[From nobody Mon Aug 3 01:53:07 2026 Received: (at submit) by bugs.debian.org; 1 Aug 2026 22:38:00 +0000 X-Spam-Checker-Version: SpamAssassin 4.0.1-bugs.debian.org_2005_01_02 (2024-03-25) on buxtehude.debian.org X-Spam-Level: X-Spam-Status: No, score=-122.4 required=4.0 tests=ALL_TRUSTED,BAYES_00, BODY_INCLUDES_PACKAGE,DKIMWL_WL_HIGH,DKIM_SIGNED,DKIM_VALID, DKIM_VALID_AU,DKIM_VALID_EF,FOURLA,FROMDEVELOPER,HAS_PACKAGE, PP_MIME_FAKE_ASCII_TEXT,SPF_HELO_PASS,SPF_PASS, USER_IN_DKIM_WELCOMELIST,X_DEBBUGS_CC autolearn=ham autolearn_force=no version=4.0.1-bugs.debian.org_2005_01_02 X-Spam-Bayes: score:0.0000 Tokens: new, 54; hammy, 150; neutral, 168; spammy, 0. spammytokens: hammytokens:0.000-+--pkgbuilddir, 0.000-+--PKGBUILDDIR, 0.000-+--HTo:N*Debian, 0.000-+--forky, 0.000-+--H*F:U*sanvila Return-path: <sanvila@debian.org> Received: from mailly.debian.org ([2001:41b8:202:deb:6564:a62:52c3:4b72]:51248) by buxtehude.debian.org with esmtps (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <sanvila@debian.org>) id 1wqILA-006m1J-1s for submit@bugs.debian.org; Sat, 01 Aug 2026 22:38:00 +0000 Received: via submission from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA, CN=paradis.debian.org, EMAIL=hostmaster@paradis.debian.org (verified) by mailly.debian.org with esmtps (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <sanvila@debian.org>) id 1wqIL9-00FN4L-10 for submit@bugs.debian.org; Sat, 01 Aug 2026 22:37:59 +0000 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debian.org; s=smtpauto.paradis; h=Date:Message-Id:Subject:To:From:Reply-To:Cc: MIME-Version:Content-Type:Content-Transfer-Encoding:Content-ID: Content-Description:In-Reply-To:References; bh=S6jy3ljnCIoXaRZthhUiaikYLzp7Hc0pRAQzE6EdNjA=; b=qfnL8ZX86Xh2J1Z1eyum6ZxLUd XkmIeMFCgAWpsx+SYGVM32jwZglcO6nwbGu2+5HrV2IDVtE4Apbbu8MwHWA9AbGfNGPHIFq5pMlXg ygW4T3mZre4B7XHagB0tcEckFZAsDvwwrQ39xIqYi1k3WQVoHWuHlF71Ui9qzgIL8j9ngkT+7aKW5 usUvj5XgYN5ma1Fux2SpF6vq5pZfgUBo+UYV9K+VF3Lypbfr80e/uX3Cc31CTi8WoYNiqUWZMkqKf J10da7hudqsYv5iZX9embqVxkzgdrdZ6UoZU9eQa7ODRc1AnasDNG+u2++0wZP5ILpsaX9Kyl4gtD Kq8C2VYw==; Received: from sanvila by paradis.debian.org with local (Exim 4.96) (envelope-from <sanvila@debian.org>) id 1wqIL8-00DZOb-09 for submit@bugs.debian.org; Sat, 01 Aug 2026 22:37:58 +0000 From: Santiago Vila <sanvila@debian.org> To: Debian BTS <submit@bugs.debian.org> Subject: r-bioc-biocneighbors: FTBFS: ../inst/include/BiocNeighbors.h:23:48: error: wrong number of template arguments (3, should be 2) X-Debbugs-Cc: sanvila@debian.org Message-Id: <E1wqIL8-00DZOb-09@paradis.debian.org> Date: Sat, 01 Aug 2026 22:37:58 +0000 Delivered-To: submit@bugs.debian.org Package: src:r-bioc-biocneighbors Version: 2.0.1+ds-3 Severity: serious Tags: ftbfs forky sid Dear maintainer: During a rebuild of all packages in unstable, this package failed to build. Below you will find the last part of the build log (probably the most relevant part, but not necessarily). If required, the full build log is available here: https://people.debian.org/~sanvila/build-logs/202608/ About the archive rebuild: The build was made on virtual machines from AWS, using sbuild and a reduced chroot with only build-essential packages. If you cannot reproduce the bug please contact me privately, as I am willing to provide ssh access to a virtual machine where the bug is fully reproducible. If this is really a bug in one of the build-depends, please use reassign and add an affects on src:r-bioc-biocneighbors, so that this is still visible in the BTS web page for this package. Thanks. -------------------------------------------------------------------------------- [...] debian/rules clean dh clean --buildsystem R dh_auto_clean -O--buildsystem=R dh_autoreconf_clean -O--buildsystem=R dh_clean -O--buildsystem=R debian/rules binary dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-biocneighbors/ -O--buildsystem=R I: R Package: BiocNeighbors Version: 2.0.1 I: Building using R version 4.6.1-1 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Fri, 13 Mar 2026 12:17:11 +0900 mkdir -p /<<BUILDDIR>>/r-bioc-biocneighbors-2.0.1\+ds/debian/r-bioc-biocneighbors/usr/lib/R/site-library R CMD INSTALL -l /<<BUILDDIR>>/r-bioc-biocneighbors-2.0.1\+ds/debian/r-bioc-biocneighbors/usr/lib/R/site-library --clean . --built-timestamp="'Fri, 13 Mar 2026 12:17:11 +0900'" * installing *source* package ‘BiocNeighbors’ ... ** this is package ‘BiocNeighbors’ version ‘2.0.1’ file ‘inst/doc/userguide.html’ is missing ** using staged installation ** libs specified C++17 using C++ compiler: ‘x86_64-linux-gnu-g++ (Debian 16.1.0-3) 16.1.0’ using C++17 make[1]: Entering directory '/<<PKGBUILDDIR>>/src' x86_64-linux-gnu-g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/lib/R/site-library/Rcpp/include' -I'/usr/lib/R/site-library/assorthead/include' -fpic -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.6.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: ../inst/include/BiocNeighbors.h:23:48: error: wrong number of template arguments (3, should be 2) 23 | typedef knncolle::SimpleMatrix<int, int, double> SimpleMatrix; | ^ In file included from /usr/lib/R/site-library/assorthead/include/knncolle/Builder.hpp:5, from /usr/lib/R/site-library/assorthead/include/knncolle/knncolle.hpp:4, from ../inst/include/BiocNeighbors.h:6: /usr/lib/R/site-library/assorthead/include/knncolle/Matrix.hpp:135:20: note: provided for ‘template<class Index_, class Data_> class knncolle::SimpleMatrix’ 135 | class SimpleMatrix final : public Matrix<Index_, Data_> { | ^~~~~ ../inst/include/BiocNeighbors.h:28:47: error: wrong number of template arguments (2, should be at least 3) 28 | typedef knncolle::Builder<SimpleMatrix, double> Builder; | ^ /usr/lib/R/site-library/assorthead/include/knncolle/Builder.hpp:28:7: note: provided for ‘template<class Index_, class Data_, class Distance_, class Matrix_> class knncolle::Builder’ 28 | class Builder { | ^~~~~~~ make[1]: *** [/usr/lib/R/etc/Makeconf:199: RcppExports.o] Error 1 make[1]: Leaving directory '/<<PKGBUILDDIR>>/src' make[1]: Entering directory '/<<PKGBUILDDIR>>/src' make[1]: Leaving directory '/<<PKGBUILDDIR>>/src' ERROR: compilation failed for package ‘BiocNeighbors’ * removing ‘/<<PKGBUILDDIR>>/debian/r-bioc-biocneighbors/usr/lib/R/site-library/BiocNeighbors’ dh_auto_install: error: R CMD INSTALL -l /<<BUILDDIR>>/r-bioc-biocneighbors-2.0.1\+ds/debian/r-bioc-biocneighbors/usr/lib/R/site-library --clean . --built-timestamp="'Fri, 13 Mar 2026 12:17:11 +0900'" returned exit code 1 make: *** [debian/rules:4: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess failed with exit status 2 -------------------------------------------------------------------------------- ]