From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp0 ([2001:41d0:2:bcc0::]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) by ms0.migadu.com with LMTPS id UG87N0UHjGD3bgEAgWs5BA (envelope-from ) for ; Fri, 30 Apr 2021 15:33:57 +0200 Received: from aspmx1.migadu.com ([2001:41d0:2:bcc0::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp0 with LMTPS id CVbtMkUHjGB3FwAA1q6Kng (envelope-from ) for ; Fri, 30 Apr 2021 13:33:57 +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 5F4491CCBC for ; Fri, 30 Apr 2021 15:33:57 +0200 (CEST) Received: from localhost ([::1]:50272 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lcTHI-0003XH-Dj for larch@yhetil.org; Fri, 30 Apr 2021 09:33:56 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:46718) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lcRej-0004YP-Vz for guix-patches@gnu.org; Fri, 30 Apr 2021 07:50:03 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:46133) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1lcRej-0008KH-Nn for guix-patches@gnu.org; Fri, 30 Apr 2021 07:50:01 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1lcRej-0006bH-Lh for guix-patches@gnu.org; Fri, 30 Apr 2021 07:50:01 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#47930] [PATCH] gnu: Add pbgzip. Resent-From: Roel Janssen Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 30 Apr 2021 11:50:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 47930 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: Xinglu Chen , Efraim Flashner , Maxime Devos Cc: 47930@debbugs.gnu.org Received: via spool by 47930-submit@debbugs.gnu.org id=B47930.161978334625303 (code B ref 47930); Fri, 30 Apr 2021 11:50:01 +0000 Received: (at 47930) by debbugs.gnu.org; 30 Apr 2021 11:49:06 +0000 Received: from localhost ([127.0.0.1]:57679 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lcRdl-0006Zz-TG for submit@debbugs.gnu.org; Fri, 30 Apr 2021 07:49:06 -0400 Received: from eggs.gnu.org ([209.51.188.92]:38184) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lcRdj-0006ZV-Ob for 47930@debbugs.gnu.org; Fri, 30 Apr 2021 07:49:00 -0400 Received: from fencepost.gnu.org ([2001:470:142:3::e]:42837) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lcRdd-0007h7-2J; Fri, 30 Apr 2021 07:48:53 -0400 Received: from 2001-1c02-0b18-2900-222e-248e-9586-e52d.cable.dynamic.v6.ziggo.nl ([2001:1c02:b18:2900:222e:248e:9586:e52d]:46314) by fencepost.gnu.org with esmtpsa (TLS1.2:RSA_AES_256_CBC_SHA1:256) (Exim 4.82) (envelope-from ) id 1lcRdc-0003nY-FJ; Fri, 30 Apr 2021 07:48:52 -0400 Message-ID: <052ee880cea08e4e1627a2181f7173ab9587b6c8.camel@gnu.org> From: Roel Janssen Date: Fri, 30 Apr 2021 13:48:48 +0200 In-Reply-To: <87czucnphi.fsf@yoctocell.xyz> References: <874kfz71ni.fsf@yoctocell.xyz> <87czucnphi.fsf@yoctocell.xyz> Content-Type: multipart/mixed; boundary="=-aMPWy4UXcvpu5IepufA7" User-Agent: Evolution 3.40.0 (3.40.0-1.fc34) MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+larch=yhetil.org@gnu.org Sender: "Guix-patches" X-Migadu-Flow: FLOW_IN ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=yhetil.org; s=key1; t=1619789637; h=from:from:sender:sender:reply-to:subject:subject:date:date: message-id:message-id:to:to:cc:cc:mime-version:mime-version: content-type:content-type:resent-cc:resent-from:resent-sender: resent-message-id:in-reply-to:in-reply-to:references:references: list-id:list-help:list-unsubscribe:list-subscribe:list-post; bh=4oSD4DHvsqhEz9KmgH8S5dGUfYBIKJjIoKXVW/7OuSU=; b=CbR2qDB/lV/AsfXQFsl1Ds2GCeZCTQ1wWYC3cxqgrHhe8J7veNAM3mSvUWjO/PYlmpub+c djg2ShV03POXkY2YDuxoWgT4T9LUS5DELE+ZE2PSOCO4J/eG5+r0XCikktW5zplmFx6Kz2 0/T767zSdWuSjbsjDuPbTh0Lan8t78Fmz29KX9p77X9lSyEMypoNXUzbTb4Qd5bQslENMN gs4BRJ/kgEvw90MeFYo2reiG6kS44o9rnwltyz7bmMGA8GWgpcVV7DrWGZUK33gKD0ch8R zE8cUv4VYoQNAjRkEEEXQwdqi1BilE+W6oF+XbcRaUsPKGMhNUevmoytGGbXSg== ARC-Seal: i=1; s=key1; d=yhetil.org; t=1619789637; a=rsa-sha256; cv=none; b=AA35aA7/mTP5/An4EYFTmQLwzQVl3gbW6jD2uXlUk86FUd+NJNGbBD2sLKxfzlYwcm23jA dBehCyM3NOXaMC4bgsJ7O6Bod08K9MbUmtxyh46DM0hdgSJMcvFkfHj+LnI0MDtrxrzoF/ GUH09WIKgRtrEl9B/wy9xcB2hAOBC2q/hhFEdzbW6v4/gqNTEh/vMG4ffaV7PQtHyKkFMC gH/CGtXjUlDldtGerBNp+ZVBJOV8DGWeyjuY8ttdc3i1e5H5P7266JM8KXO8Zrv1Hlw7Y1 VbcTPPJBaF3eqJc8Muz0316riBNCCfTkDqPMf6/ekA4q7dnCxTRnTFa7SfrQaA== ARC-Authentication-Results: i=1; aspmx1.migadu.com; dkim=none; dmarc=pass (policy=none) header.from=gnu.org; spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Spam-Score: -2.86 Authentication-Results: aspmx1.migadu.com; dkim=none; dmarc=pass (policy=none) header.from=gnu.org; spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Queue-Id: 5F4491CCBC X-Spam-Score: -2.86 X-Migadu-Scanner: scn0.migadu.com X-TUID: D5/p6xhaHDXy --=-aMPWy4UXcvpu5IepufA7 Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: 8bit On Fri, 2021-04-30 at 10:30 +0200, Xinglu Chen wrote: > On Thu, Apr 29 2021, Roel Janssen wrote: > > > +(define-public pbgzip > > +  (let ((commit "2b09f97b5f20b6d83c63a5c6b408d152e3982974")) > > +    (package > > +      (name "pbgzip") > > +      (version (string-take commit 7)) > > Maybe you missed my previous suggestions? > >   https://issues.guix.gnu.org/47930#2 > I'm sorry, I forgot to adapt. >   > > +      (source (origin > > +                (method git-fetch) > > +                (uri (git-reference > > +                      (url "https://github.com/nh13/pbgzip") > > +                      (commit commit))) > > +                (file-name (string-append name "-" version)) > > +                (sha256 > > +                 (base32 > > +                  > > "1mlmq0v96irbz71bgw5zcc43g1x32zwnxx21a5p1f1ch4cikw1yd")))) > > +      (build-system gnu-build-system) > > +      (native-inputs > > +       `(("autoconf" ,autoconf) > > +         ("automake" ,automake))) > > +      (inputs > > +       `(("zlib" ,zlib))) > > +      (home-page "https://github.com/nh13/pbgzip") > > +      (synopsis "Parallel Block GZIP") > > +      (description "This package implements parallel block gzip.  > > For many > > +formats, in particular genomics data formats, data are compressed > > in > > +fixed-length blocks such that they can be easily indexed based on > > a (genomic) > > +coordinate order, since typically each block is sorted according > > to this order. > > +This allows for each block to be individually compressed > > (deflated), or more > > +importantly, decompressed (inflated), with the latter enabling > > random retrieval > > +of data in large files (gigabytes to terabytes).  @code{pbgzip} is > > not limited > > +to any particular format, but certain features are tailored to > > genomics data > > +formats when enabled.  Parallel decompression is somewhat faster, > > but truly the >                                                                      > ^^^^^^^^^^^^^ > > +speedup comes during compression.") >    ^^^^^^^ > > “but the true speedup” instead? Sure. I usually don't change descriptions as given by the creators of the software, but I applied your suggestion. Thank you for the elaborate suggestions! 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