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 cIukGS96EV+HcQAA0tVLHw (envelope-from ) for ; Fri, 17 Jul 2020 10:15:11 +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 oPaUFS96EV8mUAAAbx9fmQ (envelope-from ) for ; Fri, 17 Jul 2020 10:15:11 +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 D47F8940539 for ; Fri, 17 Jul 2020 10:15:10 +0000 (UTC) Received: from localhost ([::1]:37488 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1jwNOX-0007Nq-Ry for larch@yhetil.org; Fri, 17 Jul 2020 06:15:09 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:33948) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jwNOQ-0007NW-Bb for bug-guix@gnu.org; Fri, 17 Jul 2020 06:15:02 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:45213) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1jwNOQ-00057y-2V for bug-guix@gnu.org; Fri, 17 Jul 2020 06:15:02 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1jwNOP-00009n-Uy for bug-guix@gnu.org; Fri, 17 Jul 2020 06:15:01 -0400 X-Loop: help-debbugs@gnu.org Subject: bug#42405: r-hdf5array fails to build Resent-From: =?UTF-8?Q?Bj=C3=B6rn_?= =?UTF-8?Q?H=C3=B6fling?= Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Fri, 17 Jul 2020 10:15:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 42405 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: 42405@debbugs.gnu.org X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.1594980868516 (code B ref -1); Fri, 17 Jul 2020 10:15:01 +0000 Received: (at submit) by debbugs.gnu.org; 17 Jul 2020 10:14:28 +0000 Received: from localhost ([127.0.0.1]:56752 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jwNNs-00008G-7w for submit@debbugs.gnu.org; Fri, 17 Jul 2020 06:14:28 -0400 Received: from lists.gnu.org ([209.51.188.17]:53150) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jwNNo-000087-98 for submit@debbugs.gnu.org; Fri, 17 Jul 2020 06:14:26 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:33776) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jwNNo-0007JN-4N for bug-guix@gnu.org; Fri, 17 Jul 2020 06:14:24 -0400 Received: from m4s11.vlinux.de ([83.151.27.109]:46640 helo=bjoernhoefling.de) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1jwNNj-0004xc-Ky for bug-guix@gnu.org; Fri, 17 Jul 2020 06:14:23 -0400 Received: from alma-ubu (p57b5255f.dip0.t-ipconnect.de [87.181.37.95]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by bjoernhoefling.de (Postfix) with ESMTPSA id 296233F943 for ; Fri, 17 Jul 2020 12:14:15 +0200 (CEST) Date: Fri, 17 Jul 2020 12:14:14 +0200 From: =?UTF-8?Q?Bj=C3=B6rn_?= =?UTF-8?Q?H=C3=B6fling?= Message-ID: <20200717121414.056f6ddf@alma-ubu> X-Mailer: Claws Mail 3.16.0 (GTK+ 2.24.32; x86_64-pc-linux-gnu) MIME-Version: 1.0 Content-Type: multipart/signed; micalg=pgp-sha512; boundary="Sig_/vceVeUYH4BzP2+c1=syLYbd"; protocol="application/pgp-signature" Received-SPF: none client-ip=83.151.27.109; envelope-from=bjoern.hoefling@bjoernhoefling.de; helo=bjoernhoefling.de X-detected-operating-system: by eggs.gnu.org: First seen = 2020/07/17 06:14:15 X-ACL-Warn: Detected OS = Linux 2.2.x-3.x [generic] X-Spam_score_int: 1 X-Spam_score: 0.1 X-Spam_bar: / X-Spam_report: (0.1 / 5.0 requ) BAYES_00=-1.9, KHOP_HELO_FCRDNS=1, SPF_HELO_NONE=0.001, SPF_NONE=0.001, TVD_SUBJ_NUM_OBFU_MINFP=1, URIBL_BLOCKED=0.001 autolearn=no autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.3 (-) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-Spam-Score: -3.3 (---) X-BeenThere: bug-guix@gnu.org List-Id: Bug reports for GNU Guix List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: bug-guix-bounces+larch=yhetil.org@gnu.org Sender: "bug-Guix" X-Scanner: scn0 Authentication-Results: aspmx1.migadu.com; dkim=none; dmarc=none; spf=pass (aspmx1.migadu.com: domain of bug-guix-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=bug-guix-bounces@gnu.org X-Spam-Score: -0.61 X-TUID: v+PFLyGb17WK --Sig_/vceVeUYH4BzP2+c1=syLYbd Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: quoted-printable It is missing the (proprietary) SZIP Compression Library. Bj=C3=B6rn building /gnu/store/awjf253pcjsf8wkl6cigxxd0dxqp97q7-r-hdf5array-1.16.1.drv= ... [...] starting phase `install' * installing *source* package ?HDF5Array? ... ** using staged installation ** libs gcc -I"/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/R/in= clude" -DNDEBUG -I'/gnu/store/8yrjj7wdbz6x9pnxhmf2ka4fl72yy154-r-s4vectors= -0.26.1/site-library/S4Vectors/include' -I'/gnu/store/cfr4bbglibavxbqxhn3pg= 3pfar6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/include' -I/usr/local/i= nclude -fpic -g -O2 -c H5DSetDescriptor.c -o H5DSetDescriptor.o gcc -I"/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/R/in= clude" -DNDEBUG -I'/gnu/store/8yrjj7wdbz6x9pnxhmf2ka4fl72yy154-r-s4vectors= -0.26.1/site-library/S4Vectors/include' -I'/gnu/store/cfr4bbglibavxbqxhn3pg= 3pfar6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/include' -I/usr/local/i= nclude -fpic -g -O2 -c R_init_HDF5Array.c -o R_init_HDF5Array.o gcc -I"/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/R/in= clude" -DNDEBUG -I'/gnu/store/8yrjj7wdbz6x9pnxhmf2ka4fl72yy154-r-s4vectors= -0.26.1/site-library/S4Vectors/include' -I'/gnu/store/cfr4bbglibavxbqxhn3pg= 3pfar6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/include' -I/usr/local/i= nclude -fpic -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/R/in= clude" -DNDEBUG -I'/gnu/store/8yrjj7wdbz6x9pnxhmf2ka4fl72yy154-r-s4vectors= -0.26.1/site-library/S4Vectors/include' -I'/gnu/store/cfr4bbglibavxbqxhn3pg= 3pfar6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/include' -I/usr/local/i= nclude -fpic -g -O2 -c array_selection.c -o array_selection.o gcc -I"/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/R/in= clude" -DNDEBUG -I'/gnu/store/8yrjj7wdbz6x9pnxhmf2ka4fl72yy154-r-s4vectors= -0.26.1/site-library/S4Vectors/include' -I'/gnu/store/cfr4bbglibavxbqxhn3pg= 3pfar6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/include' -I/usr/local/i= nclude -fpic -g -O2 -c h5dimscales.c -o h5dimscales.o gcc -I"/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/R/in= clude" -DNDEBUG -I'/gnu/store/8yrjj7wdbz6x9pnxhmf2ka4fl72yy154-r-s4vectors= -0.26.1/site-library/S4Vectors/include' -I'/gnu/store/cfr4bbglibavxbqxhn3pg= 3pfar6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/include' -I/usr/local/i= nclude -fpic -g -O2 -c h5mread.c -o h5mread.o gcc -shared -L/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/l= ib/R/lib -L/usr/local/lib -o HDF5Array.so H5DSetDescriptor.o R_init_HDF5Arr= ay.o S4Vectors_stubs.o array_selection.o h5dimscales.o h5mread.o /gnu/store= /cfr4bbglibavxbqxhn3pg3pfar6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/l= ib/libhdf5_hl.a /gnu/store/cfr4bbglibavxbqxhn3pg3pfar6qqpiw-r-rhdf5lib-1.10= .1/site-library/Rhdf5lib/lib/libhdf5.a /gnu/store/cfr4bbglibavxbqxhn3pg3pfa= r6qqpiw-r-rhdf5lib-1.10.1/site-library/Rhdf5lib/lib/libsz.a -lz -L/gnu/stor= e/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/R/lib -lR gcc: error: /gnu/store/cfr4bbglibavxbqxhn3pg3pfar6qqpiw-r-rhdf5lib-1.10.1/s= ite-library/Rhdf5lib/lib/libsz.a: No such file or directory make: *** [/gnu/store/yd83ibzxjrb7cgcc6d4smx4pqcdl8r3p-r-minimal-4.0.2/lib/= R/share/make/shlib.mk:6: HDF5Array.so] Error 1 ERROR: compilation failed for package ?HDF5Array? * removing ?/gnu/store/g4lk6nfyfsfcdaw69dwj96n8z8ygzf79-r-hdf5array-1.16.1/= site-library/HDF5Array? command "R" "CMD" "INSTALL" "--install-tests" "--library=3D/gnu/store/g4lk6= nfyfsfcdaw69dwj96n8z8ygzf79-r-hdf5array-1.16.1/site-library/" "--built-time= stamp=3D1970-01-01" "." failed with status 1 note: keeping build directory `/tmp/guix-build-r-hdf5array-1.16.1.drv-0' builder for `/gnu/store/awjf253pcjsf8wkl6cigxxd0dxqp97q7-r-hdf5array-1.16.1= .drv' failed with exit code 1 --Sig_/vceVeUYH4BzP2+c1=syLYbd Content-Type: application/pgp-signature Content-Description: OpenPGP digital signature -----BEGIN PGP SIGNATURE----- iF0EAREKAB0WIQQiGUP0np8nb5SZM4K/KGy2WT5f/QUCXxF59gAKCRC/KGy2WT5f /RjTAJ4mO5q7txHOP4gSXqc6F8GkmGyhQgCeJyr897tNpvroNbZ17sN5LdRkvbw= =hgHd -----END PGP SIGNATURE----- --Sig_/vceVeUYH4BzP2+c1=syLYbd--