From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp1 ([2001:41d0:2:bcc0::]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) by ms0.migadu.com with LMTPS id gzDINEzAi2DfogAAgWs5BA (envelope-from ) for ; Fri, 30 Apr 2021 10:31:08 +0200 Received: from aspmx1.migadu.com ([2001:41d0:2:bcc0::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp1 with LMTPS id MPhcL0zAi2BIbAAAbx9fmQ (envelope-from ) for ; Fri, 30 Apr 2021 08:31:08 +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 8A4E81601E for ; Fri, 30 Apr 2021 10:31:08 +0200 (CEST) Received: from localhost ([::1]:41104 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lcOYF-0002zQ-MC for larch@yhetil.org; Fri, 30 Apr 2021 04:31:07 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:39000) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lcOYA-0002y2-DZ for guix-patches@gnu.org; Fri, 30 Apr 2021 04:31:02 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:45899) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1lcOYA-0005Ds-5L for guix-patches@gnu.org; Fri, 30 Apr 2021 04:31:02 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1lcOYA-0005R1-1Y for guix-patches@gnu.org; Fri, 30 Apr 2021 04:31:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#47930] [PATCH] gnu: Add pbgzip. Resent-From: Xinglu Chen Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 30 Apr 2021 08:31:01 +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: Roel Janssen , Efraim Flashner , Maxime Devos Cc: 47930@debbugs.gnu.org Received: via spool by 47930-submit@debbugs.gnu.org id=B47930.161977145920883 (code B ref 47930); Fri, 30 Apr 2021 08:31:01 +0000 Received: (at 47930) by debbugs.gnu.org; 30 Apr 2021 08:30:59 +0000 Received: from localhost ([127.0.0.1]:57445 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lcOY7-0005Ql-DU for submit@debbugs.gnu.org; Fri, 30 Apr 2021 04:30:59 -0400 Received: from h87-96-130-155.cust.a3fiber.se ([87.96.130.155]:38360 helo=mail.yoctocell.xyz) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lcOY6-0005QY-G4 for 47930@debbugs.gnu.org; Fri, 30 Apr 2021 04:30:58 -0400 From: Xinglu Chen DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=yoctocell.xyz; s=mail; t=1619771451; bh=s7WAIDZNeJBjg9tHQzhLkVhU/TS7SldLLyQVayEs8C8=; h=From:To:Cc:Subject:In-Reply-To:References:Date; b=DyKtEvzeb1yDCe3PJzGAnZE2jRkDtU6tT25IvUq3PscIAYcuY2Ty1be7ie+YlWoDQ B8V302mv50QrOj73a0mtj7Pb3ltnSzxEWm5IH2Upq9C8Qd+mb6ymaqrJcDbp/CVAYa D9/qldR1lt36dquT1Bwe8HzvyVQzYx0/CnxFyU5o= In-Reply-To: References: <874kfz71ni.fsf@yoctocell.xyz> Date: Fri, 30 Apr 2021 10:30:49 +0200 Message-ID: <87czucnphi.fsf@yoctocell.xyz> MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable 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=1619771468; 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: content-transfer-encoding:content-transfer-encoding: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:dkim-signature; bh=lDqFKw43YwaRYGVI7v7sa81RLOmJAYj6mnPA2s/XhvY=; b=DD8MpHY/8J2qwCET27e9SKDvKevll+P+AyFoDJ4C40Z0yrnce2uT9sQtc9tsK195jxXDQv YzY9km6a3MRg5QMy5eXb4zwVUn7FXLjajUa4IUXIcP2IrccvPOUD818cG2cv2ijBvv3CAn DSdGzGSCVBuGOQGgpSkNMznYXL5O5G6Yy3+nc12DtaftIklzyZflmSwbDGpGdgQZwPc2xY qK0dLcf50jBKV8c/SLLTOPkJ1wGwSd3JneJcSXaJlRznB0no+1GzGBi3Yb3cT2VETZz/Li zPzAp6otYh42e3XrlD9fjmHRvKJ1T1LS5mi7dEa3w+LopbPTY46SVIiZmFH+xA== ARC-Seal: i=1; s=key1; d=yhetil.org; t=1619771468; a=rsa-sha256; cv=none; b=KqBuIDwWK9y1tZACt1+jqgK3oToAFWxPfMqmhHd13fXoUFaLsIt981JATmVnaFZZxmZKA3 vbGSqbBgBc+YClAQhbcGTPqPkbrvMl93SCdxR0EglqPzcsevktu6T2zCjW+oMdPkJeL07l aHaoysN2XmYCaGcd6KwJoBI80epSYM9VfVOFgOdXpASxE2mrqe1BHCCMI/hfKmRCaWn7Lg BhiXeDwFmYAFDITw56aCXUH0dM9v0dhkY2X9HsO/YijQLt0CigpA2ziV06noVhwmzOdEpf Qug0YYKwDtnHw+LaUyKTVMe1ob5sjy39yz8Wj+XoTNanjc3Hbj7avZJA7AEA6w== ARC-Authentication-Results: i=1; aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=yoctocell.xyz header.s=mail header.b=DyKtEvze; dmarc=fail reason="SPF not aligned (relaxed)" header.from=yoctocell.xyz (policy=none); 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: 0.14 Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=yoctocell.xyz header.s=mail header.b=DyKtEvze; dmarc=fail reason="SPF not aligned (relaxed)" header.from=yoctocell.xyz (policy=none); 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: 8A4E81601E X-Spam-Score: 0.14 X-Migadu-Scanner: scn0.migadu.com X-TUID: J2W3k4boy+fh 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 =20=20 > + (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 ma= ny > +formats, in particular genomics data formats, data are compressed in > +fixed-length blocks such that they can be easily indexed based on a (gen= omic) > +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 re= trieval > +of data in large files (gigabytes to terabytes). @code{pbgzip} is not l= imited > +to any particular format, but certain features are tailored to genomics = data > +formats when enabled. Parallel decompression is somewhat faster, but tr= uly the ^^^^^^= ^^^^^^^ > +speedup comes during compression.") ^^^^^^^ =E2=80=9Cbut the true speedup=E2=80=9D instead?