laura Lazzati <laura.lazzati.15@gmail.com> wrote:

[importing problems ...]

Could you solve your certificate-problem? Have you been successfully in
importing a package?

Unfortunately the package of your choice is already part of guix:


$ guix package -s "rtracklayer$"
name: r-rtracklayer
version: 1.40.6
outputs: out
systems: x86_64-linux i686-linux armhf-linux aarch64-linux mips64el-linux
dependencies: pkg-config@0.29.2 r-biocgenerics@0.26.0 r-biostrings@2.48.0
+ r-genomeinfodb@1.16.0 r-genomicalignments@1.16.0 r-genomicranges@1.32.6
+ r-iranges@2.14.11 r-rcurl@1.95-0.1.2 r-rsamtools@1.32.3 r-s4vectors@0.18.3
+ r-xml@3.98-1.16 r-xvector@0.20.0 zlib@1.2.11
location: gnu/packages/bioinformatics.scm:7696:2
homepage: https://bioconductor.org/packages/rtracklayer
license: Artistic License 2.0
synopsis: R interface to genome browsers and their annotation tracks  
description: rtracklayer is an extensible framework for interacting with
+ multiple genome browsers (currently UCSC built-in) and manipulating annotation
+ tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, BigWig
+ and 2bit built-in).  The user may export/import tracks to/from the supported
+ browsers, as well as query and modify the browser state, such as the current
+ viewport.
relevance: 4

Can you find another one?


> I am trying to do my best. I am reading the documentation carefully, I
> recall mentioning that I am that kind of person,  but I also know that
> time counts for the contributions. 

Yes, you mentioned that :-) The documentation is huge, with lots of
special concepts. I would recommend reading it only partially, whenever
you need more information.


> And if I figure out how to package
> R packages, then I can also package more packages and, whatever the
> result of outreachy might be, well, there are more useful packages in
> guix.
> For instance, I tried, before of asking for help with  the example
> shown with cairo and it worked fine, so I was  not understanding very
> well what was happening,
> In addition, I have just run
> $ guix package -s "\<R\>" | recsel -p name,synopsis >>
> outputRwithNameAndSynopsis.txt
> and found even more R packages already installed.

Here is another one:

guix package -s "^r-" | recsel -p name| grep '\S' | sort >r.txt

the carret-symbol "^" matches the beginning of the line.
There are some empty lines, which get sorted out with the grep.


> Well, time to work!

Good luck!

Björn

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  reply	other threads:[~2018-10-16 22:19 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 [this message]
2018-10-17  1:01                 ` Laura Lazzati
2018-10-17  7:17                   ` Björn Höfling
2018-10-17  8:21                     ` Gábor Boskovits
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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