[PATCH] gnu: Add samtools

2014-12-11 Thread Ricardo Wurmus
/packages/bioinformatics.scm new file mode 100644 index 000..4d27b12 --- /dev/null +++ b/gnu/packages/bioinformatics.scm @@ -0,0 +1,83 @@ +;;; GNU Guix --- Functional package management for GNU +;;; Copyright © 2014 Ricardo Wurmus rek...@elephly.net +;;; +;;; This file is part of GNU Guix

Re: [PATCH] gnu: Add samtools

2014-12-12 Thread Ricardo Wurmus
replace “alignments” with “nucleotide sequence alignments” or something to that effect? I agree. See attached patch. From c4cae6d77e00491cfd78fe03da8ab617bc1732f2 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Thu, 11 Dec 2014 15:48:22 +0100 Subject: [PATCH] gnu

[PATCH] gnu: Add bedtools

2014-12-12 Thread Ricardo Wurmus
rather than = assignments. Augmenting patch-makefile-SHELL to handle definitions as well would result in a cleaner package recipe. Cheers, rekado From c8d71da303ff6b82a30db542d382cab57a00699e Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Thu, 11 Dec 2014 17:37:16

Re: [PATCH] gnu: Add samtools

2014-12-15 Thread Ricardo Wurmus
the indentation, though. Should the compared string really be aligned with the arguments of `(or' (as shown above), or rather aligned with `(or', the argument to `(string=?' (as in the attached patch)? -- rekado From c9846248c28f2c22660c156d4275326fe8afac80 Mon Sep 17 00:00:00 2001 From: Ricardo

Re: [PATCH] gnu: Add bedtools

2014-12-15 Thread Ricardo Wurmus
5d1d383417992369e6fa3f81331e87471183ffc6 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Thu, 11 Dec 2014 17:37:16 +0100 Subject: [PATCH] gnu: Add bedtools * gnu/packages/bioinformatics.scm (bedtools): New variable. --- gnu/packages/bioinformatics.scm | 49

[PATCH 0/3] gnu: Add Test::Deep

2014-12-16 Thread Ricardo Wurmus
This series of patches adds recipes for the perl module Test::Deep and its dependencies Test::Tester and Test::NoWarnings. -- rekado From a1804b7b91d41765b2b7b7916df452027d6d0482 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 16 Dec 2014 12:12:10 +0100

[PATCH] gnu: Add Clone.

2014-12-16 Thread Ricardo Wurmus
* gnu/packages/perl.scm (perl-clone): New variable. --- gnu/packages/perl.scm | 21 + 1 file changed, 21 insertions(+) diff --git a/gnu/packages/perl.scm b/gnu/packages/perl.scm index 4135533..d15ce1a 100644 --- a/gnu/packages/perl.scm +++ b/gnu/packages/perl.scm @@ -74,6

[PATCH] gnu: Add Test::Simple

2014-12-16 Thread Ricardo Wurmus
Attached is a patch that adds a recipe for Test::Simple, testing utilities for perl. The previous patches relate to (but do not depend on) Test::Simple. The description is little more than the synopsis, because I had to make it up myself. Any comments on this patch (and the others in this

Re: [PATCH] gnu: Add Test::Simple

2014-12-16 Thread Ricardo Wurmus
From 7c5d5847e935976ae522be4618bc985a8205fdf4 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 16 Dec 2014 16:16:09 +0100 Subject: [PATCH] gnu: Add Test::Simple. * gnu/packages/perl.scm (perl-test-simple): New variable. --- gnu/packages/perl.scm | 19

[PATCH] gnu: Add bowtie.

2014-12-16 Thread Ricardo Wurmus
-devel/2014-12/msg00321.html][Test::Deep]] - [[http://lists.gnu.org/archive/html/guix-devel/2014-12/msg00323.html][Clone]] -- rekado From 713bb1145ff901c4069f2fadb210d8eb842981da Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 16 Dec 2014 17:52:44 +0100 Subject

Re: [PATCH] gnu: Add bowtie.

2014-12-18 Thread Ricardo Wurmus
. Although you said it was applied I haven't yet seen it in the git repository. From 96f31057ba6bb17c1801f87d4bbae70dd3539576 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 16 Dec 2014 17:52:44 +0100 Subject: [PATCH] gnu: Add bowtie * gnu/packages

[PATCH] gnu: Add fastjar

2014-12-22 Thread Ricardo Wurmus
* gnu/packages/compression.scm (fastjar): New variable. --- gnu/packages/compression.scm | 20 1 file changed, 20 insertions(+) diff --git a/gnu/packages/compression.scm b/gnu/packages/compression.scm index 7c22300..b768326 100644 --- a/gnu/packages/compression.scm +++

Re: [PATCH] gnu: Add fastjar

2014-12-22 Thread Ricardo Wurmus
Ricardo Wurmus writes: * gnu/packages/compression.scm (fastjar): New variable. --- gnu/packages/compression.scm | 20 1 file changed, 20 insertions(+) diff --git a/gnu/packages/compression.scm b/gnu/packages/compression.scm index 7c22300..b768326 100644 --- a/gnu

[PATCH] gnu: Add pysam

2014-12-23 Thread Ricardo Wurmus
* gnu/packages/python.scm (python-pysam, python2-pysam): New variables. --- gnu/packages/python.scm | 38 ++ 1 file changed, 38 insertions(+) diff --git a/gnu/packages/python.scm b/gnu/packages/python.scm index f81ab69..24bec00 100644 ---

Re: Is help wanted?Needed?

2014-12-24 Thread Ricardo Wurmus
Omar Radwan writes: Is there like a manual or something that can help me? There is: https://www.gnu.org/software/guix/manual/guix.html A manual in info format is also included in the download. You can read it in Emacs or any other info reader.

[PATCH] gnu: Add Threading Building Blocks

2015-01-26 Thread Ricardo Wurmus
advertisement; any suggestions on how to reword this, or can I just delete the second paragraph? Best, Ricardo From 3e5e1e49893c73f8b9a565edcae5388f548dd13a Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Mon, 26 Jan 2015 16:12:31 +0100 Subject: [PATCH] gnu: Add Threading

Re: [PATCH]: Add GCJ

2015-01-26 Thread Ricardo Wurmus
Ludovic Courtès writes: From 56f43a9042853aca79f60808a51d328dfbe420a3 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 23 Dec 2014 12:31:50 +0100 Subject: [PATCH] gnu: Add GCJ * gnu/packages/gcc.scm (gcj-4.8, ecj-bootstrap-4.8): New variable. * gnu

[PATCH]: Add Ant.

2015-01-30 Thread Ricardo Wurmus
Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 30 Jan 2015 16:57:13 +0100 Subject: [PATCH] gnu: Add Ant. * gnu/packages/java.scm (ant-minimal): New variable. --- gnu/packages/java.scm | 48 1 file changed, 48

Re: [PATCH]: Add Ant.

2015-01-30 Thread Ricardo Wurmus
Ricardo Wurmus writes: this patch adds ant-minimal, a minimal configuration of Apache Ant. Ant can be configured with lots of optional libraries, but since most of these libraries are built with Ant, I think it makes sense to provide a minimal version. A couple more things

Re: Guix System Distribution now FSF-endorsed

2015-02-05 Thread Ricardo Wurmus
Daniel Pimentel writes: In soon the Guix GSD will be in distrowatch too, I request it. The Guix Guix System Distribution, eh? ;) When using the abbreviation GSD for Guix System Distribution I recommend prefixing it with GNU to avoid confusion. ~~ Ricardo

Re: [PATCH] Add 'waf-build-system'.

2015-02-05 Thread Ricardo Wurmus
From adc52a74fb12943fd77c97bf75a2092e839f9024 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Wed, 28 Jan 2015 22:39:03 +0100 Subject: [PATCH] Add 'waf-build-system'. * guix/build-system/waf.scm, guix/build/waf-build-system.scm: New files. * Makefile.am (MODULES

issues with offloading

2015-02-05 Thread Ricardo Wurmus
Hi Guix, I'm trying to set up offloading such that I can have a powerful build host compile stuff for me when my workstation isn't strong enough. I bumped into a couple of issues while doing this, prompting me to write this email to discuss what might be changed to improve this. * lsh required

[PATCH]: Add python-sphinx-rtd-theme.

2015-02-06 Thread Ricardo Wurmus
Hi Guix, attached is a patch to add a Python package for the ReadTheDocs.org Sphinx theme. ~~ Ricardo From c8ba1aa7680f5d75c34177442c39507a49e8b2ae Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 6 Feb 2015 11:34:00 +0100 Subject: [PATCH] gnu: Add Sphinx

[PATCH]: gnu: Add seqan.

2015-02-06 Thread Ricardo Wurmus
by the same author depending on Seqan. The documentation is 7.8MB and the includes are 3.6MB heavy, so I decided to split the outputs. From 63d3fe6a279489bb872708f30e1c74799e7702a5 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 6 Feb 2015 12:38:40 +0100 Subject

Re: [PATCH]: Add Ant.

2015-02-06 Thread Ricardo Wurmus
* to use Ant without problems ANT_HOME and JAVA_HOME really should be set appropriately (ANT_HOME to $out of the ant-minimal package, JAVA_HOME to $out of icedtea6). Should I suggest these two paths as search paths by adding something like this to ant-minimal (for ANT_HOME) and

Re: [PATCH 0/5]: Add even more LV2 libraries

2015-02-03 Thread Ricardo Wurmus
Ludovic Courtès writes: - serd - sord - sratom I think these should go to rdf.scm, no? Yes, I think that would be better. - suil Its ‘description’ is bit long, IMO. Agreed. I'll shorten the description and post an updated patch set. Thanks! Thanks for taking the time for the

Re: [PATCH]: Add CUPS.

2015-01-15 Thread Ricardo Wurmus
: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Wed, 7 Jan 2015 17:49:00 +0100 Subject: [PATCH 1/3] gnu: Add QPDF. * gnu/packages/pdf.scm (qpdf): New variable. LGTM. Thanks, I applied this patch in master. From d42e6a3233b7c5142d1c91d8c2b1c751b74bd444 Mon Sep 17 00:00:00 2001 From: Ricardo

Re: [PATCH]: gnu: Add HISAT.

2015-02-11 Thread Ricardo Wurmus
Andreas Enge writes: the package fails to build on i686: http://hydra.gnu.org/build/247325 Could you maybe have a look? Thanks for notifying me. A recurring error is apparently related to embedded assembly instructions: ~ ... bt2_idx.h: Assembler messages: bt2_idx.h:489: Error:

Re: A secure multimedia workstation

2015-02-10 Thread Ricardo Wurmus
where it actually becomes fun). running it. For example, Ricardo Wurmus (1) recently added Ardour (2), a popular Digital Audio Workstation. Ardour depends on JACK Audio Connection Kit (3), as do many applications in the Linux Audio ecosystem. Multimedia distros like Ubuntu Studio and KXStudio

Re: [PATCH v2]: Add Ardour.

2015-02-11 Thread Ricardo Wurmus
:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Fri, 30 Jan 2015 18:14:00 +0100 Subject: [PATCH 11/15] gnu: Add Vamp SDK. * gnu/packages/audio.scm (vamp): New variable. [...] +(home-page http://vamp-plugins.org;) +(synopsis Vamp audio plugin SDK) What about “Modular

Re: [PATCH]: Add Ant.

2015-02-16 Thread Ricardo Wurmus
ant, because I don't provide another more fully featured variant of Ant. ~~ Ricardo From e0df59826ff9d33e114ac00132c63306b8f873c5 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 30 Jan 2015 16:57:13 +0100 Subject: [PATCH] gnu: Add Ant. * gnu/packages/java.scm

[PATCH]: fix python-matplotlib install-doc phase

2015-02-18 Thread Ricardo Wurmus
. We likely won't be able to see the effect of this fix on hydra because numpy fails to build, which is an input to matplotlib, but at least matplotlib can now be compiled locally. ~~ Ricardo From 31f9b8800de32cdbd1fd3d2266f5fbb41548dccc Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur

Re: [PATCH]: gnu: Add RSeQC.

2015-02-18 Thread Ricardo Wurmus
Ricardo Wurmus writes: The license isn't very clear. The Google Code website[1] lists the license as GPLv3, but nowhere in the source is the license version specified. PKG-INFO declares License :: GPL, whereas ./doc/COPYING contains the MIT license. It's all pretty messy, so I contacted

Re: [PATCH]: gnu: Add HISAT.

2015-02-12 Thread Ricardo Wurmus
Ludovic Courtès writes: Ricardo Wurmus ricardo.wur...@mdc-berlin.de skribis: I wrote the author an email to ask whether this can be fixed upstream for other architectures than x86_64. Until then should I just declare x86_64 as the only supported architecture? Probably yes, with a comment

Re: [ART] Updated SLiM theme with GuixSD logo

2015-02-12 Thread Ricardo Wurmus
Luis Felipe López Acevedo writes: I just updated the SLiM theme with the new GuixSD logo. The text-input box remains in the same position, so no additional changes are needed. See the attached image, In addition to saying that the logo is pretty I have two comments: - do we really want to

[PATCH v1]: gnu: Add R.

2015-02-13 Thread Ricardo Wurmus
to fix this by adding a build phase before `check'. Do you have any ideas how to fix the test suite? The patch also includes the definition of a new mirror for the R package repository CRAN. ~~ Ricardo From d2839cb8b65049990964bdfd20c890db5a8e453b Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus

[PATCH]: jack: propagate libuuid

2015-02-17 Thread Ricardo Wurmus
. ~~ Ricardo From 4729906c5156a7aeec917cbe1408d08a47369d59 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Tue, 17 Feb 2015 09:45:16 +0100 Subject: [PATCH] gnu: jack: propagate input util-linux * gnu/packages/audio.scm (jack-1): Move input util-linux to `propagated-inputs

Re: [PATCH]: add freepats and timidity

2015-02-19 Thread Ricardo Wurmus
Andreas Enge writes: On Thu, Feb 19, 2015 at 07:33:59PM +0100, Ricardo Wurmus wrote: + (copy-recursively . out) I think this is a bit too much, as it also copies COPYING and README. I would suggest to only copy the patch folders Drum_000 and Tone_000 and freepats.cfg

Re: [PATCH]: add freepats and timidity

2015-02-19 Thread Ricardo Wurmus
Andreas Enge writes: On Thu, Feb 19, 2015 at 07:33:59PM +0100, Ricardo Wurmus wrote: +(define-public timidity++ + (package +(name timidity++) Back to names... I would call this timidity. The package guidelines only state that underscores are replaced by -, but the general idea would

Re: [PATCH]: add freepats and timidity

2015-02-19 Thread Ricardo Wurmus
Andreas Enge writes: On Thu, Feb 19, 2015 at 09:03:34PM +0100, Ricardo Wurmus wrote: Is copying the license and the readme file a problem? In my teensy store I count 382 readme files alone. It doesn't seem unusual to include the readme. I think it is not good style. And it can create

Re: [PATCH]: gnu: Add RSeQC.

2015-02-19 Thread Ricardo Wurmus
Ricardo Wurmus writes: The author has told me that the license is GPLv3; the website will be updated accordingly. I will change the license field as soon as the change is publicly visible. The license is now officially declared to be GPLv3: http://rseqc.sourceforge.net/#license

simultaneous installation to same profile

2015-02-19 Thread Ricardo Wurmus
Hi Guix, my colleague was curious what would happen if he installed two packages at the same time from different shell sessions. He ran guix package -i openmpi in one shell and guix package -i boost in the other. The boost installation apparently finished earlier and was added to the profile.

Re: [PATCH]: gnu: Add RSeQC.

2015-02-19 Thread Ricardo Wurmus
Andreas Enge writes: On Thu, Feb 19, 2015 at 11:29:47AM +0100, Ricardo Wurmus wrote: +(license license:gpl3))) From the text printed on the license page you give, it should be gpl3+. Otherwise it looks good, pleas push! You are of course right! Will push with that change.

[PATCH]: add freepats and timidity

2015-02-19 Thread Ricardo Wurmus
2001 From: Ricardo Wurmus rek...@elephly.net Date: Thu, 19 Feb 2015 16:56:39 +0100 Subject: [PATCH 1/2] gnu: Add Freepats. * gnu/packages/audio.scm (freepats): New variable. --- gnu/packages/audio.scm | 42 ++ 1 file changed, 42 insertions(+) diff --git

Re: Midi

2015-02-16 Thread Ricardo Wurmus
FYI: I'm currently packaging TiMidity++. We may still need to package a basic soundfont. ~~ Ricardo

Re: [PATCH]: Add IcedTea 6

2015-02-15 Thread Ricardo Wurmus
Andreas Enge writes: I just replaced the debian java with the icedtea6 you packaged in my android project, and it works well! Do you also plan to package ant? That's great! I'm glad it actually works! I already packaged ant-minimal with only the most basic features enabled, as most

Re: [PATCH]: Add IcedTea 6

2015-02-15 Thread Ricardo Wurmus
Andreas Enge writes: Speaking of java, I have a file gnu/packages/javac.in which is under version control, and which is required to compile guix. This is a template for a wrapper script around GCJ to convert javac-style arguments to arguments GCJ can understand. It's needed to compile

Re: [PATCH v1]: gnu: Add R.

2015-02-16 Thread Ricardo Wurmus
Ludovic Courtès writes: Ricardo Wurmus ricardo.wur...@mdc-berlin.de skribis: +(inputs + `((atlas ,atlas) ; --with-blas + (bzip2 ,bzip2) Unless used for libbz2, move it to ‘native-inputs’. + (perl ,perl) Likewise. + (texlive ,texlive) ; needed to make

[PATCH]: fix scipy build

2015-02-20 Thread Ricardo Wurmus
d6b6d8c52d71519385ca16e89f5140d2563041e8 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 20 Feb 2015 12:19:38 +0100 Subject: [PATCH] gnu: python-scipy: install UTF-8 locale. * gnu/packages/python.scm (python-scipy): Install en_US.UTF-8 locale in install-doc phase to avoid encoding error

[PATCH]: gnu: Add RSeQC.

2015-02-18 Thread Ricardo Wurmus
okay? ~~ Ricardo ___ [1]: http://code.google.com/p/rseqc From e99a3cdb587afcf874495519c4dcf380295bd6f1 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Wed, 18 Feb 2015 15:00:04 +0100 Subject: [PATCH] gnu: Add RSeQC. * gnu/packages/bioinformatics.scm (rseqc

Re: [PATCH] gnu: Add wildmidi.

2015-02-17 Thread Ricardo Wurmus
Mark H Weaver writes: * You mentioned in another thread (subject Midi) that you hadn't tested it, and then Andreas reported that it didn't work. We should get it working before adding it. It doesn't work out of the box because (just like timidity++) it needs to be passed a configuration

[PATCH]: gnu: Add arpack-ng.

2015-02-18 Thread Ricardo Wurmus
From eb9c5e9a239a5001afec411296ea7e482444c405 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Wed, 18 Feb 2015 16:08:33 +0100 Subject: [PATCH] gnu: Add arpack-ng. * gnu/packages/maths.scm (arpack-ng): New variable. --- gnu/packages/maths.scm | 25

Re: [PATCH]: Add LV2 mda Piano/EPiano plugins.

2015-02-18 Thread Ricardo Wurmus
Mark H Weaver writes: Downloads from gitorious do not appear to work (see bug #19840), so I offer the tarball (one for both plugins) on my own server until this is fixed. I will fix bug #19840 soon, and would prefer that we wait for that. Okay. This will also give me time to make a new

[PATCH] Add 'waf-build-system'.

2015-01-28 Thread Ricardo Wurmus
, Ardour, JACK2, and related libraries. ~~ Ricardo From adc52a74fb12943fd77c97bf75a2092e839f9024 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Wed, 28 Jan 2015 22:39:03 +0100 Subject: [PATCH] Add 'waf-build-system'. * guix/build-system/waf.scm, guix/build/waf-build

Re: [PATCH]: Add IcedTea 6

2015-01-28 Thread Ricardo Wurmus
’, no? Of course! I just stopped thinking at some point, I suppose. (Or it's a remnant from my initial attempts with IcedTea7 which expects tarballs of particular names to exist.) From 13490591fe7ad774e8ec95626113138d828366fb Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc

[PATCH]: gnu: bowtie: only support x86_64-linux

2015-01-29 Thread Ricardo Wurmus
Since bowtie's Makefile explicitly checks that the system it is built on is x86_64 building on MIPS and i686 should be disabled. (See bug#19708 for discussion.) This is what the attached patch does. ~~ Ricardo From 9789efe14b8cf00ebf6b39a63146483fbe220535 Mon Sep 17 00:00:00 2001 From: Ricardo

Re: [PATCH]: Add IcedTea 6

2015-01-29 Thread Ricardo Wurmus
Ludovic Courtès writes: I rewrote this to instead check the generated test logs in test/ for lines starting with Error: or FAILED:. To disable tests I wrapped it in an (or #t ...) as the argument #:tests? #f does not disable a custom check phase. 'check (lambda _

Re: [PATCH]: gnu: bowtie: only support x86_64-linux

2015-01-29 Thread Ricardo Wurmus
Ricardo Wurmus writes: Since bowtie's Makefile explicitly checks that the system it is built on is x86_64 building on MIPS and i686 should be disabled. (See bug#19708 for discussion.) This is what the attached patch does. Please disregard the above patch and consider the attached one

[PATCH 0/4]: Add various audio libraries

2015-01-29 Thread Ricardo Wurmus
Hi Guix, this patch series adds a couple of audio libraries to gnu/packages/audio.scm. Some of them depend on the waf-build-system introduced in an earlier, separate patch set. The following packages are added: - JACK2 (with dbus support) - aubio - liblo - LV2 The latter three packages are

[PATCH v2]: Add Ardour.

2015-01-31 Thread Ricardo Wurmus
the patches is clearer now that Ardour has also been packaged. ~~ Ricardo From b60b5718c35db62d471df63168bc3da4c11bbc32 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Wed, 28 Jan 2015 22:39:03 +0100 Subject: [PATCH 01/15] Add 'waf-build-system'. * guix/build-system/waf.scm, guix

[PATCH]: Add JACK.

2015-01-26 Thread Ricardo Wurmus
100644 index 000..f57af69 --- /dev/null +++ b/gnu/packages/audio.scm @@ -0,0 +1,57 @@ +;;; GNU Guix --- Functional package management for GNU +;;; Copyright © 2015 Ricardo Wurmus rek...@elephly.net +;;; +;;; This file is part of GNU Guix. +;;; +;;; GNU Guix is free software; you can

[PATCH]: Add GCJ

2015-01-23 Thread Ricardo Wurmus
(there is no official upstream source for the wrapper script, so we might as well roll our own). Anyway, your comments are very welcome. -- Ricardo From 56f43a9042853aca79f60808a51d328dfbe420a3 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 23 Dec 2014 12:31:50

Re: [PATCH] gnu: Add Threading Building Blocks

2015-01-27 Thread Ricardo Wurmus
8acd14a15924cf23a0a4ba7582d66c26b2245799 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Mon, 26 Jan 2015 16:12:31 +0100 Subject: [PATCH] gnu: Add Threading Building Blocks. * gnu/packages/tbb.scm: New file. * gnu-system.am (GNU_SYSTEM_MODULES): Add it. --- gnu-system.am

Re: [PATCH]: Add JACK.

2015-01-26 Thread Ricardo Wurmus
Andreas Enge writes: On Mon, Jan 26, 2015 at 10:25:06AM +0100, Ricardo Wurmus wrote: +(define-public jack1 + (package +(name jack) +(version 0.124.1) Is the 1 in jack1 above a typo? It is not. There are two editions available: JACK1 (currently at version 0.124.1) and JACK2

[PATCH]: Add CUPS.

2015-01-05 Thread Ricardo Wurmus
to build OpenJDK. Best, Ricardo From 90ce3c9a1b1a7f3ba034b7e69aef910252470d72 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Mon, 5 Jan 2015 13:56:51 +0100 Subject: [PATCH] gnu: Add CUPS. * gnu/packages/cups.scm: New file * gnu-system.am (GNU_SYSTEM_MODULES): Add

Re: [PATCH]: Add CUPS.

2015-01-05 Thread Ricardo Wurmus
Thompson, David writes: On Mon, Jan 5, 2015 at 8:04 AM, Ricardo Wurmus ricardo.wur...@mdc-berlin.de wrote: I'm also not sure if creating two outputs out and include is correct. To build OpenJDK with IcedTea I need to have both the library output and the include files and after splitting

Re: [PATCH]: Add CUPS.

2015-01-05 Thread Ricardo Wurmus
Ludovic Courtès writes: Ricardo Wurmus ricardo.wur...@mdc-berlin.de skribis: There are a couple of problems with this package, one of which is that the test suite is failing for some reason. I have not been able to figure out why the cupsFileFind test fails, so I disabled the tests. OK

Re: Optional runtime dependencies in Guix

2015-01-12 Thread Ricardo Wurmus
Ludovic Courtès writes: Gammel Holte gammel.ho...@gmail.com skribis: For example, consider samtools, a package I use daily and that was recently committed to Guix: http://git.savannah.gnu.org/cgit/guix.git/tree/gnu/packages/bioinformatics.scm#n139 It forces me to install python. In

Re: [PATCH 0/3]: openjpeg and poppler

2015-01-09 Thread Ricardo Wurmus
This patch series - fixes the home page URL for openjpeg - adds openjpeg 1.5 (inheriting from openjpeg 2) - updates poppler to build with openjpeg 1.5 and lcms - updates openjpeg 2.0.0 to 2.0.1 All looks good to me! Please make sure to add a copyright line for you in these two files.

Re: [PATCH]: Add CUPS.

2015-01-09 Thread Ricardo Wurmus
though I have been trying for a long time. I have addressed your previous comments about outputs and the CUPS license (gpl2 instead of gpl2+). Thanks in advance for your review! -- Ricardo From 8e671fdd888bf9548bf52acf8789500c90d4b072 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur

Re: [PATCH]: gnu: Add HISAT.

2015-02-10 Thread Ricardo Wurmus
to the long list. +(license license:gpl3))) GPLv3-only? You were right: it's GPLv3+. My apologies. From 5696a8227d98d60d38f0ff19b40a21ccb13e53f1 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Mon, 9 Feb 2015 12:13:26 +0100 Subject: [PATCH] gnu: Add HISAT. * gnu

Re: [PATCH]: gnu: Add STAR.

2015-02-10 Thread Ricardo Wurmus
Ludovic Courtès writes: +(license license:gpl3))) GPLv3-only? Actually, searching the source tree shows me that LICENSE includes the or (at your option) any later version phrase; but the included copy of htslib that is built as part of the STAR aligner is MIT licensed. I'll update the

Re: [PATCH]: gnu: Add HISAT.

2015-02-10 Thread Ricardo Wurmus
Ludovic Courtès writes: If it’s possible to avoid the whole list using ‘find-files’ or ‘scandir’, that would be nicer IMO. If it’s not, that’s fine. +(license license:gpl3))) GPLv3-only? Thanks! Ludo’.

Re: [PATCH v1]: gnu: Add R.

2015-02-13 Thread Ricardo Wurmus
Ricardo Wurmus writes: The test suite fails when using `guix build' but it's passing when run in `guix environment --pure r' (where LANG is en_GB.UTF-8). Judging from the error message I suspect that the failure is locale-related, but I was not able to fix this by adding a build phase

Re: [PATCH 0/4]: Add various audio libraries

2015-02-10 Thread Ricardo Wurmus
:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Thu, 5 Feb 2015 22:40:06 +0100 Subject: [PATCH] gnu: Add LV2. * gnu/packages/audio.scm (lv2): New variable. --- gnu/packages/audio.scm | 30 ++ 1 file changed, 30 insertions(+) diff --git a/gnu/packages

Re: [PATCH 0/5]: Add even more LV2 libraries

2015-02-10 Thread Ricardo Wurmus
. Attached are updated patches for these five packages. ~~ Ricardo From a17b861614f20d98e240c975d58d00470c912830 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Tue, 10 Feb 2015 10:07:57 +0100 Subject: [PATCH 1/5] gnu: Add serd. * gnu/packages/rdf.scm (serd): New variable. --- gnu

[PATCH]: gnu: Add HISAT.

2015-02-09 Thread Ricardo Wurmus
305768bfef9bf4bc8d57828e27b8439dedd574bd Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Mon, 9 Feb 2015 12:13:26 +0100 Subject: [PATCH] gnu: Add HISAT. * gnu/packages/bioinformatics.scm (hisat): New variable. --- gnu/packages/bioinformatics.scm | 77

[PATCH]: gnu: Add STAR.

2015-02-09 Thread Ricardo Wurmus
Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Mon, 9 Feb 2015 15:38:30 +0100 Subject: [PATCH] gnu: Add STAR. * gnu/packages/bioinformatics.scm (star): New variable. --- gnu/packages/bioinformatics.scm | 48 + 1 file changed

Re: [PATCH]: Add Ant.

2015-02-09 Thread Ricardo Wurmus
00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 30 Jan 2015 16:57:13 +0100 Subject: [PATCH] gnu: Add Ant. * gnu/packages/java.scm (ant-minimal): New variable. --- gnu/packages/java.scm | 49 + 1 file changed, 49 insertions

[PATCH]: gnu: Add lash.

2015-02-13 Thread Ricardo Wurmus
Attached is a patch to add lash, an audio application session handler. ~~ Ricardo From 19edc131b719981a9545867bf167daa642551a08 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Fri, 13 Feb 2015 23:20:00 +0100 Subject: [PATCH] gnu: Add lash. * gnu/packages/audio.scm (lash

[PATCH]: Add LV2 mda Piano/EPiano plugins.

2015-02-13 Thread Ricardo Wurmus
9bc97be6d04e02c1474e3a257de2062055260401 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Wed, 11 Feb 2015 23:30:50 +0100 Subject: [PATCH 1/2] gnu: Add LV2 mda Piano plugin. * gnu/packages/audio.scm (lv2-mdapiano): New variable. --- gnu/packages/audio.scm | 35 +++ 1

Re: [PATCH]: gnu: Add lash.

2015-02-13 Thread Ricardo Wurmus
David Thompson writes: + (uri (string-append + mirror://savannah/lash/lash- + (string-map (lambda (x) (if (char=? x #\-) #\~ x)) version) How about splitting the string on #\- and then joining on #\~ instead? Yeah, that would probably look

Re: Midi

2015-02-15 Thread Ricardo Wurmus
Andreas Enge writes: another message for Ricardo or anyone else interested in sound: Have we already got an application to play midi files on guix? I used to use timidity (with an appropriate rather large soundfont), but maybe there are better choices nowadays? I know of no alternatives to

Re: [PATCH]: Add Ant.

2015-02-15 Thread Ricardo Wurmus
discovered that I don't actually have any use for it yet (even building IcedTea was only motivated by my desire to build R), so I didn't mind to take a break from anything Java-related :) On Mon, Feb 09, 2015 at 03:51:40PM +0100, Ricardo Wurmus wrote: +(define-public ant-minimal If I understood

[PATCH]: gnu: Add AZR-3.

2015-02-15 Thread Ricardo Wurmus
From: Ricardo Wurmus rek...@elephly.net Date: Sun, 15 Feb 2015 20:53:26 +0100 Subject: [PATCH] gnu: Add AZR-3. * gnu/packages/audio.scm (azr3): New variable. --- gnu/packages/audio.scm | 37 + 1 file changed, 37 insertions(+) diff --git a/gnu/packages/audio.scm b

Re: [PATCH]: gnu: Add patchage.

2015-02-15 Thread Ricardo Wurmus
I forgot to send along the patch that adds ganv, the GTK widget used by patchage. ~~ Ricardo From 348f70829543f13677c2b63f8e0d3bb6fc39f922 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Sun, 15 Feb 2015 21:45:54 +0100 Subject: [PATCH] gnu: Add ganv. * gnu/packages

[PATCH]: gnu: Add patchage.

2015-02-15 Thread Ricardo Wurmus
From d1ee03729c640bd6727bb13f61fa2729b6eef93b Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Sun, 15 Feb 2015 21:43:01 +0100 Subject: [PATCH] gnu: Add patchage. * gnu/packages/audio.scm (patchage): New variable. --- gnu/packages/audio.scm | 34

[PATCH]: gnu: Add jalv.

2015-02-20 Thread Ricardo Wurmus
From e253f67cd387dbad5629e53d113a717b41ca96af Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Fri, 20 Feb 2015 22:05:37 +0100 Subject: [PATCH] gnu: Add jalv. * gnu/packages/audio.scm (jalv): New variable. --- gnu/packages/audio.scm | 31 +++ 1

[PATCH]: gnu: lilv: propagate inputs serd, sord and sratom.

2015-02-20 Thread Ricardo Wurmus
00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Fri, 20 Feb 2015 21:56:51 +0100 Subject: [PATCH] gnu: lilv: propagate inputs serd, sord and sratom. * gnu/packages/audio.scm (lilv): move serd, sord and sratom to propagated inputs. --- gnu/packages/audio.scm | 8 +--- 1 file

[PATCH] Add SuiteSparse.

2015-03-18 Thread Ricardo Wurmus
From 7bc01b9d3c03bf0ae4f44eddcbc6c50590ea42fb Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 10 Mar 2015 11:32:48 +0100 Subject: [PATCH] gnu: Add SuiteSparse. * gnu/packages/maths.scm (suitesparse): New variable. --- gnu/packages/maths.scm | 54

[PATCH] Add h5py.

2015-03-18 Thread Ricardo Wurmus
From 578e105ea3beec8c7b2edde9135d4ac272440c4b Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Wed, 18 Mar 2015 14:08:20 +0100 Subject: [PATCH] gnu: Add python-h5py and python2-h5py. * gnu/packages/python.scm (python-h5py, python2-h5py): New variables. --- gnu

[PATCH] Add Shogun.

2015-03-18 Thread Ricardo Wurmus
From 083573c250162b9b12173e13e66c04f6c32568fb Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Wed, 18 Mar 2015 17:59:20 +0100 Subject: [PATCH] gnu: Add Shogun. * gnu/packages/bioinformatics.scm (shogun): New variable. --- gnu/packages/bioinformatics.scm | 92

[PATCH] build GTK2 typelib file

2015-03-15 Thread Ricardo Wurmus
okay? Should this be applied to core updates instead of master? ~~ Ricardo From a71d408351e54031a1bb0ecb143128a5512fc75e Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus rek...@elephly.net Date: Sun, 15 Mar 2015 23:12:32 +0100 Subject: [PATCH] gnu: gtk+-2: build gobject introspection typelib file

[PATCH] Various icedtea6 patches

2015-03-17 Thread Ricardo Wurmus
to coming up with appropriate commit messages for these changes, so I'd appreciate suggestions to improve them. ~~ Ricardo From 3bc3dd46ebec97acf424bbc8b3026ee23fdafa19 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 10 Mar 2015 13:56:55 +0100 Subject: [PATCH 1/5

Re: [PATCH] Add SuiteSparse.

2015-03-19 Thread Ricardo Wurmus
Eric Bavier writes: On 2015-03-18 05:09, Ricardo Wurmus wrote: + (alist-cons-before +'install 'prepare-out +(lambda _ + (mkdir-p (string-append (assoc-ref %outputs out) /lib)) + (mkdir-p (string-append (assoc-ref %outputs out) /include))) Could

Re: [PATCH] Add openblas.

2015-03-19 Thread Ricardo Wurmus
Ludovic Courtès writes: Eric Bavier ericbav...@openmailbox.org skribis: On 2015-03-17 06:32, Ricardo Wurmus wrote: From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Tue, 17 Mar 2015 12:24:45 +0100 Subject: [PATCH] gnu: Add openblas. * gnu/packages/maths.scm (openblas): New variable

[PATCH] Add perl-uri.

2015-03-20 Thread Ricardo Wurmus
From b50b37a9abcf049b310b613eed29a121b7b8b3b9 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 20 Mar 2015 12:36:18 +0100 Subject: [PATCH] gnu: Add perl-uri. * gnu/packages/perl.scm (perl-uri): New variable. --- gnu/packages/perl.scm | 22

[PATCH] Add python2-pbcore.

2015-03-20 Thread Ricardo Wurmus
From bd84fbfa95fc06c8580e033ac0986157efcd8c49 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 20 Mar 2015 12:39:50 +0100 Subject: [PATCH] gnu: Add python2-pbcore. * gnu/packages/bioinformatics.scm (python2-pbcore): New variable. --- gnu/packages

[PATCH] Add Julia.

2015-03-20 Thread Ricardo Wurmus
dfe39329d60b38b684141cc0ce1d2bccd7ab637e Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus ricardo.wur...@mdc-berlin.de Date: Fri, 20 Mar 2015 12:11:35 +0100 Subject: [PATCH 1/2] gnu: Add double-conversion. * gnu/packages/maths.scm (double-conversion): New variable. --- gnu/packages/maths.scm | 26

Re: [PATCH] Add perl-uri.

2015-03-20 Thread Ricardo Wurmus
Eric Bavier writes: On 2015-03-20 06:37, Ricardo Wurmus wrote: * gnu/packages/perl.scm (perl-uri): New variable. This package has existed in the (gnu packages web) module for some time now. I just recently updated the version to 1.67 as well. Ouch! Thanks for pointing me to this module

  1   2   3   4   5   6   7   8   9   10   >