Source: nexus Version: 4.4.3-3 Severity: important Tags: ftbfs User: libx...@packages.debian.org Usertags: ftbfs-2.9.10
Dear maintainer, your package fails to build agianst the new version of libxml2 2.9.10. Note that one specific change is that I dropped the `xml2-config` script, and packages should instead use pkg-config. However it seems to me that it detects correctly libxml2 but then fails to compile against it. You can find the new libxml2 package in experimental. Attached is the full build log, hopefully relevant excerpt follows: [ 33%] Building CXX object applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/xml_retriever_dom.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_xml && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/text_xml -I/usr/include/libxml2 -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/TextXML.dir/xml_retriever_dom.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/NeXusFileInterface.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/NXlink.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/package-summary.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/package-tree.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/package-summary.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/package-tree.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/constant-values.html... /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp: In function 'void my_error(void*, const char*, ...)': /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:166:12: error: 'getLineNumber' was not declared in this scope 166 | int line=getLineNumber(context); | ^~~~~~~~~~~~~ /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:167:12: error: 'getColumnNumber' was not declared in this scope; did you mean 'xmlSAX2GetColumnNumber'? 167 | int col =getColumnNumber(context); | ^~~~~~~~~~~~~~~ | xmlSAX2GetColumnNumber Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/serialized-form.html... /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp: In function 'void my_fatalError(void*, const char*, ...)': /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:189:12: error: 'getLineNumber' was not declared in this scope 189 | int line=getLineNumber(context); | ^~~~~~~~~~~~~ /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:190:12: error: 'getColumnNumber' was not declared in this scope; did you mean 'xmlSAX2GetColumnNumber'? 190 | int col =getColumnNumber(context); | ^~~~~~~~~~~~~~~ | xmlSAX2GetColumnNumber Building index for all the packages and classes... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/overview-tree.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/index-all.html... make[3]: *** [applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/build.make:79: applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/xml_retriever_dom.cpp.o] Error 1 make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make[2]: *** [CMakeFiles/Makefile2:1326: applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/all] Error 2 make[2]: *** Waiting for unfinished jobs.... -- regards, Mattia Rizzolo GPG Key: 66AE 2B4A FCCF 3F52 DA18 4D18 4B04 3FCD B944 4540 .''`. More about me: https://mapreri.org : :' : Launchpad user: https://launchpad.net/~mapreri `. `'` Debian QA page: https://qa.debian.org/developer.php?login=mattia `-
[0mI: Using pkgname logfile[0m [0mI: Current time: Mon Jan 20 10:33:49 UTC 2020[0m [0mI: pbuilder-time-stamp: 1579516429[0m [0mI: Obtaining the cached apt archive contents[0m [0mI: Copying source file[0m [0mI: copying [pkgs/nexus_4.4.3-3.dsc][0m [0mI: copying [pkgs/nexus_4.4.3.orig.tar.gz][0m [0mI: copying [pkgs/nexus_4.4.3-3.debian.tar.xz][0m [0mI: Extracting source[0m gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/home/mattia/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Mon Dec 9 09:45:12 2019 UTC gpgv: using RSA key 90E2D2C1AD146A1B7EBB891DBBC17EBB1396F2F7 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./nexus_4.4.3-3.dsc dpkg-source: info: extracting nexus in nexus-4.4.3 dpkg-source: info: unpacking nexus_4.4.3.orig.tar.gz dpkg-source: info: unpacking nexus_4.4.3-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying cmake-enable-java.patch dpkg-source: info: applying tests-no-parallel.patch [0mI: Not using root during the build.[0m [0mI: Installing the build-deps[0m [0mI: -> Attempting to satisfy build-dependencies[0m Note, using file '/build/nexus_4.4.3-3.dsc' to get the build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils ca-certificates ca-certificates-java cmake cmake-data debhelper default-jdk default-jdk-headless default-jre default-jre-headless dh-autoreconf dh-strip-nondeterminism doxygen dwz file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base hdf5-helpers intltool-debian java-common libaec-dev libaec0 libarchive-zip-perl libarchive13 libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbrotli1 libbsd0 libclang1-9 libcroco3 libcups2 libcurl4 libdbus-1-3 libdebhelper-perl libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgfortran5 libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgssapi-krb5-2 libhdf4-0 libhdf4-dev libhdf5-103 libhdf5-cpp-103 libhdf5-dev libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.4-2 libldap-common libllvm9 libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libnspr4 libnss3 libpciaccess0 libpcsclite1 libpipeline1 libpng16-16 libprocps7 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsigsegv2 libssh2-1 libsub-override-perl libsz2 libtool libuchardet0 libuv1 libx11-6 libx11-data libx11-xcb1 libxapian30 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-sync1 libxcb1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libz3-4 m4 man-db openjdk-11-jdk openjdk-11-jdk-headless openjdk-11-jre openjdk-11-jre-headless openssl pkg-config po-debconf procps sensible-utils ucf x11-common zlib1g-dev debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 142 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/341 MB of archives. After this operation, 936 MB of additional disk space will be used. Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14048 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.10.0-1_amd64.deb ... Unpacking libbsd0:amd64 (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../002-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-4_amd64.deb ... Unpacking groff-base (1.22.4-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../004-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.9.0-2_amd64.deb ... Unpacking man-db (2.9.0-2) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../006-libncurses6_6.1+20191019-1_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20191019-1) ... Selecting previously unselected package libprocps7:amd64. Preparing to unpack .../007-libprocps7_2%3a3.3.15-2+b1_amd64.deb ... Unpacking libprocps7:amd64 (2:3.3.15-2+b1) ... Selecting previously unselected package procps. Preparing to unpack .../008-procps_2%3a3.3.15-2+b1_amd64.deb ... Unpacking procps (2:3.3.15-2+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../009-sensible-utils_0.0.12+nmu1_all.deb ... Unpacking sensible-utils (0.0.12+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../010-libmagic-mgc_1%3a5.38-4_amd64.deb ... Unpacking libmagic-mgc (1:5.38-4) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../011-libmagic1_1%3a5.38-4_amd64.deb ... Unpacking libmagic1:amd64 (1:5.38-4) ... Selecting previously unselected package file. Preparing to unpack .../012-file_1%3a5.38-4_amd64.deb ... Unpacking file (1:5.38-4) ... Selecting previously unselected package gettext-base. Preparing to unpack .../013-gettext-base_0.19.8.1-10_amd64.deb ... Unpacking gettext-base (0.19.8.1-10) ... Selecting previously unselected package ucf. Preparing to unpack .../014-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../015-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../016-m4_1.4.18-4_amd64.deb ... Unpacking m4 (1.4.18-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../017-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../018-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../019-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../020-autopoint_0.19.8.1-10_all.deb ... Unpacking autopoint (0.19.8.1-10) ... Selecting previously unselected package openssl. Preparing to unpack .../021-openssl_1.1.1d-2_amd64.deb ... Unpacking openssl (1.1.1d-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../022-ca-certificates_20190110_all.deb ... Unpacking ca-certificates (20190110) ... Selecting previously unselected package java-common. Preparing to unpack .../023-java-common_0.72_all.deb ... Unpacking java-common (0.72) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../024-libavahi-common-data_0.7-5_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.7-5) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../025-libavahi-common3_0.7-5_amd64.deb ... Unpacking libavahi-common3:amd64 (0.7-5) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../026-libdbus-1-3_1.12.16-2_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.12.16-2) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../027-libavahi-client3_0.7-5_amd64.deb ... Unpacking libavahi-client3:amd64 (0.7-5) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../028-libkeyutils1_1.6-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6-6) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../029-libkrb5support0_1.17-6_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-6) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../030-libk5crypto3_1.17-6_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-6) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../031-libkrb5-3_1.17-6_amd64.deb ... Unpacking libkrb5-3:amd64 (1.17-6) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../032-libgssapi-krb5-2_1.17-6_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-6) ... Selecting previously unselected package libcups2:amd64. Preparing to unpack .../033-libcups2_2.3.1-1_amd64.deb ... Unpacking libcups2:amd64 (2.3.1-1) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../034-liblcms2-2_2.9-4_amd64.deb ... Unpacking liblcms2-2:amd64 (2.9-4) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../035-libjpeg62-turbo_1%3a1.5.2-2+b1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:1.5.2-2+b1) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../036-libpng16-16_1.6.37-1_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.37-1) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../037-libfreetype6_2.10.1-2_amd64.deb ... Unpacking libfreetype6:amd64 (2.10.1-2) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../038-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../039-fontconfig-config_2.13.1-2_all.deb ... Unpacking fontconfig-config (2.13.1-2) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../040-libfontconfig1_2.13.1-2+b1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.1-2+b1) ... Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../041-libnspr4_2%3a4.24-1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.24-1) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../042-libnss3_2%3a3.49-1_amd64.deb ... Unpacking libnss3:amd64 (2:3.49-1) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../043-libasound2-data_1.1.9-1_all.deb ... Unpacking libasound2-data (1.1.9-1) ... Selecting previously unselected package libasound2:amd64. Preparing to unpack .../044-libasound2_1.1.9-1_amd64.deb ... Unpacking libasound2:amd64 (1.1.9-1) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../045-libpcsclite1_1.8.26-2_amd64.deb ... Unpacking libpcsclite1:amd64 (1.8.26-2) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../046-libxau6_1%3a1.0.8-1+b2_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.8-1+b2) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../047-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../048-libxcb1_1.13.1-3_amd64.deb ... Unpacking libxcb1:amd64 (1.13.1-3) ... Selecting previously unselected package libx11-data. Preparing to unpack .../049-libx11-data_2%3a1.6.8-1_all.deb ... Unpacking libx11-data (2:1.6.8-1) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../050-libx11-6_2%3a1.6.8-1_amd64.deb ... Unpacking libx11-6:amd64 (2:1.6.8-1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../051-libxext6_2%3a1.3.3-1+b2_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.3-1+b2) ... Selecting previously unselected package libxi6:amd64. Preparing to unpack .../052-libxi6_2%3a1.7.9-1_amd64.deb ... Unpacking libxi6:amd64 (2:1.7.9-1) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../053-libxrender1_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1) ... Selecting previously unselected package x11-common. Preparing to unpack .../054-x11-common_1%3a7.7+20_all.deb ... Unpacking x11-common (1:7.7+20) ... Selecting previously unselected package libxtst6:amd64. Preparing to unpack .../055-libxtst6_2%3a1.2.3-1_amd64.deb ... Unpacking libxtst6:amd64 (2:1.2.3-1) ... Selecting previously unselected package openjdk-11-jre-headless:amd64. Preparing to unpack .../056-openjdk-11-jre-headless_11.0.6+10-1_amd64.deb ... Unpacking openjdk-11-jre-headless:amd64 (11.0.6+10-1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../057-default-jre-headless_2%3a1.11-72_amd64.deb ... Unpacking default-jre-headless (2:1.11-72) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../058-ca-certificates-java_20190909_all.deb ... Unpacking ca-certificates-java (20190909) ... Selecting previously unselected package cmake-data. Preparing to unpack .../059-cmake-data_3.15.4-1_all.deb ... Unpacking cmake-data (3.15.4-1) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../060-libarchive13_3.4.0-1+b1_amd64.deb ... Unpacking libarchive13:amd64 (3.4.0-1+b1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../061-libbrotli1_1.0.7-6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.7-6) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../062-libsasl2-modules-db_2.1.27+dfsg-2_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-2) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../063-libsasl2-2_2.1.27+dfsg-2_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-2) ... Selecting previously unselected package libldap-common. Preparing to unpack .../064-libldap-common_2.4.48+dfsg-1_all.deb ... Unpacking libldap-common (2.4.48+dfsg-1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../065-libldap-2.4-2_2.4.48+dfsg-1+b2_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.48+dfsg-1+b2) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../066-libnghttp2-14_1.40.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.40.0-1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../067-libpsl5_0.20.2-2_amd64.deb ... Unpacking libpsl5:amd64 (0.20.2-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../068-librtmp1_2.4+20151223.gitfa8646d.1-2+b1_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../069-libssh2-1_1.8.0-2.1_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../070-libcurl4_7.67.0-2_amd64.deb ... Unpacking libcurl4:amd64 (7.67.0-2) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../071-libjsoncpp1_1.7.4-3+b1_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3+b1) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../072-librhash0_1.3.9-1_amd64.deb ... Unpacking librhash0:amd64 (1.3.9-1) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../073-libuv1_1.33.1-2_amd64.deb ... Unpacking libuv1:amd64 (1.33.1-2) ... Selecting previously unselected package cmake. Preparing to unpack .../074-cmake_3.15.4-1_amd64.deb ... Unpacking cmake (3.15.4-1) ... Selecting previously unselected package libtool. Preparing to unpack .../075-libtool_2.4.6-11_all.deb ... Unpacking libtool (2.4.6-11) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../076-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../077-libdebhelper-perl_12.7.3_all.deb ... Unpacking libdebhelper-perl (12.7.3) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../078-libarchive-zip-perl_1.67-1_all.deb ... Unpacking libarchive-zip-perl (1.67-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../079-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../080-libfile-stripnondeterminism-perl_1.6.3-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.6.3-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../081-dh-strip-nondeterminism_1.6.3-1_all.deb ... Unpacking dh-strip-nondeterminism (1.6.3-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../082-libelf1_0.176-1.1_amd64.deb ... Unpacking libelf1:amd64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../083-dwz_0.13-5_amd64.deb ... Unpacking dwz (0.13-5) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../084-libglib2.0-0_2.62.4-1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.62.4-1) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../085-libcroco3_0.6.13-1_amd64.deb ... Unpacking libcroco3:amd64 (0.6.13-1) ... Selecting previously unselected package gettext. Preparing to unpack .../086-gettext_0.19.8.1-10_amd64.deb ... Unpacking gettext (0.19.8.1-10) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../087-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../088-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../089-debhelper_12.7.3_all.deb ... Unpacking debhelper (12.7.3) ... Selecting previously unselected package libglvnd0:amd64. Preparing to unpack .../090-libglvnd0_1.3.0-7_amd64.deb ... Unpacking libglvnd0:amd64 (1.3.0-7) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../091-libdrm-common_2.4.100-4_all.deb ... Unpacking libdrm-common (2.4.100-4) ... Selecting previously unselected package libdrm2:amd64. Preparing to unpack .../092-libdrm2_2.4.100-4_amd64.deb ... Unpacking libdrm2:amd64 (2.4.100-4) ... Selecting previously unselected package libglapi-mesa:amd64. Preparing to unpack .../093-libglapi-mesa_19.3.2-1_amd64.deb ... Unpacking libglapi-mesa:amd64 (19.3.2-1) ... Selecting previously unselected package libx11-xcb1:amd64. Preparing to unpack .../094-libx11-xcb1_2%3a1.6.8-1_amd64.deb ... Unpacking libx11-xcb1:amd64 (2:1.6.8-1) ... Selecting previously unselected package libxcb-dri2-0:amd64. Preparing to unpack .../095-libxcb-dri2-0_1.13.1-3_amd64.deb ... Unpacking libxcb-dri2-0:amd64 (1.13.1-3) ... Selecting previously unselected package libxcb-dri3-0:amd64. Preparing to unpack .../096-libxcb-dri3-0_1.13.1-3_amd64.deb ... Unpacking libxcb-dri3-0:amd64 (1.13.1-3) ... Selecting previously unselected package libxcb-glx0:amd64. Preparing to unpack .../097-libxcb-glx0_1.13.1-3_amd64.deb ... Unpacking libxcb-glx0:amd64 (1.13.1-3) ... Selecting previously unselected package libxcb-present0:amd64. Preparing to unpack .../098-libxcb-present0_1.13.1-3_amd64.deb ... Unpacking libxcb-present0:amd64 (1.13.1-3) ... Selecting previously unselected package libxcb-sync1:amd64. Preparing to unpack .../099-libxcb-sync1_1.13.1-3_amd64.deb ... Unpacking libxcb-sync1:amd64 (1.13.1-3) ... Selecting previously unselected package libxfixes3:amd64. Preparing to unpack .../100-libxfixes3_1%3a5.0.3-1_amd64.deb ... Unpacking libxfixes3:amd64 (1:5.0.3-1) ... Selecting previously unselected package libxdamage1:amd64. Preparing to unpack .../101-libxdamage1_1%3a1.1.5-1_amd64.deb ... Unpacking libxdamage1:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxshmfence1:amd64. Preparing to unpack .../102-libxshmfence1_1.3-1_amd64.deb ... Unpacking libxshmfence1:amd64 (1.3-1) ... Selecting previously unselected package libxxf86vm1:amd64. Preparing to unpack .../103-libxxf86vm1_1%3a1.1.4-1+b2_amd64.deb ... Unpacking libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Selecting previously unselected package libdrm-amdgpu1:amd64. Preparing to unpack .../104-libdrm-amdgpu1_2.4.100-4_amd64.deb ... Unpacking libdrm-amdgpu1:amd64 (2.4.100-4) ... Selecting previously unselected package libpciaccess0:amd64. Preparing to unpack .../105-libpciaccess0_0.14-1_amd64.deb ... Unpacking libpciaccess0:amd64 (0.14-1) ... Selecting previously unselected package libdrm-intel1:amd64. Preparing to unpack .../106-libdrm-intel1_2.4.100-4_amd64.deb ... Unpacking libdrm-intel1:amd64 (2.4.100-4) ... Selecting previously unselected package libdrm-nouveau2:amd64. Preparing to unpack .../107-libdrm-nouveau2_2.4.100-4_amd64.deb ... Unpacking libdrm-nouveau2:amd64 (2.4.100-4) ... Selecting previously unselected package libdrm-radeon1:amd64. Preparing to unpack .../108-libdrm-radeon1_2.4.100-4_amd64.deb ... Unpacking libdrm-radeon1:amd64 (2.4.100-4) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../109-libedit2_3.1-20191231-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20191231-1) ... Selecting previously unselected package libz3-4:amd64. Preparing to unpack .../110-libz3-4_4.8.7-4_amd64.deb ... Unpacking libz3-4:amd64 (4.8.7-4) ... Selecting previously unselected package libllvm9:amd64. Preparing to unpack .../111-libllvm9_1%3a9.0.1-6_amd64.deb ... Unpacking libllvm9:amd64 (1:9.0.1-6) ... Selecting previously unselected package libsensors-config. Preparing to unpack .../112-libsensors-config_1%3a3.6.0-2_all.deb ... Unpacking libsensors-config (1:3.6.0-2) ... Selecting previously unselected package libsensors5:amd64. Preparing to unpack .../113-libsensors5_1%3a3.6.0-2_amd64.deb ... Unpacking libsensors5:amd64 (1:3.6.0-2) ... Selecting previously unselected package libgl1-mesa-dri:amd64. Preparing to unpack .../114-libgl1-mesa-dri_19.3.2-1_amd64.deb ... Unpacking libgl1-mesa-dri:amd64 (19.3.2-1) ... Selecting previously unselected package libglx-mesa0:amd64. Preparing to unpack .../115-libglx-mesa0_19.3.2-1_amd64.deb ... Unpacking libglx-mesa0:amd64 (19.3.2-1) ... Selecting previously unselected package libglx0:amd64. Preparing to unpack .../116-libglx0_1.3.0-7_amd64.deb ... Unpacking libglx0:amd64 (1.3.0-7) ... Selecting previously unselected package libgl1:amd64. Preparing to unpack .../117-libgl1_1.3.0-7_amd64.deb ... Unpacking libgl1:amd64 (1.3.0-7) ... Selecting previously unselected package libgif7:amd64. Preparing to unpack .../118-libgif7_5.1.9-1_amd64.deb ... Unpacking libgif7:amd64 (5.1.9-1) ... Selecting previously unselected package openjdk-11-jre:amd64. Preparing to unpack .../119-openjdk-11-jre_11.0.6+10-1_amd64.deb ... Unpacking openjdk-11-jre:amd64 (11.0.6+10-1) ... Selecting previously unselected package default-jre. Preparing to unpack .../120-default-jre_2%3a1.11-72_amd64.deb ... Unpacking default-jre (2:1.11-72) ... Selecting previously unselected package openjdk-11-jdk-headless:amd64. Preparing to unpack .../121-openjdk-11-jdk-headless_11.0.6+10-1_amd64.deb ... Unpacking openjdk-11-jdk-headless:amd64 (11.0.6+10-1) ... Selecting previously unselected package default-jdk-headless. Preparing to unpack .../122-default-jdk-headless_2%3a1.11-72_amd64.deb ... Unpacking default-jdk-headless (2:1.11-72) ... Selecting previously unselected package openjdk-11-jdk:amd64. Preparing to unpack .../123-openjdk-11-jdk_11.0.6+10-1_amd64.deb ... Unpacking openjdk-11-jdk:amd64 (11.0.6+10-1) ... Selecting previously unselected package default-jdk. Preparing to unpack .../124-default-jdk_2%3a1.11-72_amd64.deb ... Unpacking default-jdk (2:1.11-72) ... Selecting previously unselected package libclang1-9. Preparing to unpack .../125-libclang1-9_1%3a9.0.1-6_amd64.deb ... Unpacking libclang1-9 (1:9.0.1-6) ... Selecting previously unselected package libxapian30:amd64. Preparing to unpack .../126-libxapian30_1.4.12-1_amd64.deb ... Unpacking libxapian30:amd64 (1.4.12-1) ... Selecting previously unselected package doxygen. Preparing to unpack .../127-doxygen_1.8.16-2_amd64.deb ... Unpacking doxygen (1.8.16-2) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../128-hdf5-helpers_1.10.4+repack-10_amd64.deb ... Unpacking hdf5-helpers (1.10.4+repack-10) ... Selecting previously unselected package libaec0:amd64. Preparing to unpack .../129-libaec0_1.0.4-1_amd64.deb ... Unpacking libaec0:amd64 (1.0.4-1) ... Selecting previously unselected package libsz2:amd64. Preparing to unpack .../130-libsz2_1.0.4-1_amd64.deb ... Unpacking libsz2:amd64 (1.0.4-1) ... Selecting previously unselected package libaec-dev:amd64. Preparing to unpack .../131-libaec-dev_1.0.4-1_amd64.deb ... Unpacking libaec-dev:amd64 (1.0.4-1) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../132-libgfortran5_9.2.1-23_amd64.deb ... Unpacking libgfortran5:amd64 (9.2.1-23) ... Selecting previously unselected package libhdf4-0. Preparing to unpack .../133-libhdf4-0_4.2.14-1_amd64.deb ... Unpacking libhdf4-0 (4.2.14-1) ... Selecting previously unselected package libjpeg62-turbo-dev:amd64. Preparing to unpack .../134-libjpeg62-turbo-dev_1%3a1.5.2-2+b1_amd64.deb ... Unpacking libjpeg62-turbo-dev:amd64 (1:1.5.2-2+b1) ... Selecting previously unselected package libjpeg-dev. Preparing to unpack .../135-libjpeg-dev_1%3a1.5.2-2_all.deb ... Unpacking libjpeg-dev (1:1.5.2-2) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../136-zlib1g-dev_1%3a1.2.11.dfsg-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-1+b1) ... Selecting previously unselected package libhdf4-dev. Preparing to unpack .../137-libhdf4-dev_4.2.14-1_amd64.deb ... Unpacking libhdf4-dev (4.2.14-1) ... Selecting previously unselected package libhdf5-103:amd64. Preparing to unpack .../138-libhdf5-103_1.10.4+repack-10_amd64.deb ... Unpacking libhdf5-103:amd64 (1.10.4+repack-10) ... Selecting previously unselected package libhdf5-cpp-103:amd64. Preparing to unpack .../139-libhdf5-cpp-103_1.10.4+repack-10_amd64.deb ... Unpacking libhdf5-cpp-103:amd64 (1.10.4+repack-10) ... Selecting previously unselected package libhdf5-dev. Preparing to unpack .../140-libhdf5-dev_1.10.4+repack-10_amd64.deb ... Unpacking libhdf5-dev (1.10.4+repack-10) ... Selecting previously unselected package pkg-config. Preparing to unpack .../141-pkg-config_0.29-6_amd64.deb ... Unpacking pkg-config (0.29-6) ... Setting up libpipeline1:amd64 (1.5.2-2) ... Setting up liblcms2-2:amd64 (2.9-4) ... Setting up libxapian30:amd64 (1.4.12-1) ... Setting up libx11-xcb1:amd64 (2:1.6.8-1) ... Setting up libpciaccess0:amd64 (0.14-1) ... Setting up libxau6:amd64 (1:1.0.8-1+b2) ... Setting up libkeyutils1:amd64 (1.6-6) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up hdf5-helpers (1.10.4+repack-10) ... Setting up java-common (0.72) ... Setting up libmagic-mgc (1:5.38-4) ... Setting up libarchive13:amd64 (3.4.0-1+b1) ... Setting up libarchive-zip-perl (1.67-1) ... Setting up libglib2.0-0:amd64 (2.62.4-1) ... No schema files found: doing nothing. Setting up libglvnd0:amd64 (1.3.0-7) ... Setting up libprocps7:amd64 (2:3.3.15-2+b1) ... Setting up libdebhelper-perl (12.7.3) ... Setting up libbrotli1:amd64 (1.0.7-6) ... Setting up x11-common (1:7.7+20) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libsensors-config (1:3.6.0-2) ... Setting up libnghttp2-14:amd64 (1.40.0-1) ... Setting up libmagic1:amd64 (1:5.38-4) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.38-4) ... Setting up libldap-common (2.4.48+dfsg-1) ... Setting up libaec0:amd64 (1.0.4-1) ... Setting up libkrb5support0:amd64 (1.17-6) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2) ... Setting up libasound2-data (1.1.9-1) ... Setting up autotools-dev (20180224.1) ... Setting up libz3-4:amd64 (4.8.7-4) ... Setting up libuv1:amd64 (1.33.1-2) ... Setting up libjpeg62-turbo:amd64 (1:1.5.2-2+b1) ... Setting up libx11-data (2:1.6.8-1) ... Setting up libjpeg62-turbo-dev:amd64 (1:1.5.2-2+b1) ... Setting up libnspr4:amd64 (2:4.24-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libavahi-common-data:amd64 (0.7-5) ... Setting up libncurses6:amd64 (6.1+20191019-1) ... Setting up libdbus-1-3:amd64 (1.12.16-2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libpng16-16:amd64 (1.6.37-1) ... Setting up autopoint (0.19.8.1-10) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up pkg-config (0.29-6) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libpcsclite1:amd64 (1.8.26-2) ... Setting up libsensors5:amd64 (1:3.6.0-2) ... Setting up libk5crypto3:amd64 (1.17-6) ... Setting up libglapi-mesa:amd64 (19.3.2-1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2) ... Setting up libgfortran5:amd64 (9.2.1-23) ... Setting up libgif7:amd64 (5.1.9-1) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-1+b1) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up librhash0:amd64 (1.3.9-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up procps (2:3.3.15-2+b1) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libasound2:amd64 (1.1.9-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up cmake-data (3.15.4-1) ... Setting up libkrb5-3:amd64 (1.17-6) ... Setting up openssl (1.1.1d-2) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up libdrm-common (2.4.100-4) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libsz2:amd64 (1.0.4-1) ... Setting up libjsoncpp1:amd64 (1.7.4-3+b1) ... Setting up libfile-stripnondeterminism-perl (1.6.3-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.13.1-3) ... Setting up gettext (0.19.8.1-10) ... Setting up libtool (2.4.6-11) ... Setting up libxcb-glx0:amd64 (1.13.1-3) ... Setting up libedit2:amd64 (3.1-20191231-1) ... Setting up libaec-dev:amd64 (1.0.4-1) ... Setting up libavahi-common3:amd64 (0.7-5) ... Setting up libjpeg-dev (1:1.5.2-2) ... Setting up libldap-2.4-2:amd64 (2.4.48+dfsg-1+b2) ... Setting up m4 (1.4.18-4) ... Setting up libnss3:amd64 (2:3.49-1) ... Setting up libhdf4-0 (4.2.14-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxcb-present0:amd64 (1.13.1-3) ... Setting up ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 128 added, 0 removed; done. Setting up libfreetype6:amd64 (2.10.1-2) ... Setting up libxcb-sync1:amd64 (1.13.1-3) ... Setting up libhdf5-103:amd64 (1.10.4+repack-10) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-6) ... Setting up ucf (3.0038+nmu1) ... Setting up libhdf4-dev (4.2.14-1) ... Setting up autoconf (2.69-11) ... Setting up libxcb-dri2-0:amd64 (1.13.1-3) ... Setting up dh-strip-nondeterminism (1.6.3-1) ... Setting up libdrm2:amd64 (2.4.100-4) ... Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-4) ... Setting up libcurl4:amd64 (7.67.0-2) ... Setting up libx11-6:amd64 (2:1.6.8-1) ... Setting up libavahi-client3:amd64 (0.7-5) ... Setting up libllvm9:amd64 (1:9.0.1-6) ... Setting up libdrm-amdgpu1:amd64 (2.4.100-4) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libxcb-dri3-0:amd64 (1.13.1-3) ... Setting up libdrm-nouveau2:amd64 (2.4.100-4) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libdrm-radeon1:amd64 (2.4.100-4) ... Setting up libclang1-9 (1:9.0.1-6) ... Setting up fontconfig-config (2.13.1-2) ... Setting up po-debconf (1.0.21) ... Setting up libdrm-intel1:amd64 (2.4.100-4) ... Setting up libgl1-mesa-dri:amd64 (19.3.2-1) ... Setting up libhdf5-cpp-103:amd64 (1.10.4+repack-10) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up man-db (2.9.0-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up doxygen (1.8.16-2) ... Setting up libxfixes3:amd64 (1:5.0.3-1) ... Setting up libhdf5-dev (1.10.4+repack-10) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libcups2:amd64 (2.3.1-1) ... Setting up cmake (3.15.4-1) ... Setting up libfontconfig1:amd64 (2.13.1-2+b1) ... Setting up libxdamage1:amd64 (1:1.1.5-1) ... Setting up libxi6:amd64 (2:1.7.9-1) ... Setting up libxtst6:amd64 (2:1.2.3-1) ... Setting up libglx-mesa0:amd64 (19.3.2-1) ... Setting up libglx0:amd64 (1.3.0-7) ... Setting up libgl1:amd64 (1.3.0-7) ... Setting up default-jre-headless (2:1.11-72) ... Setting up openjdk-11-jre-headless:amd64 (11.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up openjdk-11-jre:amd64 (11.0.6+10-1) ... Setting up openjdk-11-jdk-headless:amd64 (11.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmic to provide /usr/bin/rmic (rmic) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jaotc to provide /usr/bin/jaotc (jaotc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre (2:1.11-72) ... Setting up dh-autoreconf (19) ... Setting up default-jdk-headless (2:1.11-72) ... Setting up openjdk-11-jdk:amd64 (11.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up ca-certificates-java (20190909) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G3.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GeoTrust_Primary_Certification_Authority.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:OISTE_WISeKey_Global_Root_GA_CA.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G4.pem Adding debian:Certigna.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GeoTrust_Global_CA.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:SecureTrust_CA.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:GeoTrust_Universal_CA.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:LuxTrust_Global_Root_2.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G3.pem Adding debian:Izenpe.com.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:AffirmTrust_Premium.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Certinomis_-_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:GeoTrust_Universal_CA_2.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:thawte_Primary_Root_CA.pem Adding debian:thawte_Primary_Root_CA_-_G3.pem Adding debian:ISRG_Root_X1.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:AddTrust_External_Root.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Taiwan_GRCA.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:AffirmTrust_Networking.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:SecureSign_RootCA11.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:thawte_Primary_Root_CA_-_G2.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:Secure_Global_CA.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:Deutsche_Telekom_Root_CA_2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:EE_Certification_Centre_Root_CA.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:VeriSign_Universal_Root_Certification_Authority.pem Adding debian:EC-ACC.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G5.pem Adding debian:Certplus_Class_2_Primary_CA.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:ACCVRAIZ1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:DST_Root_CA_X3.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G2.pem done. Setting up debhelper (12.7.3) ... Setting up default-jdk (2:1.11-72) ... Processing triggers for mime-support (3.64) ... Processing triggers for libc-bin (2.29-9) ... Processing triggers for ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. [0mI: Copying back the cached apt archive contents[0m [0mI: Building the package[0m [0mI: Running cd /build/nexus-4.4.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin" HOME="/nonexistent" dpkg-buildpackage -us -uc [0m dpkg-buildpackage: info: source package nexus dpkg-buildpackage: info: source version 4.4.3-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Stuart Prescott <stu...@debian.org> dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem cmake dh_auto_clean -O--buildsystem=cmake dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake dpkg-source -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building nexus using existing ./nexus_4.4.3.orig.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building nexus in nexus_4.4.3-3.debian.tar.xz dpkg-source: info: building nexus in nexus_4.4.3-3.dsc debian/rules binary dh binary --buildsystem cmake dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/nexus-4.4.3' dh_auto_configure -- -DENABLE_HDF5=1 -DENABLE_HDF4=1 -DENABLE_APPS=1 -DENABLE_CXX=1 -DENABLE_JAVA=1 cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DENABLE_HDF5=1 -DENABLE_HDF4=1 -DENABLE_APPS=1 -DENABLE_CXX=1 -DENABLE_JAVA=1 .. -- The C compiler identification is GNU 9.2.1 -- The CXX compiler identification is GNU 9.2.1 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of int -- Check size of int - done -- Check size of long int -- Check size of long int - done -- Check size of long long int -- Check size of long long int - done -- Check size of unsigned long long int -- Check size of unsigned long long int - done -- Check size of size_t -- Check size of size_t - done -- Looking for ftime -- Looking for ftime - found -- Looking for tzset -- Looking for tzset - found -- Looking for strdup -- Looking for strdup - found -- Looking for inttypes.h -- Looking for inttypes.h - found -- Looking for dlfcn.h -- Looking for dlfcn.h - found -- Performing Test RES -- Performing Test RES - Success -- Found PkgConfig: /usr/bin/pkg-config (found version "0.29") -- Build without MXML support! -- Found HDF4 DF library: /usr/lib/libdf.so -- HDF4 libary path: /usr/lib -- Found HDF4 MFHDF library: /usr/lib/libmfhdf.so -- Found HDF4 header files in: /usr/include/hdf -- Found JPEG: /usr/lib/x86_64-linux-gnu/libjpeg.so (found version "62") -- HDF4 library found in: /usr/lib -- HDF4 headers found in: /usr/include/hdf -- -- HDF5: Using hdf5 compiler wrapper to determine CXX configuration -- Found HDF5: /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5_cpp.so;/usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libpthread.so;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.4") found components: CXX HL -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- HDF5 library found in: -- HDF5 headers found in: /usr/include/hdf5/serial -- Link with: /usr/lib/libdf.so;/usr/lib/libmfhdf.so;jpeg;/usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5_cpp.so;/usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libpthread.so;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libm.so;/usr/lib/x86_64-linux-gnu/libz.so -- Found LibXml2: /usr/lib/x86_64-linux-gnu/libxml2.so (found version "2.9.10") -- Found Java: /usr/bin/java (found suitable version "11.0.6", minimum required is "1.6") -- Found JNI: /usr/lib/jvm/default-java/lib/libjawt.so -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success -- Found Doxygen: /usr/bin/doxygen (found version "1.8.16") found components: doxygen missing components: dot -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/nexus-4.4.3/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/nexus-4.4.3' dh_auto_build -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/nexus-4.4.3 -B/build/nexus-4.4.3/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/nexus-4.4.3/obj-x86_64-linux-gnu/CMakeFiles /build/nexus-4.4.3/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f src/CMakeFiles/NeXus_Shared_Library.dir/build.make src/CMakeFiles/NeXus_Shared_Library.dir/depend make -f src/CMakeFiles/NeXus_Static_Library.dir/build.make src/CMakeFiles/NeXus_Static_Library.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/src /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/src /build/nexus-4.4.3/obj-x86_64-linux-gnu/src/CMakeFiles/NeXus_Shared_Library.dir/DependInfo.cmake --color= make -f bindings/java/CMakeFiles/NexusJavaBuild.dir/build.make bindings/java/CMakeFiles/NexusJavaBuild.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/src /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/src /build/nexus-4.4.3/obj-x86_64-linux-gnu/src/CMakeFiles/NeXus_Static_Library.dir/DependInfo.cmake --color= make -f bindings/java/CMakeFiles/NexusJavadocBuild.dir/build.make bindings/java/CMakeFiles/NexusJavadocBuild.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/bindings/java /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/CMakeFiles/NexusJavaBuild.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/bindings/java /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/CMakeFiles/NexusJavadocBuild.dir/DependInfo.cmake --color= Scanning dependencies of target NexusJavadocBuild Scanning dependencies of target NexusJavaBuild make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f bindings/java/CMakeFiles/NexusJavadocBuild.dir/build.make bindings/java/CMakeFiles/NexusJavadocBuild.dir/build make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f bindings/java/CMakeFiles/NexusJavaBuild.dir/build.make bindings/java/CMakeFiles/NexusJavaBuild.dir/build make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' Scanning dependencies of target NeXus_Shared_Library make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f src/CMakeFiles/NeXus_Shared_Library.dir/build.make src/CMakeFiles/NeXus_Shared_Library.dir/build Scanning dependencies of target NeXus_Static_Library make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f src/CMakeFiles/NeXus_Static_Library.dir/build.make src/CMakeFiles/NeXus_Static_Library.dir/build make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 1%] Compile Java cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && /usr/bin/javac -d . /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFException.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFJavaException.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFNotImplementedException.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFConstants.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFArray.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFNativeData.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusException.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NXlink.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NeXusFileInterface.java /build/nexus-4.4.3/bindings/java/org/nexusformat/AttributeEntry.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java /build/nexus-4.4.3/bindings/java/test/TestJapi.java make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 2%] Compile Java cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && /usr/bin/javac -d . /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFException.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFJavaException.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFNotImplementedException.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFConstants.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFArray.java /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFNativeData.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusException.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NXlink.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NeXusFileInterface.java /build/nexus-4.4.3/bindings/java/org/nexusformat/AttributeEntry.java /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java /build/nexus-4.4.3/bindings/java/test/TestJapi.java [ 3%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/napi.c.o [ 3%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/napi.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/napi.c.o -c /build/nexus-4.4.3/src/napi.c cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/napi.c.o -c /build/nexus-4.4.3/src/napi.c In file included from /usr/include/string.h:495, from /build/nexus-4.4.3/src/napi.c:29: In function 'strncpy', inlined from 'nxigetdata_' at /build/nexus-4.4.3/src/napi.c:1252:3: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi.c: In function 'nxigetdata_': /build/nexus-4.4.3/src/napi.c:1252:3: note: length computed here 1252 | strncpy((char *)data, pPtr2, strlen(pPtr2)); /* not NULL terminated by default */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:495, from /build/nexus-4.4.3/src/napi.c:29: In function 'strncpy', inlined from 'nxigetdata_' at /build/nexus-4.4.3/src/napi.c:1252:3: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi.c: In function 'nxigetdata_': /build/nexus-4.4.3/src/napi.c:1252:3: note: length computed here 1252 | strncpy((char *)data, pPtr2, strlen(pPtr2)); /* not NULL terminated by default */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 4%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/napiu.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/napiu.c.o -c /build/nexus-4.4.3/src/napiu.c [ 5%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/napiu.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/napiu.c.o -c /build/nexus-4.4.3/src/napiu.c [ 6%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/nxstack.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/nxstack.c.o -c /build/nexus-4.4.3/src/nxstack.c [ 7%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/nxstack.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/nxstack.c.o -c /build/nexus-4.4.3/src/nxstack.c [ 8%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/stptok.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/stptok.c.o -c /build/nexus-4.4.3/src/stptok.c [ 9%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/stptok.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/stptok.c.o -c /build/nexus-4.4.3/src/stptok.c [ 10%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/nxdataset.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/nxdataset.c.o -c /build/nexus-4.4.3/src/nxdataset.c [ 11%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/nxdataset.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/nxdataset.c.o -c /build/nexus-4.4.3/src/nxdataset.c [ 11%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/napi_fortran_helper.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/napi_fortran_helper.c.o -c /build/nexus-4.4.3/src/napi_fortran_helper.c [ 12%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/napi_fortran_helper.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/napi_fortran_helper.c.o -c /build/nexus-4.4.3/src/napi_fortran_helper.c /build/nexus-4.4.3/src/napi_fortran_helper.c: In function 'nxifcompress_': /build/nexus-4.4.3/src/napi_fortran_helper.c:150:2: warning: 'nxicompress_' is deprecated [-Wdeprecated-declarations] 150 | return NXcompress(fid, *compr_type); | ^~~~~~ In file included from /build/nexus-4.4.3/include/napi_fortran_helper.h:26, from /build/nexus-4.4.3/src/napi_fortran_helper.c:31: /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:206:40: note: declared here 206 | # define NXcompress MANGLE(nxicompress) | ^~~~~~~~~~~ /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:185:25: note: in definition of macro 'CONCAT' 185 | #define CONCAT(__a,__b) __a##__b /* token concatenation */ | ^~~ /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:206:33: note: in expansion of macro 'MANGLE' 206 | # define NXcompress MANGLE(nxicompress) | ^~~~~~ /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:438:19: note: in expansion of macro 'NXcompress' 438 | extern NXstatus NXcompress (NXhandle handle, int compr_type) NEXUS_DEPRECATED_FUNCTION; | ^~~~~~~~~~ /build/nexus-4.4.3/src/napi_fortran_helper.c: In function 'nxifcompress_': /build/nexus-4.4.3/src/napi_fortran_helper.c:150:2: warning: 'nxicompress_' is deprecated [-Wdeprecated-declarations] 150 | return NXcompress(fid, *compr_type); | ^~~~~~ In file included from /build/nexus-4.4.3/include/napi_fortran_helper.h:26, from /build/nexus-4.4.3/src/napi_fortran_helper.c:31: /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:206:40: note: declared here 206 | # define NXcompress MANGLE(nxicompress) | ^~~~~~~~~~~ /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:185:25: note: in definition of macro 'CONCAT' 185 | #define CONCAT(__a,__b) __a##__b /* token concatenation */ | ^~~ /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:206:33: note: in expansion of macro 'MANGLE' 206 | # define NXcompress MANGLE(nxicompress) | ^~~~~~ /build/nexus-4.4.3/obj-x86_64-linux-gnu/include/napi.h:438:19: note: in expansion of macro 'NXcompress' 438 | extern NXstatus NXcompress (NXhandle handle, int compr_type) NEXUS_DEPRECATED_FUNCTION; | ^~~~~~~~~~ [ 13%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/napi4.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/napi4.c.o -c /build/nexus-4.4.3/src/napi4.c [ 14%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/napi4.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/napi4.c.o -c /build/nexus-4.4.3/src/napi4.c Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. [ 15%] Building C object src/CMakeFiles/NeXus_Shared_Library.dir/napi5.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -DNeXus_Shared_Library_EXPORTS -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -fPIC -o CMakeFiles/NeXus_Shared_Library.dir/napi5.c.o -c /build/nexus-4.4.3/src/napi5.c [ 16%] Building C object src/CMakeFiles/NeXus_Static_Library.dir/napi5.c.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cc -DH5_USE_18_API=1 -DIN_NEXUS_LIBRARY=1 -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/usr/include/hdf5/serial -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -o CMakeFiles/NeXus_Static_Library.dir/napi5.c.o -c /build/nexus-4.4.3/src/napi5.c [ 17%] Include Extra Built Classes [ 18%] Build JAR File cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && /usr/bin/jar cvf /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/jnexus.jar -C /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/ ncsa/hdf/hdflib/HDFException.class ncsa/hdf/hdflib/HDFJavaException.class ncsa/hdf/hdflib/HDFNotImplementedException.class ncsa/hdf/hdflib/HDFConstants.class ncsa/hdf/hdflib/HDFArray.class ncsa/hdf/hdflib/HDFNativeData.class org/nexusformat/NexusException.class org/nexusformat/NXlink.class org/nexusformat/NeXusFileInterface.class org/nexusformat/AttributeEntry.class org/nexusformat/NexusFile.class TestJapi.class ncsa/hdf/hdflib/ArrayDescriptor.class [ 19%] Include Extra Built Classes /build/nexus-4.4.3/src/napi5.c: In function 'NX5makegroup': /build/nexus-4.4.3/src/napi5.c:516:29: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 1022 [-Wformat-truncation=] 516 | snprintf(pBuffer, 1023, "/%s/%s", pFile->name_ref, name); | ^~ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:67:10: note: '__builtin___snprintf_chk' output 3 or more bytes (assuming 1026) into a destination of size 1023 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5makegroup': /build/nexus-4.4.3/src/napi5.c:516:29: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 1022 [-Wformat-truncation=] 516 | snprintf(pBuffer, 1023, "/%s/%s", pFile->name_ref, name); | ^~ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:67:10: note: '__builtin___snprintf_chk' output 3 or more bytes (assuming 1026) into a destination of size 1023 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 20%] Build JAR File cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && /usr/bin/jar cvf /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/jnexus.jar -C /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/ ncsa/hdf/hdflib/HDFException.class ncsa/hdf/hdflib/HDFJavaException.class ncsa/hdf/hdflib/HDFNotImplementedException.class ncsa/hdf/hdflib/HDFConstants.class ncsa/hdf/hdflib/HDFArray.class ncsa/hdf/hdflib/HDFNativeData.class org/nexusformat/NexusException.class org/nexusformat/NXlink.class org/nexusformat/NeXusFileInterface.class org/nexusformat/AttributeEntry.class org/nexusformat/NexusFile.class TestJapi.class ncsa/hdf/hdflib/ArrayDescriptor.class added manifest adding: ncsa/hdf/hdflib/HDFException.class(in = 749) (out= 430)(deflated 42%) adding: ncsa/hdf/hdflib/HDFJavaException.class(in = 949) (out= 505)(deflated 46%) adding: ncsa/hdf/hdflib/HDFNotImplementedException.class(in = 1005) (out= 532)(deflated 47%) adding: ncsa/hdf/hdflib/HDFConstants.class(in = 5354) (out= 2266)(deflated 57%) adding: ncsa/hdf/hdflib/HDFArray.class(in = 13884) (out= 5736)(deflated 58%) adding: ncsa/hdf/hdflib/HDFNativeData.class(in = 3779) (out= 1799)(deflated 52%) adding: org/nexusformat/NexusException.class(in = 759) (out= 434)(deflated 42%) adding: org/nexusformat/NXlink.class(in = 388) (out= 280)(deflated 27%) adding: org/nexusformat/NeXusFileInterface.class(in = 2240) (out= 708)(deflated 68%) adding: org/nexusformat/AttributeEntry.class(in = 273) (out= 218)(deflated 20%) adding: org/nexusformat/NexusFile.class(in = 14963) (out= 6184)(deflated 58%) adding: TestJapi.class(in = 9516) (out= 4814)(deflated 49%) adding: ncsa/hdf/hdflib/ArrayDescriptor.class(in = 4045) (out= 2289)(deflated 43%) In file included from /usr/include/string.h:495, from /build/nexus-4.4.3/src/napi5.c:34: In function 'strncpy', inlined from 'NX5getdata' at /build/nexus-4.4.3/src/napi5.c:1860:5: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5getdata': /build/nexus-4.4.3/src/napi5.c:1860:5: note: length computed here 1860 | strncpy(data, strdata, strlen(strdata)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Build JNI Header cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && /usr/bin/javac -h native /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java In file included from /usr/include/string.h:495, from /build/nexus-4.4.3/src/napi5.c:34: In function 'strncpy', inlined from 'NX5getdata' at /build/nexus-4.4.3/src/napi5.c:1860:5: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5getdata': /build/nexus-4.4.3/src/napi5.c:1860:5: note: length computed here 1860 | strncpy(data, strdata, strlen(strdata)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ added manifest adding: ncsa/hdf/hdflib/HDFException.class(in = 749) (out= 430)(deflated 42%) adding: ncsa/hdf/hdflib/HDFJavaException.class(in = 949) (out= 505)(deflated 46%) adding: ncsa/hdf/hdflib/HDFNotImplementedException.class(in = 1005) (out= 532)(deflated 47%) adding: ncsa/hdf/hdflib/HDFConstants.class(in = 5354) (out= 2266)(deflated 57%) adding: ncsa/hdf/hdflib/HDFArray.class(in = 13884) (out= 5736)(deflated 58%) adding: ncsa/hdf/hdflib/HDFNativeData.class(in = 3779) (out= 1799)(deflated 52%) adding: org/nexusformat/NexusException.class(in = 759) (out= 434)(deflated 42%) adding: org/nexusformat/NXlink.class(in = 388) (out= 280)(deflated 27%) adding: org/nexusformat/NeXusFileInterface.class(in = 2240) (out= 708)(deflated 68%) adding: org/nexusformat/AttributeEntry.class(in = 273) (out= 218)(deflated 20%) adding: org/nexusformat/NexusFile.class(in = 14963) (out= 6184)(deflated 58%) adding: TestJapi.class(in = 9516) (out= 4814)(deflated 49%) adding: ncsa/hdf/hdflib/ArrayDescriptor.class(in = 4045) (out= 2289)(deflated 43%) [ 22%] Build JNI Header cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && /usr/bin/javac -h native /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java In file included from /usr/include/string.h:495, from /build/nexus-4.4.3/src/napi5.c:34: In function 'strncpy', inlined from 'NX5getattra' at /build/nexus-4.4.3/src/napi5.c:2541:4: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5getattra': /build/nexus-4.4.3/src/napi5.c:2541:4: note: length computed here 2541 | strncpy(data, strdata, strlen(strdata)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5opengroup': /build/nexus-4.4.3/src/napi5.c:571:26: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 571 | sprintf(pBuffer, "%s/%s", pFile->name_tmp, name); | ^ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output 2 or more bytes (assuming 1025) into a destination of size 1024 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c:575:34: warning: '%s' directive writing up to 1023 bytes into a region of size 1011 [-Wformat-overflow=] 575 | sprintf(pBuffer, "ERROR: group %s does not exist", | ^~ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 29 and 1052 bytes into a destination of size 1024 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:495, from /build/nexus-4.4.3/src/napi5.c:34: In function 'strncpy', inlined from 'NX5getattra' at /build/nexus-4.4.3/src/napi5.c:2541:4: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5getattra': /build/nexus-4.4.3/src/napi5.c:2541:4: note: length computed here 2541 | strncpy(data, strdata, strlen(strdata)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5getnextentry': /build/nexus-4.4.3/src/napi5.c:1767:20: warning: '%s' directive writing up to 1023 bytes into a region of size 243 [-Wformat-overflow=] 1767 | "ERROR: group %s does not exist", | ^~ 1768 | ph_name); | ~~~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 29 and 1052 bytes into a destination of size 256 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5opengroup': /build/nexus-4.4.3/src/napi5.c:571:26: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 571 | sprintf(pBuffer, "%s/%s", pFile->name_tmp, name); | ^ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output 2 or more bytes (assuming 1025) into a destination of size 1024 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c:575:34: warning: '%s' directive writing up to 1023 bytes into a region of size 1011 [-Wformat-overflow=] 575 | sprintf(pBuffer, "ERROR: group %s does not exist", | ^~ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 29 and 1052 bytes into a destination of size 1024 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/nexus-4.4.3/src/napi5.c: In function 'NX5getnextentry': /build/nexus-4.4.3/src/napi5.c:1767:20: warning: '%s' directive writing up to 1023 bytes into a region of size 243 [-Wformat-overflow=] 1767 | "ERROR: group %s does not exist", | ^~ 1768 | ph_name); | ~~~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/hdf5/serial/H5Epublic.h:20, from /usr/include/hdf5/serial/hdf5.h:26, from /build/nexus-4.4.3/include/napi5.h:9, from /build/nexus-4.4.3/src/napi5.c:39: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 29 and 1052 bytes into a destination of size 256 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 23%] Linking C static library libNeXus.a cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/NeXus_Static_Library.dir/cmake_clean_target.cmake cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/NeXus_Static_Library.dir/link.txt --verbose=1 /usr/bin/ar qc libNeXus.a CMakeFiles/NeXus_Static_Library.dir/napi.c.o CMakeFiles/NeXus_Static_Library.dir/napiu.c.o CMakeFiles/NeXus_Static_Library.dir/nxstack.c.o CMakeFiles/NeXus_Static_Library.dir/stptok.c.o CMakeFiles/NeXus_Static_Library.dir/nxdataset.c.o CMakeFiles/NeXus_Static_Library.dir/napi_fortran_helper.c.o CMakeFiles/NeXus_Static_Library.dir/napi4.c.o CMakeFiles/NeXus_Static_Library.dir/napi5.c.o /usr/bin/ranlib libNeXus.a make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 23%] Built target NeXus_Static_Library make -f applications/NXtranslate/esrf_edf/CMakeFiles/Edf.dir/build.make applications/NXtranslate/esrf_edf/CMakeFiles/Edf.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/applications/NXtranslate/esrf_edf /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/esrf_edf /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/esrf_edf/CMakeFiles/Edf.dir/DependInfo.cmake --color= Scanning dependencies of target Edf make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f applications/NXtranslate/esrf_edf/CMakeFiles/Edf.dir/build.make applications/NXtranslate/esrf_edf/CMakeFiles/Edf.dir/build [ 24%] Linking C shared library libNeXus.so cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/NeXus_Shared_Library.dir/link.txt --verbose=1 make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' /usr/bin/cc -fPIC -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-comment -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -shared -Wl,-soname,libNeXus.so.1 -o libNeXus.so.1.0.0 CMakeFiles/NeXus_Shared_Library.dir/napi.c.o CMakeFiles/NeXus_Shared_Library.dir/napiu.c.o CMakeFiles/NeXus_Shared_Library.dir/nxstack.c.o CMakeFiles/NeXus_Shared_Library.dir/stptok.c.o CMakeFiles/NeXus_Shared_Library.dir/nxdataset.c.o CMakeFiles/NeXus_Shared_Library.dir/napi_fortran_helper.c.o CMakeFiles/NeXus_Shared_Library.dir/napi4.c.o CMakeFiles/NeXus_Shared_Library.dir/napi5.c.o -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -ldf -lmfhdf -ljpeg /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5_cpp.so /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm -lz -ldl -lm [ 25%] Building CXX object applications/NXtranslate/esrf_edf/CMakeFiles/Edf.dir/edf_reader.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/esrf_edf && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/esrf_edf -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/Edf.dir/edf_reader.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/esrf_edf/edf_reader.cpp cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library libNeXus.so.1.0.0 libNeXus.so.1 libNeXus.so make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 25%] Built target NeXus_Shared_Library make -f applications/NXtranslate/text_collist/CMakeFiles/TextCollist.dir/build.make applications/NXtranslate/text_collist/CMakeFiles/TextCollist.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/applications/NXtranslate/text_collist /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_collist /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_collist/CMakeFiles/TextCollist.dir/DependInfo.cmake --color= Scanning dependencies of target TextCollist make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f applications/NXtranslate/text_collist/CMakeFiles/TextCollist.dir/build.make applications/NXtranslate/text_collist/CMakeFiles/TextCollist.dir/build make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 26%] Building CXX object applications/NXtranslate/text_collist/CMakeFiles/TextCollist.dir/collist_retriever.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_collist && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/text_collist -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/TextCollist.dir/collist_retriever.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/text_collist/collist_retriever.cpp Note: /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && echo make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 26%] Built target NexusJavaBuild make -f applications/NXtranslate/text_plain/CMakeFiles/TextPlain.dir/build.make applications/NXtranslate/text_plain/CMakeFiles/TextPlain.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/applications/NXtranslate/text_plain /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_plain /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_plain/CMakeFiles/TextPlain.dir/DependInfo.cmake --color= [ 27%] Building CXX object applications/NXtranslate/esrf_edf/CMakeFiles/Edf.dir/edf_retriever.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/esrf_edf && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/esrf_edf -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/Edf.dir/edf_retriever.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/esrf_edf/edf_retriever.cpp Scanning dependencies of target TextPlain make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f applications/NXtranslate/text_plain/CMakeFiles/TextPlain.dir/build.make applications/NXtranslate/text_plain/CMakeFiles/TextPlain.dir/build make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 28%] Building CXX object applications/NXtranslate/text_plain/CMakeFiles/TextPlain.dir/retriever.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_plain && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/text_plain -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/TextPlain.dir/retriever.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/text_plain/retriever.cpp Note: /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: /build/nexus-4.4.3/bindings/java/org/nexusformat/NexusFile.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. [ 29%] Build Javadocs cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && /usr/bin/javadoc -d /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc -windowtitle jnexus -doctitle jnexus -classpath . -sourcepath /build/nexus-4.4.3/bindings/java org.nexusformat ncsa.hdf.hdflib make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 29%] Built target TextPlain make -f applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/build.make applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/applications/NXtranslate/text_xml /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_xml /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/DependInfo.cmake --color= Scanning dependencies of target TextXML make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/build.make applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/build make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 30%] Building CXX object applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/xml_retriever.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_xml && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/text_xml -I/usr/include/libxml2 -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/TextXML.dir/xml_retriever.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever.cpp Loading source files for package org.nexusformat... Loading source files for package ncsa.hdf.hdflib... make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' Constructing Javadoc information... [ 30%] Built target Edf make -f applications/NXtranslate/docs/CMakeFiles/SNShistogram.dir/build.make applications/NXtranslate/docs/CMakeFiles/SNShistogram.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/applications/NXtranslate/sns_histogram /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/docs /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/docs/CMakeFiles/SNShistogram.dir/DependInfo.cmake --color= Scanning dependencies of target SNShistogram make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f applications/NXtranslate/docs/CMakeFiles/SNShistogram.dir/build.make applications/NXtranslate/docs/CMakeFiles/SNShistogram.dir/build make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 30%] Building CXX object applications/NXtranslate/docs/CMakeFiles/SNShistogram.dir/string_location_format.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/docs && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/sns_histogram -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/SNShistogram.dir/string_location_format.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/sns_histogram/string_location_format.cpp Creating destination directory: "/build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/" Standard Doclet version 11.0.6 Building tree for all the packages and classes... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/HDFArray.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/HDFConstants.html... make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 30%] Built target TextCollist make -f applications/NXtranslate/FRM2/CMakeFiles/FRM2.dir/build.make applications/NXtranslate/FRM2/CMakeFiles/FRM2.dir/depend make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' cd /build/nexus-4.4.3/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/nexus-4.4.3 /build/nexus-4.4.3/applications/NXtranslate/FRM2 /build/nexus-4.4.3/obj-x86_64-linux-gnu /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/FRM2 /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/FRM2/CMakeFiles/FRM2.dir/DependInfo.cmake --color= Scanning dependencies of target FRM2 make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make -f applications/NXtranslate/FRM2/CMakeFiles/FRM2.dir/build.make applications/NXtranslate/FRM2/CMakeFiles/FRM2.dir/build make[3]: Entering directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 31%] Building CXX object applications/NXtranslate/FRM2/CMakeFiles/FRM2.dir/frm2_retriever.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/FRM2 && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/FRM2 -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/FRM2.dir/frm2_retriever.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/FRM2/frm2_retriever.cpp Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/HDFException.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/HDFJavaException.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/HDFNativeData.html... [ 32%] Building CXX object applications/NXtranslate/docs/CMakeFiles/SNShistogram.dir/SNS_retriever.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/docs && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/sns_histogram -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/SNShistogram.dir/SNS_retriever.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/sns_histogram/SNS_retriever.cpp /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFNativeData.java:125: warning - Tag @see: reference not found: ncsa.hdf.hdfobject.HDFGR /build/nexus-4.4.3/bindings/java/ncsa/hdf/hdflib/HDFNativeData.java:126: warning - Tag @see: reference not found: ncsa.hdf.hdfobject.HDFSDS Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/HDFNotImplementedException.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/AttributeEntry.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/NexusException.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/NexusFile.html... [ 33%] Building CXX object applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/xml_retriever_dom.cpp.o cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/applications/NXtranslate/text_xml && /usr/bin/c++ -I/build/nexus-4.4.3/obj-x86_64-linux-gnu/include -I/build/nexus-4.4.3/include -I/build/nexus-4.4.3/applications/../include -I/build/nexus-4.4.3/applications/NXtranslate/text_xml -I/usr/include/libxml2 -isystem /usr/include/hdf -g -O2 -fdebug-prefix-map=/build/nexus-4.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-sign-compare -Wno-comment -o CMakeFiles/TextXML.dir/xml_retriever_dom.cpp.o -c /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/NeXusFileInterface.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/NXlink.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/package-summary.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/ncsa/hdf/hdflib/package-tree.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/package-summary.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/org/nexusformat/package-tree.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/constant-values.html... /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp: In function 'void my_error(void*, const char*, ...)': /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:166:12: error: 'getLineNumber' was not declared in this scope 166 | int line=getLineNumber(context); | ^~~~~~~~~~~~~ /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:167:12: error: 'getColumnNumber' was not declared in this scope; did you mean 'xmlSAX2GetColumnNumber'? 167 | int col =getColumnNumber(context); | ^~~~~~~~~~~~~~~ | xmlSAX2GetColumnNumber Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/serialized-form.html... /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp: In function 'void my_fatalError(void*, const char*, ...)': /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:189:12: error: 'getLineNumber' was not declared in this scope 189 | int line=getLineNumber(context); | ^~~~~~~~~~~~~ /build/nexus-4.4.3/applications/NXtranslate/text_xml/xml_retriever_dom.cpp:190:12: error: 'getColumnNumber' was not declared in this scope; did you mean 'xmlSAX2GetColumnNumber'? 190 | int col =getColumnNumber(context); | ^~~~~~~~~~~~~~~ | xmlSAX2GetColumnNumber Building index for all the packages and classes... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/overview-tree.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/index-all.html... make[3]: *** [applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/build.make:79: applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/xml_retriever_dom.cpp.o] Error 1 make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make[2]: *** [CMakeFiles/Makefile2:1326: applications/NXtranslate/text_xml/CMakeFiles/TextXML.dir/all] Error 2 make[2]: *** Waiting for unfinished jobs.... Building index for all classes... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/allclasses-index.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/allpackages-index.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/deprecated-list.html... Building index for all classes... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/allclasses.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/allclasses.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/index.html... /build/nexus-4.4.3/applications/NXtranslate/sns_histogram/SNS_retriever.cpp: In member function 'virtual void SnsHistogramRetriever::getData(const string&, tree<Node>&)': /build/nexus-4.4.3/applications/NXtranslate/sns_histogram/SNS_retriever.cpp:131:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] 131 | fread(&BinaryArray[0],sizeof(BinaryArray[0]), GlobalArraySize, BinaryFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/overview-summary.html... Generating /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java/apidoc/help-doc.html... 2 warnings cd /build/nexus-4.4.3/obj-x86_64-linux-gnu/bindings/java && echo make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 33%] Built target NexusJavadocBuild make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 33%] Built target SNShistogram make[3]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' [ 33%] Built target FRM2 make[2]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' make[1]: *** [Makefile:166: all] Error 2 make[1]: Leaving directory '/build/nexus-4.4.3/obj-x86_64-linux-gnu' dh_auto_build: cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" returned exit code 2 make: *** [debian/rules:8: binary] Error 255 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 [0mI: copying local configuration[0m [0;31mE: Failed autobuilding of package[0m [0mI: unmounting /home/mattia/pbuilder/repository/ filesystem[0m [0mI: unmounting dev/ptmx filesystem[0m [0mI: unmounting dev/pts filesystem[0m [0mI: unmounting dev/shm filesystem[0m [0mI: unmounting proc filesystem[0m [0mI: unmounting sys filesystem[0m [0mI: cleaning the build env [0m [0mI: removing directory /var/cache/pbuilder/build/25966 and its subdirectories[0m
signature.asc
Description: PGP signature