From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp1 ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by ms11 with LMTPS id KD88EQJg8F47TgAA0tVLHw (envelope-from ) for ; Mon, 22 Jun 2020 07:38:42 +0000 Received: from aspmx1.migadu.com ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp1 with LMTPS id IBX6DAJg8F6ZPwAAbx9fmQ (envelope-from ) for ; Mon, 22 Jun 2020 07:38:42 +0000 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by aspmx1.migadu.com (Postfix) with ESMTPS id B53F694053C for ; Mon, 22 Jun 2020 07:38:41 +0000 (UTC) Received: from localhost ([::1]:55858 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1jnH2O-0008Nk-N9 for larch@yhetil.org; Mon, 22 Jun 2020 03:38:40 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:51172) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jnH2G-0008NL-4W for guix-devel@gnu.org; Mon, 22 Jun 2020 03:38:32 -0400 Received: from mail2-relais-roc.national.inria.fr ([192.134.164.83]:3613) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jnH2D-0001EZ-Ns; Mon, 22 Jun 2020 03:38:31 -0400 X-IronPort-AV: E=Sophos;i="5.75,266,1589234400"; d="scan'208";a="455915144" Received: from 91-160-117-201.subs.proxad.net (HELO ribbon) ([91.160.117.201]) by mail2-relais-roc.national.inria.fr with ESMTP/TLS/DHE-RSA-AES256-GCM-SHA384; 22 Jun 2020 09:38:24 +0200 From: =?utf-8?Q?Ludovic_Court=C3=A8s?= To: Konrad Hinsen Subject: Re: =?utf-8?Q?=E2=80=9CReproducible?= research articles, from source code to =?utf-8?Q?PDF=E2=80=9D?= References: <87d05ztcxj.fsf@inria.fr> <864kraxjau.fsf@gmail.com> <87k104omnv.fsf@inria.fr> <87r1ucmwh5.fsf@inria.fr> <86lfkkwn0l.fsf@gmail.com> <87h7v8le1l.fsf@inria.fr> X-URL: http://www.fdn.fr/~lcourtes/ X-Revolutionary-Date: 5 Messidor an 228 de la =?utf-8?Q?R=C3=A9volution?= X-PGP-Key-ID: 0x090B11993D9AEBB5 X-PGP-Key: http://www.fdn.fr/~lcourtes/ludovic.asc X-PGP-Fingerprint: 3CE4 6455 8A84 FDC6 9DB4 0CFB 090B 1199 3D9A EBB5 X-OS: x86_64-pc-linux-gnu Date: Mon, 22 Jun 2020 09:38:23 +0200 In-Reply-To: (Konrad Hinsen's message of "Sun, 21 Jun 2020 16:50:16 +0200") Message-ID: <875zbj8s9c.fsf@inria.fr> User-Agent: Gnus/5.13 (Gnus v5.13) Emacs/26.3 (gnu/linux) MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable Received-SPF: pass client-ip=192.134.164.83; envelope-from=ludovic.courtes@inria.fr; helo=mail2-relais-roc.national.inria.fr X-detected-operating-system: by eggs.gnu.org: First seen = 2020/06/22 03:38:25 X-ACL-Warn: Detected OS = ??? X-Spam_score_int: -68 X-Spam_score: -6.9 X-Spam_bar: ------ X-Spam_report: (-6.9 / 5.0 requ) BAYES_00=-1.9, RCVD_IN_DNSWL_HI=-5, RCVD_IN_MSPIKE_H4=-0.01, RCVD_IN_MSPIKE_WL=-0.01, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=_AUTOLEARN X-Spam_action: no action X-BeenThere: guix-devel@gnu.org X-Mailman-Version: 2.1.23 Precedence: list List-Id: "Development of GNU Guix and the GNU System distribution." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Cc: guix-devel , guix-hpc@gnu.org Errors-To: guix-devel-bounces+larch=yhetil.org@gnu.org Sender: "Guix-devel" X-Scanner: scn0 Authentication-Results: aspmx1.migadu.com; dkim=none; dmarc=none; spf=pass (aspmx1.migadu.com: domain of guix-devel-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-devel-bounces@gnu.org X-Spam-Score: -1.01 X-TUID: JHMNtUMrNg6n Hi Konrad, Konrad Hinsen skribis: > Konrad Hinsen writes: > >> Sounds fine. I am not much of a hackathon expert, so I don't propose >> myself for organizing this, but I can make a preselection of suitable >> submissions to the ReScience challenge (no proprietary software etc.) >> with comments about the specific challenges. > > Here is my list of candidate projects. There are three general > categories: > > 1) Package old software that is of sufficiently wide interest > (i.e. add to guix-past) > - g77 (used in https://github.com/ReScience/submissions/issues/41) > - SciPy ecosystem from 2007 (at least Python, NumPy, matplotlib) > (used in https://github.com/ReScience/submissions/issues/14) Makes sense. > 2) Package highly specialized research software > > These programs are too specialized for the Guix distribution, so > "packaging" means writing a guix.scm. The long-term goal is to learn h= ow > to make this kind of packaging easier, to the point that scientists are > willing to do it themselves. This means it must be doable with minimal > Guile competence, ideally by modifying templates provided by experts. > > I have picked four cases, listed by increasing level of difficulty: > > a) https://github.com/ReScience/submissions/issues/42 > > A rather standard Fortran code, with only the popular BLAS and LAPACK > libraries as dependencies. Instructions are given for manual > compilation. > > b) https://github.com/ReScience/submissions/issues/36 > > A medium-sized Fortran program with a Makefile. > > c) https://github.com/ReScience/submissions/issues/41 > > A mixed C-Fortran code from 2008, built with autotools. Looks simple, > but the author did not succeed in compiling it on a modern machine > because it requires the abandoned g77 compiler. > > d) https://github.com/ReScience/submissions/issues/20 > > A medium-sized Fortran library with a Makefile. Tricky because it adds > its own wrappers around the Fortran compiler. That=E2=80=99s going to be less fun but I agree it=E2=80=99s important to d= o something for this use case. > 3) Fully automated reproductions of results (typically figures) > > There is only one case (other than Ludo's which already uses Guix): > > - https://github.com/ReScience/submissions/issues/39 > > A fully reproducible reproduction of two Open Source simulation softwa= re > packages (C/C++), based on Debian and its debuerreotype system. The > challenge is to demonstrate how Guix can do it better! Heh, nice! is interesting. Thanks for sharing this overview, I guess we have enough on our plate now! :-) Ludo=E2=80=99.