Diff of the two buildlogs: -- --- b1/build.log 2025-10-21 08:02:56.553218095 +0000 +++ b2/build.log 2025-10-21 08:08:20.397522350 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Nov 23 02:15:26 -12 2026 -I: pbuilder-time-stamp: 1795443326 +I: Current time: Tue Oct 21 22:03:19 +14 2025 +I: pbuilder-time-stamp: 1761033799 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -22,53 +22,85 @@ dpkg-source: info: unpacking diamond-aligner_2.1.14-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1073135/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Oct 21 08:03 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='c041ca6d7f744495b8d61e00525e2a01' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='1073135' - PS1='# ' - PS2='> ' + INVOCATION_ID=85c3749db388474692c46f049b9ddaf0 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=848080 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.ziRywyZI/pbuilderrc_cR2C --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ziRywyZI/b1 --logfile b1/build.log diamond-aligner_2.1.14-1.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.ziRywyZI/pbuilderrc_5oQ2 --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ziRywyZI/b2 --logfile b2/build.log diamond-aligner_2.1.14-1.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1073135/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -170,7 +202,7 @@ Get: 60 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 61 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Get: 62 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] -Fetched 30.1 MB in 0s (190 MB/s) +Fetched 30.1 MB in 0s (208 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 20000 files and directories currently installed.) @@ -433,7 +465,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/diamond-aligner-2.1.14/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../diamond-aligner_2.1.14-1_source.changes +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/diamond-aligner-2.1.14/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../diamond-aligner_2.1.14-1_source.changes dpkg-buildpackage: info: source package diamond-aligner dpkg-buildpackage: info: source version 2.1.14-1 dpkg-buildpackage: info: source distribution unstable @@ -494,7 +530,7 @@ -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE --- Configuring done (3.7s) +-- Configuring done (3.5s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: @@ -530,40 +566,40 @@ make -f CMakeFiles/arch_generic.dir/build.make CMakeFiles/arch_generic.dir/build make[3]: Entering directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' -[ 0%] Building CXX object CMakeFiles/arch_generic.dir/src/dp/swipe/banded_3frame_swipe.cpp.o -[ 0%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/swipe/banded_3frame_swipe.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/dp/swipe/banded_3frame_swipe.cpp.o -MF CMakeFiles/arch_generic.dir/src/dp/swipe/banded_3frame_swipe.cpp.o.d -o CMakeFiles/arch_generic.dir/src/dp/swipe/banded_3frame_swipe.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/banded_3frame_swipe.cpp [ 1%] Building CXX object CMakeFiles/arch_neon.dir/src/search/stage1_2.cpp.o -[ 2%] Building CXX object CMakeFiles/arch_generic.dir/src/search/stage1_2.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/search/stage1_2.cpp.o -MF CMakeFiles/arch_generic.dir/src/search/stage1_2.cpp.o.d -o CMakeFiles/arch_generic.dir/src/search/stage1_2.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/search/stage1_2.cpp -[ 3%] Building CXX object CMakeFiles/arch_neon.dir/src/tools/benchmark.cpp.o -[ 3%] Building CXX object CMakeFiles/arch_generic.dir/src/masking/tantan.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER 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CMakeFiles/arch_generic.dir/src/dp/swipe/swipe_wrapper.cpp.o +[ 3%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/scan_diags.cpp.o +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/dp/scan_diags.cpp.o -MF CMakeFiles/arch_neon.dir/src/dp/scan_diags.cpp.o.d -o 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-DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/dp/swipe/swipe_wrapper.cpp.o -MF CMakeFiles/arch_generic.dir/src/dp/swipe/swipe_wrapper.cpp.o.d -o CMakeFiles/arch_generic.dir/src/dp/swipe/swipe_wrapper.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/swipe_wrapper.cpp +[ 6%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o -MF CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o.d -o CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/ungapped_simd.cpp In file included from /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/Core:369, from /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:27: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_GENERIC::PlainObjectBase::_check_template_params() [with Derived = Eigen_GENERIC::Array]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:134:35: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array() [with _Scalar = float; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_NEON::PlainObjectBase::_check_template_params() [with Derived = Eigen_NEON::Array]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:134:35: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array() [with _Scalar = float; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 134 | Base::_check_template_params(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/c++/15/array:102:12: required from here 102 | struct array | ^~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -572,7 +608,7 @@ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:28: note: in expansion of macro ‘EIGEN_IMPLIES’ 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ^~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -581,14 +617,14 @@ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:28: note: in expansion of macro ‘EIGEN_IMPLIES’ 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ^~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_GENERIC::PlainObjectBase::_check_template_params() [with Derived = Eigen_GENERIC::Array]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:170:35: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array(const T&) [with T = double; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_NEON::PlainObjectBase::_check_template_params() [with Derived = Eigen_NEON::Array]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:170:35: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array(const T&) [with T = double; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ 170 | Base::_check_template_params(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:61:31: required from here 61 | Array f(0.0), d, t; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -597,7 +633,7 @@ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:28: note: in expansion of macro ‘EIGEN_IMPLIES’ 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ^~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -607,209 +643,202 @@ 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/Core:483: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h: In instantiation of ‘struct Eigen_GENERIC::internal::redux_impl, Eigen_GENERIC::internal::redux_evaluator >, 3, 2>’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen_GENERIC::internal::traits::Scalar Eigen_GENERIC::DenseBase::redux(const Func&) const [with BinaryOp = Eigen_GENERIC::internal::scalar_sum_op; Derived = Eigen_GENERIC::Array; typename Eigen_GENERIC::internal::traits::Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h: In instantiation of ‘struct Eigen_NEON::internal::redux_impl, Eigen_NEON::internal::redux_evaluator >, 3, 2>’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen_NEON::internal::traits::Scalar Eigen_NEON::DenseBase::redux(const Func&) const [with BinaryOp = Eigen_NEON::internal::scalar_sum_op; Derived = Eigen_NEON::Array; typename Eigen_NEON::internal::traits::Scalar = float]’ 418 | return internal::redux_impl::run(thisEval, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:453:25: required from ‘typename Eigen_GENERIC::internal::traits::Scalar Eigen_GENERIC::DenseBase::sum() const [with Derived = Eigen_GENERIC::Array; typename Eigen_GENERIC::internal::traits::Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:453:25: required from ‘typename Eigen_NEON::internal::traits::Scalar Eigen_NEON::DenseBase::sum() const [with Derived = Eigen_NEON::Array; typename Eigen_NEON::internal::traits::Scalar = float]’ 453 | return derived().redux(Eigen::internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:82:24: required from here 82 | const float s = f.sum(); | ~~~~~^~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:315:28: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::internal::redux_evaluator >::’ and ‘Eigen_GENERIC::internal::redux_traits, Eigen_GENERIC::internal::redux_evaluator > >::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:315:28: warning: arithmetic between different enumeration types ‘Eigen_NEON::internal::redux_evaluator >::’ and ‘Eigen_NEON::internal::redux_traits, Eigen_NEON::internal::redux_evaluator > >::’ is deprecated [-Wdeprecated-enum-enum-conversion] 315 | VectorizedSize = (Size / PacketSize) * PacketSize | ~~~~~~^~~~~~~~~~~~~ -[ 7%] Building CXX object CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o -MF CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o.d -o CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/score_profile.cpp In file included from /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/Core:446: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator >, Eigen_GENERIC::internal::mul_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator >, Eigen_NEON::internal::mul_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = mul_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = Eigen_GENERIC::internal::mul_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = Eigen_NEON::internal::mul_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = mul_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator*=(const Eigen_GENERIC::ArrayBase&) [with OtherDerived = Eigen_GENERIC::Array; Derived = Eigen_GENERIC::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_NEON::ArrayBase::operator*=(const Eigen_NEON::ArrayBase&) [with OtherDerived = Eigen_NEON::Array; Derived = Eigen_NEON::Array]’ 207 | call_assignment(derived(), other.derived(), internal::mul_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:84:8: required from here 84 | t *= d; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, Eigen_GENERIC::Array > >, Eigen_GENERIC::internal::mul_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, Eigen_NEON::Array > >, Eigen_NEON::internal::mul_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = mul_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = Eigen_GENERIC::internal::mul_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = Eigen_NEON::internal::mul_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = mul_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:20:28: required from ‘Derived& Eigen_GENERIC::DenseBase::operator*=(const Scalar&) [with Derived = Eigen_GENERIC::Array; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:20:28: required from ‘Derived& Eigen_NEON::DenseBase::operator*=(const Scalar&) [with Derived = Eigen_NEON::Array; Scalar = float]’ 20 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::mul_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:85:8: required from here 85 | f *= f2f; | ^~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator >, Eigen_GENERIC::internal::add_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator >, Eigen_NEON::internal::add_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = add_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = Eigen_GENERIC::internal::add_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = Eigen_NEON::internal::add_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = add_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:194:18: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator+=(const Eigen_GENERIC::ArrayBase&) [with OtherDerived = Eigen_GENERIC::Array; Derived = Eigen_GENERIC::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:194:18: required from ‘Derived& Eigen_NEON::ArrayBase::operator+=(const Eigen_NEON::ArrayBase&) [with OtherDerived = Eigen_NEON::Array; Derived = Eigen_NEON::Array]’ 194 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:86:8: required from here 86 | f += t; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, 50, 1, false> >, Eigen_GENERIC::internal::mul_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Block, 50, 1, false>; Functor = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, 50, 1, false> >, Eigen_NEON::internal::mul_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Block, 50, 1, false>; Functor = mul_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Block, 50, 1, false>; Functor = Eigen_GENERIC::internal::mul_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Block, 50, 1, false>; Functor = Eigen_NEON::internal::mul_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Block, 50, 1, false>; Func = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Block, 50, 1, false>; Func = mul_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Block, 50, 1, false>; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Block, 50, 1, false>; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator*=(const Eigen_GENERIC::ArrayBase&) [with OtherDerived = Eigen_GENERIC::Block, 50, 1, false>; Derived = Eigen_GENERIC::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_NEON::ArrayBase::operator*=(const Eigen_NEON::ArrayBase&) [with OtherDerived = Eigen_NEON::Block, 50, 1, false>; Derived = Eigen_NEON::Array]’ 207 | call_assignment(derived(), other.derived(), internal::mul_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:88:79: required from here 88 | f *= e[(size_t)letter_mask(seq[i])].template segment(len - i, WINDOW); | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, Eigen_GENERIC::Array > >, Eigen_GENERIC::internal::add_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, Eigen_NEON::Array > >, Eigen_NEON::internal::add_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = add_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = Eigen_GENERIC::internal::add_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = Eigen_NEON::internal::add_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = add_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:27:28: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator+=(const Scalar&) [with Derived = Eigen_GENERIC::Array; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:27:28: required from ‘Derived& Eigen_NEON::ArrayBase::operator+=(const Scalar&) [with Derived = Eigen_NEON::Array; Scalar = float]’ 27 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::add_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:127:23: required from here 127 | f += p_repeat_end * b; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator >, Eigen_GENERIC::internal::assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator >, Eigen_NEON::internal::assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = Eigen_GENERIC::internal::assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = Eigen_NEON::internal::assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array]’ 782 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_GENERIC::PlainObjectBase::_set(const Eigen_GENERIC::DenseBase&) [with OtherDerived = Eigen_GENERIC::Array; Derived = Eigen_GENERIC::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_NEON::PlainObjectBase::_set(const Eigen_NEON::DenseBase&) [with OtherDerived = Eigen_NEON::Array; Derived = Eigen_NEON::Array]’ 714 | internal::call_assignment(this->derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:118:24: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:118:24: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ 118 | return Base::_set(other); | ~~~~~~~~~~^~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:124:7: required from here 124 | t = f; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, Eigen_GENERIC::Array > >, Eigen_GENERIC::internal::assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, Eigen_NEON::Array > >, Eigen_NEON::internal::assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = Eigen_GENERIC::internal::assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = Eigen_NEON::internal::assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >]’ 782 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_GENERIC::PlainObjectBase::_set(const Eigen_GENERIC::DenseBase&) [with OtherDerived = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Derived = Eigen_GENERIC::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_NEON::PlainObjectBase::_set(const Eigen_NEON::DenseBase&) [with OtherDerived = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Derived = Eigen_NEON::Array]’ 714 | internal::call_assignment(this->derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:109:24: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_GENERIC::DenseBase&) [with OtherDerived = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:109:24: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_NEON::DenseBase&) [with OtherDerived = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ 109 | return Base::_set(other); | ~~~~~~~~~~^~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/CwiseNullaryOp.h:327:20: required from ‘Derived& Eigen_GENERIC::DenseBase::setConstant(const Scalar&) [with Derived = Eigen_GENERIC::Array; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/CwiseNullaryOp.h:327:20: required from ‘Derived& Eigen_NEON::DenseBase::setConstant(const Scalar&) [with Derived = Eigen_NEON::Array; Scalar = float]’ 327 | return derived() = Constant(rows(), cols(), val); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:92:24: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Scalar&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:92:24: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Scalar&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1; Scalar = float]’ 92 | Base::setConstant(value); | ~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:83:7: required from here 83 | t = b; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -[ 8%] Building CXX object CMakeFiles/arch_neon.dir/src/masking/tantan.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/masking/tantan.cpp.o -MF CMakeFiles/arch_neon.dir/src/masking/tantan.cpp.o.d -o CMakeFiles/arch_neon.dir/src/masking/tantan.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp -cc1plus: note: unrecognized command-line option ‘-Wno-unknown-warning-option’ may have been intended to silence earlier diagnostics -[ 8%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/scan_diags.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/dp/scan_diags.cpp.o -MF CMakeFiles/arch_neon.dir/src/dp/scan_diags.cpp.o.d -o CMakeFiles/arch_neon.dir/src/dp/scan_diags.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/scan_diags.cpp In file included from /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/Core:369, from /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:27: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_NEON::PlainObjectBase::_check_template_params() [with Derived = Eigen_NEON::Array]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:134:35: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array() [with _Scalar = float; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_GENERIC::PlainObjectBase::_check_template_params() [with Derived = Eigen_GENERIC::Array]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:134:35: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array() [with _Scalar = float; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 134 | Base::_check_template_params(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/c++/15/array:102:12: required from here 102 | struct array | ^~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -818,7 +847,7 @@ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:28: note: in expansion of macro ‘EIGEN_IMPLIES’ 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ^~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -827,14 +856,14 @@ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:28: note: in expansion of macro ‘EIGEN_IMPLIES’ 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ^~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_NEON::PlainObjectBase::_check_template_params() [with Derived = Eigen_NEON::Array]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:170:35: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array(const T&) [with T = double; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h: In instantiation of ‘static void Eigen_GENERIC::PlainObjectBase::_check_template_params() [with Derived = Eigen_GENERIC::Array]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:170:35: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Array(const T&) [with T = double; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ 170 | Base::_check_template_params(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:61:31: required from here 61 | Array f(0.0), d, t; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -843,7 +872,7 @@ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:905:28: note: in expansion of macro ‘EIGEN_IMPLIES’ 905 | EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, (Options&RowMajor)==RowMajor) | ^~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_NEON::PlainObjectBase >::’ and ‘Eigen_NEON::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:906:102: warning: bitwise operation between different enumeration types ‘Eigen_GENERIC::PlainObjectBase >::’ and ‘Eigen_GENERIC::StorageOptions’ is deprecated [-Wdeprecated-enum-enum-conversion] 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ~~~~~~~~^~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/util/StaticAssert.h:33:54: note: in definition of macro ‘EIGEN_STATIC_ASSERT’ @@ -853,232 +882,239 @@ 906 | && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, (Options&RowMajor)==0) | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/Core:483: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h: In instantiation of ‘struct Eigen_NEON::internal::redux_impl, Eigen_NEON::internal::redux_evaluator >, 3, 2>’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen_NEON::internal::traits::Scalar Eigen_NEON::DenseBase::redux(const Func&) const [with BinaryOp = Eigen_NEON::internal::scalar_sum_op; Derived = Eigen_NEON::Array; typename Eigen_NEON::internal::traits::Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h: In instantiation of ‘struct Eigen_GENERIC::internal::redux_impl, Eigen_GENERIC::internal::redux_evaluator >, 3, 2>’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen_GENERIC::internal::traits::Scalar Eigen_GENERIC::DenseBase::redux(const Func&) const [with BinaryOp = Eigen_GENERIC::internal::scalar_sum_op; Derived = Eigen_GENERIC::Array; typename Eigen_GENERIC::internal::traits::Scalar = float]’ 418 | return internal::redux_impl::run(thisEval, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:453:25: required from ‘typename Eigen_NEON::internal::traits::Scalar Eigen_NEON::DenseBase::sum() const [with Derived = Eigen_NEON::Array; typename Eigen_NEON::internal::traits::Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:453:25: required from ‘typename Eigen_GENERIC::internal::traits::Scalar Eigen_GENERIC::DenseBase::sum() const [with Derived = Eigen_GENERIC::Array; typename Eigen_GENERIC::internal::traits::Scalar = float]’ 453 | return derived().redux(Eigen::internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:82:24: required from here 82 | const float s = f.sum(); | ~~~~~^~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:315:28: warning: arithmetic between different enumeration types ‘Eigen_NEON::internal::redux_evaluator >::’ and ‘Eigen_NEON::internal::redux_traits, Eigen_NEON::internal::redux_evaluator > >::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Redux.h:315:28: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::internal::redux_evaluator >::’ and ‘Eigen_GENERIC::internal::redux_traits, Eigen_GENERIC::internal::redux_evaluator > >::’ is deprecated [-Wdeprecated-enum-enum-conversion] 315 | VectorizedSize = (Size / PacketSize) * PacketSize | ~~~~~~^~~~~~~~~~~~~ +[ 7%] Building CXX object CMakeFiles/arch_generic.dir/src/dp/scan_diags.cpp.o +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/dp/scan_diags.cpp.o -MF CMakeFiles/arch_generic.dir/src/dp/scan_diags.cpp.o.d -o CMakeFiles/arch_generic.dir/src/dp/scan_diags.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/scan_diags.cpp In file included from /build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/Core:446: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator >, Eigen_NEON::internal::mul_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator >, Eigen_GENERIC::internal::mul_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = mul_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = Eigen_NEON::internal::mul_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = Eigen_GENERIC::internal::mul_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = mul_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_NEON::ArrayBase::operator*=(const Eigen_NEON::ArrayBase&) [with OtherDerived = Eigen_NEON::Array; Derived = Eigen_NEON::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator*=(const Eigen_GENERIC::ArrayBase&) [with OtherDerived = Eigen_GENERIC::Array; Derived = Eigen_GENERIC::Array]’ 207 | call_assignment(derived(), other.derived(), internal::mul_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:84:8: required from here 84 | t *= d; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, Eigen_NEON::Array > >, Eigen_NEON::internal::mul_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, Eigen_GENERIC::Array > >, Eigen_GENERIC::internal::mul_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = mul_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = Eigen_NEON::internal::mul_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = Eigen_GENERIC::internal::mul_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = mul_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:20:28: required from ‘Derived& Eigen_NEON::DenseBase::operator*=(const Scalar&) [with Derived = Eigen_NEON::Array; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:20:28: required from ‘Derived& Eigen_GENERIC::DenseBase::operator*=(const Scalar&) [with Derived = Eigen_GENERIC::Array; Scalar = float]’ 20 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::mul_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:85:8: required from here 85 | f *= f2f; | ^~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator >, Eigen_NEON::internal::add_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator >, Eigen_GENERIC::internal::add_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = add_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = Eigen_NEON::internal::add_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = Eigen_GENERIC::internal::add_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = add_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:194:18: required from ‘Derived& Eigen_NEON::ArrayBase::operator+=(const Eigen_NEON::ArrayBase&) [with OtherDerived = Eigen_NEON::Array; Derived = Eigen_NEON::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:194:18: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator+=(const Eigen_GENERIC::ArrayBase&) [with OtherDerived = Eigen_GENERIC::Array; Derived = Eigen_GENERIC::Array]’ 194 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:86:8: required from here 86 | f += t; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, 50, 1, false> >, Eigen_NEON::internal::mul_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Block, 50, 1, false>; Functor = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, 50, 1, false> >, Eigen_GENERIC::internal::mul_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Block, 50, 1, false>; Functor = mul_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Block, 50, 1, false>; Functor = Eigen_NEON::internal::mul_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Block, 50, 1, false>; Functor = Eigen_GENERIC::internal::mul_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Block, 50, 1, false>; Func = mul_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Block, 50, 1, false>; Func = mul_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Block, 50, 1, false>; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Block, 50, 1, false>; Func = mul_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_NEON::ArrayBase::operator*=(const Eigen_NEON::ArrayBase&) [with OtherDerived = Eigen_NEON::Block, 50, 1, false>; Derived = Eigen_NEON::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/ArrayBase.h:207:18: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator*=(const Eigen_GENERIC::ArrayBase&) [with OtherDerived = Eigen_GENERIC::Block, 50, 1, false>; Derived = Eigen_GENERIC::Array]’ 207 | call_assignment(derived(), other.derived(), internal::mul_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:88:79: required from here 88 | f *= e[(size_t)letter_mask(seq[i])].template segment(len - i, WINDOW); | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, Eigen_NEON::Array > >, Eigen_NEON::internal::add_assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, Eigen_GENERIC::Array > >, Eigen_GENERIC::internal::add_assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = add_assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = Eigen_NEON::internal::add_assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = Eigen_GENERIC::internal::add_assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = add_assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = add_assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:27:28: required from ‘Derived& Eigen_NEON::ArrayBase::operator+=(const Scalar&) [with Derived = Eigen_NEON::Array; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/SelfCwiseBinaryOp.h:27:28: required from ‘Derived& Eigen_GENERIC::ArrayBase::operator+=(const Scalar&) [with Derived = Eigen_GENERIC::Array; Scalar = float]’ 27 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::add_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:127:23: required from here 127 | f += p_repeat_end * b; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator >, Eigen_NEON::internal::assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator >, Eigen_GENERIC::internal::assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::Array; Functor = Eigen_NEON::internal::assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::Array; Functor = Eigen_GENERIC::internal::assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::Array]’ 782 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_NEON::PlainObjectBase::_set(const Eigen_NEON::DenseBase&) [with OtherDerived = Eigen_NEON::Array; Derived = Eigen_NEON::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_GENERIC::PlainObjectBase::_set(const Eigen_GENERIC::DenseBase&) [with OtherDerived = Eigen_GENERIC::Array; Derived = Eigen_GENERIC::Array]’ 714 | internal::call_assignment(this->derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:118:24: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:118:24: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ 118 | return Base::_set(other); | ~~~~~~~~~~^~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:124:7: required from here 124 | t = f; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_NEON::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_NEON::internal::generic_dense_assignment_kernel >, Eigen_NEON::internal::evaluator, Eigen_NEON::Array > >, Eigen_NEON::internal::assign_op, 0>]’: -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_NEON::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = assign_op]’ +[ 8%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/swipe/anchored_wrapper.cpp.o +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h: In instantiation of ‘static void Eigen_GENERIC::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen_GENERIC::internal::generic_dense_assignment_kernel >, Eigen_GENERIC::internal::evaluator, Eigen_GENERIC::Array > >, Eigen_GENERIC::internal::assign_op, 0>]’: +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:741:37: required from ‘void Eigen_GENERIC::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = assign_op]’ 741 | dense_assignment_loop::run(kernel); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_NEON::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_NEON::Array; SrcXprType = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Functor = Eigen_NEON::internal::assign_op; Weak = void]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:879:31: required from ‘static void Eigen_GENERIC::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen_GENERIC::Array; SrcXprType = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Functor = Eigen_GENERIC::internal::assign_op; Weak = void]’ 879 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_NEON::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = assign_op]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:836:49: required from ‘void Eigen_GENERIC::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = assign_op]’ 836 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_NEON::DenseShape]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:804:27: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen_GENERIC::DenseShape]’ 804 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_NEON::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_NEON::Array; Src = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:782:18: required from ‘void Eigen_GENERIC::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen_GENERIC::Array; Src = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >]’ 782 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_NEON::PlainObjectBase::_set(const Eigen_NEON::DenseBase&) [with OtherDerived = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; Derived = Eigen_NEON::Array]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/PlainObjectBase.h:714:32: required from ‘Derived& Eigen_GENERIC::PlainObjectBase::_set(const Eigen_GENERIC::DenseBase&) [with OtherDerived = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; Derived = Eigen_GENERIC::Array]’ 714 | internal::call_assignment(this->derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:109:24: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_NEON::DenseBase&) [with OtherDerived = Eigen_NEON::CwiseNullaryOp, Eigen_NEON::Array >; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:109:24: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen_GENERIC::DenseBase&) [with OtherDerived = Eigen_GENERIC::CwiseNullaryOp, Eigen_GENERIC::Array >; _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1]’ 109 | return Base::_set(other); | ~~~~~~~~~~^~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/CwiseNullaryOp.h:327:20: required from ‘Derived& Eigen_NEON::DenseBase::setConstant(const Scalar&) [with Derived = Eigen_NEON::Array; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/CwiseNullaryOp.h:327:20: required from ‘Derived& Eigen_GENERIC::DenseBase::setConstant(const Scalar&) [with Derived = Eigen_GENERIC::Array; Scalar = float]’ 327 | return derived() = Constant(rows(), cols(), val); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:92:24: required from ‘Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_NEON::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Scalar&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1; Scalar = float]’ +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/Array.h:92:24: required from ‘Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen_GENERIC::Array<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Scalar&) [with _Scalar = float; int _Rows = 50; int _Cols = 1; int _Options = 0; int _MaxRows = 50; int _MaxCols = 1; Scalar = float]’ 92 | Base::setConstant(value); | ~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/diamond-aligner-2.1.14/src/masking/tantan.cpp:83:7: required from here 83 | t = b; | ^ -/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_NEON::Array::’ and ‘Eigen_NEON::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] +/build/reproducible-path/diamond-aligner-2.1.14/src/lib/Eigen/src/Core/AssignEvaluator.h:432:31: warning: arithmetic between different enumeration types ‘Eigen_GENERIC::Array::’ and ‘Eigen_GENERIC::internal::unpacket_traits<__Float32x4_t>::’ is deprecated [-Wdeprecated-enum-enum-conversion] 432 | alignedSize = (size/packetSize)*packetSize }; | ~~~~~^~~~~~~~~~~~ -[ 9%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o -MF CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o.d -o CMakeFiles/arch_neon.dir/src/dp/ungapped_simd.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/ungapped_simd.cpp -[ 10%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/swipe/anchored_wrapper.cpp.o /usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/dp/swipe/anchored_wrapper.cpp.o -MF CMakeFiles/arch_neon.dir/src/dp/swipe/anchored_wrapper.cpp.o.d -o CMakeFiles/arch_neon.dir/src/dp/swipe/anchored_wrapper.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/anchored_wrapper.cpp -[ 10%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o -MF CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o.d -o CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/score_profile.cpp cc1plus: note: unrecognized command-line option ‘-Wno-unknown-warning-option’ may have been intended to silence earlier diagnostics +[ 9%] Building CXX object CMakeFiles/arch_generic.dir/src/dp/ungapped_simd.cpp.o +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/dp/ungapped_simd.cpp.o -MF CMakeFiles/arch_generic.dir/src/dp/ungapped_simd.cpp.o.d -o CMakeFiles/arch_generic.dir/src/dp/ungapped_simd.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/ungapped_simd.cpp +cc1plus: note: unrecognized command-line option ‘-Wno-unknown-warning-option’ may have been intended to silence earlier diagnostics +[ 9%] Building CXX object CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_NEON -DARCH_ID=4 -D__ARM_NEON -D__aarch64__ -DEigen=Eigen_NEON -MD -MT CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o -MF CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o.d -o CMakeFiles/arch_neon.dir/src/dp/score_profile.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/score_profile.cpp +[ 9%] Building CXX object CMakeFiles/arch_generic.dir/src/dp/swipe/anchored_wrapper.cpp.o +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/dp/swipe/anchored_wrapper.cpp.o -MF CMakeFiles/arch_generic.dir/src/dp/swipe/anchored_wrapper.cpp.o.d -o CMakeFiles/arch_generic.dir/src/dp/swipe/anchored_wrapper.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/anchored_wrapper.cpp +[ 10%] Building CXX object CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -DDISPATCH_ARCH=ARCH_GENERIC -DARCH_ID=0 -DEigen=Eigen_GENERIC -MD -MT CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o -MF CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o.d -o CMakeFiles/arch_generic.dir/src/dp/score_profile.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/score_profile.cpp In file included from /usr/include/c++/15/list:64, from /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/swipe_wrapper.cpp:22: In function ‘constexpr void std::__fill_a1(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’, inlined from ‘constexpr void std::__fill_a(_FIte, _FIte, const _Tp&) [with _FIte = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:979:21, inlined from ‘constexpr void std::fill(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:1011:20, - inlined from ‘DP::Swipe::ARCH_NEON::Matrix::Matrix(int, int) [with Sv = int]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_matrix.h:66:12, - inlined from ‘std::__cxx11::list DP::Swipe::ARCH_NEON::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: + inlined from ‘DP::Swipe::ARCH_GENERIC::Matrix::Matrix(int, int) [with Sv = int]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_matrix.h:66:12, + inlined from ‘std::__cxx11::list DP::Swipe::ARCH_GENERIC::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: /usr/include/c++/15/bits/stl_algobase.h:925:18: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ specified bound 18446744073709551612 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 925 | *__first = __val; | ~~~~~~~~~^~~~~~~ -In file included from /usr/include/c++/15/list:64, - from /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/swipe_wrapper.cpp:22: In function ‘constexpr void std::__fill_a1(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’, inlined from ‘constexpr void std::__fill_a(_FIte, _FIte, const _Tp&) [with _FIte = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:979:21, inlined from ‘constexpr void std::fill(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:1011:20, inlined from ‘DP::Swipe::ARCH_GENERIC::Matrix::Matrix(int, int) [with Sv = int]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_matrix.h:66:12, - inlined from ‘std::__cxx11::list DP::Swipe::ARCH_GENERIC::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: + inlined from ‘std::__cxx11::list DP::Swipe::ARCH_GENERIC::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: /usr/include/c++/15/bits/stl_algobase.h:925:18: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ specified bound 18446744073709551612 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 925 | *__first = __val; | ~~~~~~~~~^~~~~~~ +In file included from /usr/include/c++/15/list:64, + from /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/swipe_wrapper.cpp:22: In function ‘constexpr void std::__fill_a1(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’, inlined from ‘constexpr void std::__fill_a(_FIte, _FIte, const _Tp&) [with _FIte = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:979:21, inlined from ‘constexpr void std::fill(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:1011:20, inlined from ‘DP::Swipe::ARCH_NEON::Matrix::Matrix(int, int) [with Sv = int]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_matrix.h:66:12, - inlined from ‘std::__cxx11::list DP::Swipe::ARCH_NEON::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: + inlined from ‘std::__cxx11::list DP::Swipe::ARCH_NEON::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: /usr/include/c++/15/bits/stl_algobase.h:925:18: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ specified bound 18446744073709551612 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 925 | *__first = __val; | ~~~~~~~~~^~~~~~~ In function ‘constexpr void std::__fill_a1(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’, inlined from ‘constexpr void std::__fill_a(_FIte, _FIte, const _Tp&) [with _FIte = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:979:21, inlined from ‘constexpr void std::fill(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = int*; _Tp = int]’ at /usr/include/c++/15/bits/stl_algobase.h:1011:20, - inlined from ‘DP::Swipe::ARCH_GENERIC::Matrix::Matrix(int, int) [with Sv = int]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_matrix.h:66:12, - inlined from ‘std::__cxx11::list DP::Swipe::ARCH_GENERIC::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: + inlined from ‘DP::Swipe::ARCH_NEON::Matrix::Matrix(int, int) [with Sv = int]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_matrix.h:66:12, + inlined from ‘std::__cxx11::list DP::Swipe::ARCH_NEON::swipe(It, It, std::atomic*, Cbs, DP::TargetVec&, DP::Params&) [with Sv = int; Cbs = DP::NoCBS; It = __gnu_cxx::__normal_iterator >; Cfg = SwipeConfig, int, DummyIdMask >]’ at /build/reproducible-path/diamond-aligner-2.1.14/src/dp/swipe/full_swipe.h:165:9: /usr/include/c++/15/bits/stl_algobase.h:925:18: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ specified bound 18446744073709551612 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 925 | *__first = __val; | ~~~~~~~~~^~~~~~~ @@ -2749,38 +2785,38 @@ At global scope: cc1plus: note: unrecognized command-line option ‘-Wno-unknown-warning-option’ may have been intended to silence earlier diagnostics make[3]: Leaving directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' -[ 10%] Built target arch_generic -make[3]: Leaving directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' [ 10%] Built target arch_neon +make[3]: Leaving directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' +[ 10%] Built target arch_generic make -f CMakeFiles/diamond.dir/build.make CMakeFiles/diamond.dir/depend make[3]: Entering directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' cd /build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/diamond-aligner-2.1.14 /build/reproducible-path/diamond-aligner-2.1.14 /build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu /build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu /build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu/CMakeFiles/diamond.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' make -f CMakeFiles/diamond.dir/build.make CMakeFiles/diamond.dir/build make[3]: Entering directory 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-fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -MD -MT CMakeFiles/diamond.dir/src/align/full_db.cpp.o -MF CMakeFiles/diamond.dir/src/align/full_db.cpp.o.d -o CMakeFiles/diamond.dir/src/align/full_db.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/align/full_db.cpp [ 48%] Building CXX object CMakeFiles/diamond.dir/src/align/culling.cpp.o @@ -3062,10 +3098,10 @@ /usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -MD -MT CMakeFiles/diamond.dir/src/output/daa/merge.cpp.o -MF CMakeFiles/diamond.dir/src/output/daa/merge.cpp.o.d -o CMakeFiles/diamond.dir/src/output/daa/merge.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/output/daa/merge.cpp [ 91%] Building CXX object CMakeFiles/diamond.dir/src/chaining/backtrace.cpp.o /usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -MD -MT CMakeFiles/diamond.dir/src/chaining/backtrace.cpp.o -MF CMakeFiles/diamond.dir/src/chaining/backtrace.cpp.o.d -o CMakeFiles/diamond.dir/src/chaining/backtrace.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/chaining/backtrace.cpp +[ 91%] Building CXX object CMakeFiles/diamond.dir/src/util/tsv/join.cpp.o [ 92%] Building CXX object CMakeFiles/diamond.dir/src/util/tsv/merge.cpp.o -/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -MD -MT CMakeFiles/diamond.dir/src/util/tsv/merge.cpp.o -MF CMakeFiles/diamond.dir/src/util/tsv/merge.cpp.o.d -o CMakeFiles/diamond.dir/src/util/tsv/merge.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/util/tsv/merge.cpp -[ 92%] Building CXX object CMakeFiles/diamond.dir/src/util/tsv/join.cpp.o /usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -MD -MT CMakeFiles/diamond.dir/src/util/tsv/join.cpp.o -MF CMakeFiles/diamond.dir/src/util/tsv/join.cpp.o.d -o CMakeFiles/diamond.dir/src/util/tsv/join.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/util/tsv/join.cpp +/usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -MD -MT CMakeFiles/diamond.dir/src/util/tsv/merge.cpp.o -MF CMakeFiles/diamond.dir/src/util/tsv/merge.cpp.o.d -o CMakeFiles/diamond.dir/src/util/tsv/merge.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/util/tsv/merge.cpp [ 93%] Building CXX object CMakeFiles/diamond.dir/src/dp/scalar/smith_waterman.cpp.o /usr/bin/c++ -DLEFTMOST_SEED_FILTER -DMAX_SHAPE_LEN=19 -DSEQ_MASK -DSTRICT_BAND -DWITH_NEON -D_ITERATOR_DEBUG_LEVEL=0 -I/build/reproducible-path/diamond-aligner-2.1.14/src -I/build/reproducible-path/diamond-aligner-2.1.14/src/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/diamond-aligner-2.1.14=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-implicit-fallthrough -Wreturn-type -Wno-unused -Wno-unused-parameter -Wno-unused-variable -Wno-uninitialized -Wno-deprecated-copy -Wno-unknown-warning-option -O3 -DNDEBUG -std=gnu++20 -MD -MT CMakeFiles/diamond.dir/src/dp/scalar/smith_waterman.cpp.o -MF CMakeFiles/diamond.dir/src/dp/scalar/smith_waterman.cpp.o.d -o CMakeFiles/diamond.dir/src/dp/scalar/smith_waterman.cpp.o -c /build/reproducible-path/diamond-aligner-2.1.14/src/dp/scalar/smith_waterman.cpp [ 94%] Building CXX object CMakeFiles/diamond.dir/src/tools/tsv.cpp.o @@ -3317,484 +3353,484 @@ make[1]: Leaving directory '/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/diamond-aligner-2.1.14' -cd debian/tests && PATH=/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games sh diamond-calls -+ mktemp -d -+ TESTDIR=/tmp/tmp.Y5X0dBq0fp -+ diamond blastp --threads 1 --db test/C.faa.diamond --query test/E.faa --out /tmp/tmp.Y5X0dBq0fp/E.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive +cd debian/tests && PATH=/build/reproducible-path/diamond-aligner-2.1.14/obj-aarch64-linux-gnu:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path sh diamond-calls +++ mktemp -d ++ TESTDIR=/tmp/tmp.AAIlZUB5V3 ++ diamond blastp --threads 1 --db test/C.faa.diamond --query test/E.faa --out /tmp/tmp.AAIlZUB5V3/E.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 -Opening the database... [0.007s] +Opening the database... [0s] Database: test/C.faa.diamond (type: Diamond database, sequences: 109, letters: 51213) Block size = 2000000000 Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.006s] +Masking queries... [0.007s] Algorithm: Double-indexed -Building query histograms... [0.019s] +Building query histograms... [0.021s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.005s] +Masking reference... [0.004s] Initializing temporary storage... [0s] -Building reference histograms... [0.017s] -Allocating buffers... [0.001s] +Building reference histograms... [0.019s] +Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. Building reference seed array... [0.003s] Building query seed array... [0.002s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.005s] Computing hash join... [0s] -Masking low complexity seeds... [0.009s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.006s] +Building reference seed array... [0.007s] +Building query seed array... [0.012s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. +Building reference seed array... [0.001s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.003s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.006s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. +Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. Building reference seed array... [0.003s] Building query seed array... [0.005s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.001s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.004s] Building query seed array... [0.005s] -Computing hash join... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.005s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. Building reference seed array... [0.003s] -Building query seed array... 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[0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.005s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... 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[0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.007s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.01s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] -Computing hash join... [0.009s] +Building reference seed array... [0.001s] +Building query seed array... [0.009s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.01s] -Computing hash join... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.009s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.009s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.006s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.011s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.015s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.01s] -Building query seed array... [0.001s] -Computing hash join... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.013s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.007s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.012s] -Building query seed array... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.007s] Building query seed array... [0.002s] -Computing hash join... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.002s] -Computing hash join... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.005s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.002s] +Building reference seed array... [0.008s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.002s] Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.002s] -Computing hash join... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] +Building reference seed array... [0.008s] +Building query seed array... [0.01s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.005s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.01s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.01s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.01s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. Building reference seed array... [0.004s] -Building query seed array... [0.006s] -Computing hash join... [0s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.011s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.001s] +Deallocating memory... [0.003s] +Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.609s] +Computing alignments... [0.566s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -3804,484 +3840,484 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.131s +Total time = 1.791s Reported 77 pairwise alignments, 77 HSPs. 72 queries aligned. -+ diamond blastp --threads 1 --db test/E.faa.diamond --query test/C.faa --out /tmp/tmp.Y5X0dBq0fp/C.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/E.faa.diamond --query test/C.faa --out /tmp/tmp.AAIlZUB5V3/C.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 -Opening the database... [0.008s] +Opening the database... [0s] Database: test/E.faa.diamond (type: Diamond database, sequences: 72, letters: 54509) Block size = 2000000000 -Opening the input file... [0.001s] +Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.009s] +Masking queries... [0.002s] Algorithm: Double-indexed -Building query histograms... [0.023s] +Building query histograms... [0.017s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.006s] +Masking reference... [0.005s] Initializing temporary storage... [0s] -Building reference histograms... [0.033s] +Building reference histograms... [0.021s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.002s] +Building reference seed array... [0.005s] Building query seed array... [0.008s] -Computing hash join... [0.003s] +Computing hash join... [0.005s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.009s] -Computing hash join... [0.01s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.002s] +Building reference seed array... [0.008s] +Building query seed array... [0.002s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.005s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.004s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.01s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.002s] -Computing hash join... [0s] +Building reference seed array... [0.008s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.016s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.009s] +Building reference seed array... [0.01s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.002s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.005s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0.004s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.01s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.006s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.002s] -Computing hash join... [0s] +Building reference seed array... [0.008s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.003s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.006s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0.008s] Masking low complexity seeds... [0.001s] Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.001s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.007s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.01s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.011s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.01s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.01s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.011s] -Computing hash join... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.008s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.014s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.005s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.015s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0.01s] +Building reference seed array... [0.005s] +Building query seed array... [0.01s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.001s] -Computing hash join... [0.008s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.003s] -Deallocating memory... [0s] +Building reference seed array... [0.01s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] +Deallocating memory... [0.005s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.001s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.002s] -Computing hash join... [0.008s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.012s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.015s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.009s] +Searching alignments... [0.002s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.001s] +Building reference seed array... [0.007s] +Building query seed array... [0.005s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.016s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.005s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] +Searching alignments... [0.005s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. +Building reference seed array... [0.004s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.007s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.015s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.007s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.015s] -Building query seed array... [0.005s] +Building reference seed array... [0.004s] +Building query seed array... [0.008s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. Building reference seed array... [0.007s] Building query seed array... [0.004s] -Computing hash join... [0.01s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] -Deallocating memory... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] +Deallocating memory... [0.003s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.226s] +Computing alignments... [0.175s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -4291,17 +4327,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.982s +Total time = 1.519s Reported 41 pairwise alignments, 41 HSPs. 15 queries aligned. -+ diamond blastp --threads 1 --db test/C.faa.diamond --query test/L.faa --out /tmp/tmp.Y5X0dBq0fp/L.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/C.faa.diamond --query test/L.faa --out /tmp/tmp.AAIlZUB5V3/L.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/C.faa.diamond (type: Diamond database, sequences: 109, letters: 51213) @@ -4311,464 +4347,464 @@ Loading query sequences... [0s] Masking queries... [0.001s] Algorithm: Double-indexed -Building query histograms... [0.023s] +Building query histograms... [0.015s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.005s] +Masking reference... [0.004s] Initializing temporary storage... [0s] -Building reference histograms... [0.018s] +Building reference histograms... [0.019s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.01s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.009s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. +Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.007s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. +Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] +Building reference seed array... [0.008s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.01s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.004s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. Building reference seed array... [0.008s] -Building query seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.006s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.002s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] +Building reference seed array... [0.006s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.008s] +Deallocating memory... [0.003s] +Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. +Building reference seed array... [0.004s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.011s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. +Building reference seed array... [0.002s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. Building reference seed array... [0.007s] Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. Building reference seed array... [0.008s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.006s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] Searching alignments... [0.003s] +Deallocating memory... [0.003s] +Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. Building reference seed array... [0.008s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.004s] Building query seed array... [0.004s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.004s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.001s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.008s] +Building reference seed array... [0.008s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.01s] +Building reference seed array... [0.006s] +Building query seed array... [0.001s] Computing hash join... [0.004s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.01s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] +Building query seed array... [0.011s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.004s] -Computing hash join... [0.01s] +Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. +Building reference seed array... [0.005s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.002s] +Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. +Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. Building reference seed array... [0.001s] Building query seed array... [0.003s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. +Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.009s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.011s] +Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. +Building reference seed array... [0.004s] Building query seed array... [0.007s] Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.012s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.011s] Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.001s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.01s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. +Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. Building reference seed array... [0.008s] Building query seed array... [0.007s] -Computing hash join... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. +Building reference seed array... [0.005s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.014s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.008s] +Building query seed array... [0.007s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.009s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] +Building reference seed array... [0.008s] +Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] -Deallocating memory... [0.001s] +Building reference seed array... [0.008s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.004s] Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.004s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.01s] -Computing hash join... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.01s] -Computing hash join... [0s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.005s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.008s] -Computing hash join... [0.009s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.015s] -Building query seed array... [0.005s] -Computing hash join... [0.003s] +Building reference seed array... [0.008s] +Building query seed array... [0.009s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.005s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.359s] +Computing alignments... [0.364s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -4778,484 +4814,484 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.982s +Total time = 1.693s Reported 64 pairwise alignments, 64 HSPs. 33 queries aligned. -+ diamond blastp --threads 1 --db test/L.faa.diamond --query test/C.faa --out /tmp/tmp.Y5X0dBq0fp/C.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/L.faa.diamond --query test/C.faa --out /tmp/tmp.AAIlZUB5V3/C.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/L.faa.diamond (type: Diamond database, sequences: 40, letters: 26652) Block size = 2000000000 Opening the input file... [0s] Opening the output file... [0s] -Loading query sequences... [0.004s] +Loading query sequences... [0s] Masking queries... [0.003s] Algorithm: Double-indexed -Building query histograms... [0.023s] +Building query histograms... [0.022s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0.001s] Initializing temporary storage... [0s] -Building reference histograms... [0.008s] +Building reference histograms... [0.018s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. Building reference seed array... [0.002s] -Building query seed array... [0.007s] +Building query seed array... [0.004s] Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.003s] Building query seed array... [0.005s] -Computing hash join... [0.002s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.005s] -Computing hash join... [0.01s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.007s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. Building reference seed array... [0.004s] Building query seed array... [0.004s] -Computing hash join... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.008s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. Building reference seed array... [0.003s] -Building query seed array... [0.004s] +Building query seed array... [0.005s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] -Deallocating memory... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.003s] Building query seed array... [0.005s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.01s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] +Building reference seed array... [0.01s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.01s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.009s] -Computing hash join... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.013s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.012s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] Masking low complexity seeds... [0.001s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.011s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.01s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.01s] +Building reference seed array... [0.006s] Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.005s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.011s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. Building reference seed array... [0.007s] -Building query seed array... [0.001s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] -Deallocating memory... [0s] +Building query seed array... [0.008s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.006s] Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.001s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.012s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.011s] +Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. +Building reference seed array... [0.003s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. +Building reference seed array... [0.01s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.001s] Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.013s] +Building reference seed array... [0.001s] +Building query seed array... [0.007s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building query seed array... [0.003s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0.005s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.01s] +Building reference seed array... [0.001s] Building query seed array... [0.002s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.014s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.005s] Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.002s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.576s] +Computing alignments... [0.479s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -5265,17 +5301,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.232s +Total time = 1.711s Reported 133 pairwise alignments, 133 HSPs. 109 queries aligned. -+ diamond blastp --threads 1 --db test/C.faa.diamond --query test/M.faa --out /tmp/tmp.Y5X0dBq0fp/M.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/C.faa.diamond --query test/M.faa --out /tmp/tmp.AAIlZUB5V3/M.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/C.faa.diamond (type: Diamond database, sequences: 109, letters: 51213) @@ -5283,466 +5319,466 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.005s] +Masking queries... [0.001s] Algorithm: Double-indexed -Building query histograms... [0.02s] +Building query histograms... [0.012s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.005s] +Masking reference... [0.002s] Initializing temporary storage... [0s] -Building reference histograms... [0.033s] +Building reference histograms... [0.017s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.012s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.01s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.009s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.006s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.014s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.01s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.007s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.015s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.007s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.011s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.008s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.01s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.005s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.008s] +Computing hash join... [0.007s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.012s] -Building query seed array... [0.004s] -Computing hash join... [0.006s] +Building reference seed array... [0.005s] +Building query seed array... [0.005s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.006s] +Computing hash join... [0.008s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.002s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.01s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.004s] Building query seed array... [0.003s] -Computing hash join... [0s] +Computing hash join... [0.007s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.012s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.001s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.01s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.011s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.001s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.01s] -Computing hash join... [0.007s] +Building reference seed array... [0.008s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.005s] +Building reference seed array... [0.004s] Building query seed array... [0.006s] -Computing hash join... [0s] +Computing hash join... [0.007s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.01s] -Computing hash join... [0s] -Masking low complexity seeds... [0.009s] -Searching alignments... [0.001s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.009s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.012s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.002s] +Building reference seed array... [0.008s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.017s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.006s] +Building reference seed array... [0.007s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.001s] -Computing hash join... [0.007s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.015s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. Building reference seed array... [0.008s] -Building query seed array... [0.011s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.011s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.012s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.016s] -Building query seed array... [0.008s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.001s] -Computing hash join... [0s] +Building reference seed array... [0.008s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.014s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.005s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.444s] +Computing alignments... [0.36s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -5752,484 +5788,484 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.23s +Total time = 1.618s Reported 62 pairwise alignments, 62 HSPs. 33 queries aligned. -+ diamond blastp --threads 1 --db test/M.faa.diamond --query test/C.faa --out /tmp/tmp.Y5X0dBq0fp/C.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/M.faa.diamond --query test/C.faa --out /tmp/tmp.AAIlZUB5V3/C.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 -Opening the database... [0.006s] +Opening the database... [0s] Database: test/M.faa.diamond (type: Diamond database, sequences: 40, letters: 26963) Block size = 2000000000 Opening the input file... [0s] Opening the output file... [0s] -Loading query sequences... [0s] -Masking queries... [0.005s] +Loading query sequences... [0.005s] +Masking queries... [0.002s] Algorithm: Double-indexed -Building query histograms... [0.027s] +Building query histograms... [0.015s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0.005s] Initializing temporary storage... [0s] -Building reference histograms... [0.01s] +Building reference histograms... [0.014s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.014s] +Building reference seed array... [0.007s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.006s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] +Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. +Building reference seed array... [0.001s] +Building query seed array... [0.003s] Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.002s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0.001s] +Searching alignments... [0.003s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.005s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.012s] -Building query seed array... [0.005s] -Computing hash join... [0.01s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.005s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.015s] +Building reference seed array... [0.006s] Building query seed array... [0.004s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.007s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0.004s] +Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. +Building reference seed array... [0.006s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.01s] +Building reference seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. Building reference seed array... [0.006s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. Building reference seed array... [0.006s] Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.004s] Building query seed array... [0.004s] -Computing hash join... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.002s] +Deallocating memory... [0.003s] +Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.009s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. Building reference seed array... [0.007s] Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. Building reference seed array... [0.007s] Building query seed array... [0.002s] Computing hash join... [0.001s] -Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.01s] +Building reference seed array... [0.003s] +Building query seed array... [0.008s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.003s] Building query seed array... [0.007s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. Building reference seed array... [0.008s] -Building query seed array... [0.002s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.01s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] +Building reference seed array... [0.011s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.01s] +Computing hash join... [0.004s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0.008s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0.005s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.011s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.007s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.003s] Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.009s] -Searching alignments... [0.002s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.012s] -Computing hash join... [0s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.007s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.001s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.535s] +Computing alignments... [0.515s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -6239,504 +6275,504 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.185s +Total time = 1.752s Reported 131 pairwise alignments, 131 HSPs. 109 queries aligned. -+ diamond blastp --ignore-warnings --threads 1 --db test/C.faa.diamond --query test/C2.faa --out /tmp/tmp.Y5X0dBq0fp/C2.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --ignore-warnings --threads 1 --db test/C.faa.diamond --query test/C2.faa --out /tmp/tmp.AAIlZUB5V3/C2.faa.vs.C.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 -Opening the database... [0.001s] +Opening the database... [0s] Database: test/C.faa.diamond (type: Diamond database, sequences: 109, letters: 51213) Block size = 2000000000 Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.001s] +Masking queries... [0s] Algorithm: Double-indexed Building query histograms... [0s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0.002s] Initializing temporary storage... [0s] -Building reference histograms... [0.009s] +Building reference histograms... [0.021s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.015s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.01s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.019s] +Computing hash join... [0.019s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0s] +Building reference seed array... [0.009s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.009s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.005s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.008s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.005s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.001s] Building query seed array... [0s] -Computing hash join... [0s] +Computing hash join... [0.004s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.006s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.009s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.004s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.004s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.009s] Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] +Building reference seed array... [0.006s] +Building query seed array... [0.005s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.003s] Building query seed array... [0.001s] -Computing hash join... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.006s] +Building reference seed array... [0.006s] +Building query seed array... [0.002s] +Computing hash join... [0.016s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.011s] +Building reference seed array... [0.022s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.012s] -Building query seed array... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] +Deallocating memory... [0.002s] +Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.001s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.01s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.039s] +Building query seed array... [0.009s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] -Computing hash join... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0s] +Building query seed array... [0s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0.004s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.006s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.011s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.01s] -Building query seed array... [0.004s] -Computing hash join... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. Building reference seed array... [0.005s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.004s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.004s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.01s] -Computing hash join... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Building reference seed array... [0.009s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.003s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.009s] -Searching alignments... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. Building reference seed array... [0.002s] -Building query seed array... [0.012s] -Computing hash join... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.001s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.092s] +Computing alignments... [0.014s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] Deallocating queries... [0s] Loading query sequences... [0s] Closing the input file... [0s] -Closing the output file... [0s] +Closing the output file... [0.001s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.526s +Total time = 1.205s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/C.faa --out /tmp/tmp.Y5X0dBq0fp/C.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/C.faa --out /tmp/tmp.AAIlZUB5V3/C.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/C2.faa.diamond (type: Diamond database, sequences: 2, letters: 726) @@ -6744,466 +6780,466 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.011s] +Masking queries... [0.003s] Algorithm: Double-indexed -Building query histograms... [0.028s] +Building query histograms... [0.011s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0s] Initializing temporary storage... [0s] -Building reference histograms... [0.012s] +Building reference histograms... [0.006s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. Building reference seed array... [0s] -Building query seed array... [0.012s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.008s] +Building query seed array... [0.004s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.02s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.001s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.007s] +Building reference seed array... [0s] Building query seed array... [0.005s] -Computing hash join... [0.01s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] -Deallocating memory... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0.006s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. Building reference seed array... [0.003s] Building query seed array... [0.005s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.002s] Building query seed array... [0.005s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0.006s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.01s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.005s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0s] +Building query seed array... [0.002s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.008s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0.005s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. Building reference seed array... [0s] -Building query seed array... [0.005s] -Computing hash join... [0.004s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. Building reference seed array... [0.003s] Building query seed array... [0.008s] -Computing hash join... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.005s] -Computing hash join... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.008s] -Deallocating memory... [0.003s] +Searching alignments... [0s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.01s] -Building query seed array... [0.003s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.009s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0s] -Building query seed array... [0.006s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.008s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.01s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.009s] +Building reference seed array... [0.003s] Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. +Building reference seed array... [0.005s] +Building query seed array... [0.007s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.002s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.002s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0s] +Building reference seed array... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.002s] +Building reference seed array... [0.003s] Building query seed array... [0.006s] -Computing hash join... [0s] +Computing hash join... [0.005s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.002s] -Computing hash join... [0.008s] +Building reference seed array... [0.001s] +Building query seed array... [0.015s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.006s] +Building query seed array... [0.002s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] -Computing hash join... [0s] +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.011s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.004s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. Building reference seed array... [0.005s] -Building query seed array... [0.008s] -Computing hash join... [0s] +Building query seed array... [0.002s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0s] -Building query seed array... [0.013s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Building query seed array... [0.001s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.004s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.01s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building query seed array... [0.005s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.006s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0.001s] Masking low complexity seeds... [0.003s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.123s] +Computing alignments... [0.046s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -7213,17 +7249,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.766s +Total time = 1.195s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ diamond blastp --threads 1 --db test/E.faa.diamond --query test/L.faa --out /tmp/tmp.Y5X0dBq0fp/L.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/E.faa.diamond --query test/L.faa --out /tmp/tmp.AAIlZUB5V3/L.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/E.faa.diamond (type: Diamond database, sequences: 72, letters: 54509) @@ -7231,466 +7267,466 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.006s] +Masking queries... [0.002s] Algorithm: Double-indexed -Building query histograms... [0.021s] +Building query histograms... [0.014s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.002s] +Masking reference... [0.005s] Initializing temporary storage... [0s] -Building reference histograms... [0.028s] +Building reference histograms... [0.057s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] +Building reference seed array... [0.019s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. Building reference seed array... [0.007s] -Building query seed array... [0.002s] -Computing hash join... [0s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.008s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.006s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.011s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.001s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.01s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. Building reference seed array... [0.002s] -Building query seed array... [0.001s] -Computing hash join... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.008s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.001s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.014s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] -Deallocating memory... [0s] +Deallocating memory... [0.005s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.002s] +Building reference seed array... [0.024s] Building query seed array... [0.004s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.014s] -Building query seed array... [0.001s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.004s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.004s] Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] -Computing hash join... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. +Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. Building reference seed array... [0.002s] -Building query seed array... [0.007s] +Building query seed array... [0.002s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.008s] +Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. +Building reference seed array... [0.01s] Building query seed array... [0.004s] -Computing hash join... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. +Building reference seed array... [0.005s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.008s] +Building query seed array... [0.007s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.012s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.009s] -Computing hash join... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.002s] -Computing hash join... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.001s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.009s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.008s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0.01s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] +Building reference seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.002s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.01s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. Building reference seed array... [0.008s] Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0.009s] -Masking low complexity seeds... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.005s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.002s] +Building reference seed array... [0.008s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.007s] -Computing hash join... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.016s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.001s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0.006s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.005s] Building query seed array... [0.007s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.855s] +Computing alignments... [0.783s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -7700,484 +7736,484 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.348s +Total time = 2.088s Reported 489 pairwise alignments, 489 HSPs. 32 queries aligned. -+ diamond blastp --threads 1 --db test/L.faa.diamond --query test/E.faa --out /tmp/tmp.Y5X0dBq0fp/E.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/L.faa.diamond --query test/E.faa --out /tmp/tmp.AAIlZUB5V3/E.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/L.faa.diamond (type: Diamond database, sequences: 40, letters: 26652) Block size = 2000000000 Opening the input file... [0s] Opening the output file... [0s] -Loading query sequences... [0.004s] -Masking queries... [0.005s] +Loading query sequences... [0.005s] +Masking queries... [0.003s] Algorithm: Double-indexed -Building query histograms... [0.025s] +Building query histograms... [0.02s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.004s] +Masking reference... [0.001s] Initializing temporary storage... [0s] -Building reference histograms... [0.012s] +Building reference histograms... [0.013s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.01s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.014s] -Building query seed array... [0.005s] -Computing hash join... [0.007s] +Building reference seed array... [0.006s] +Building query seed array... [0.008s] +Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.003s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.005s] +Building reference seed array... [0.003s] Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. Building reference seed array... [0.002s] -Building query seed array... [0.005s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.01s] -Computing hash join... [0.008s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.009s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.002s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.007s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] -Deallocating memory... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] +Deallocating memory... [0.002s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.005s] -Computing hash join... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.008s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.011s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.015s] -Building query seed array... [0.008s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.005s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.006s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. +Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. Building reference seed array... [0.001s] -Building query seed array... [0.005s] +Building query seed array... [0.003s] Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. Building reference seed array... [0.003s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. Building reference seed array... [0.007s] -Building query seed array... [0.005s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] -Deallocating memory... [0s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] Computing hash join... [0.004s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0.006s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. +Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. Building reference seed array... [0.007s] -Building query seed array... [0.006s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.006s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.005s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.008s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.001s] +Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.006s] +Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. +Building reference seed array... [0.003s] +Building query seed array... [0.005s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] +Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. +Building reference seed array... [0.001s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.005s] +Masking low complexity seeds... [0.001s] Searching alignments... [0.006s] +Deallocating memory... [0.003s] +Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [1.303s] +Computing alignments... [1.359s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -8187,17 +8223,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.911s +Total time = 2.479s Reported 1173 pairwise alignments, 1173 HSPs. 72 queries aligned. -+ diamond blastp --threads 1 --db test/E.faa.diamond --query test/M.faa --out /tmp/tmp.Y5X0dBq0fp/M.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/E.faa.diamond --query test/M.faa --out /tmp/tmp.AAIlZUB5V3/M.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/E.faa.diamond (type: Diamond database, sequences: 72, letters: 54509) @@ -8205,466 +8241,466 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.003s] +Masking queries... [0.001s] Algorithm: Double-indexed -Building query histograms... [0.011s] +Building query histograms... [0.009s] Seeking in database... [0s] -Loading reference sequences... [0s] +Loading reference sequences... [0.003s] Masking reference... [0.002s] Initializing temporary storage... [0s] -Building reference histograms... [0.02s] +Building reference histograms... [0.021s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.012s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.002s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.007s] Building query seed array... [0.003s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.003s] Building query seed array... [0.007s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.008s] +Building query seed array... [0.011s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.001s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.002s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.001s] Building query seed array... [0.001s] -Computing hash join... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] -Deallocating memory... [0.002s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.001s] -Computing hash join... [0.002s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] -Deallocating memory... [0.002s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.011s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.01s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.001s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] -Computing hash join... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. Building reference seed array... [0.004s] Building query seed array... [0.003s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. Building reference seed array... [0.004s] Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] +Building reference seed array... [0.005s] +Building query seed array... [0.005s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.01s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.005s] +Building reference seed array... [0.001s] Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. Building reference seed array... [0.004s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.012s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.001s] -Computing hash join... [0.005s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.005s] +Building reference seed array... [0.01s] Building query seed array... [0.002s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.001s] -Computing hash join... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] -Deallocating memory... [0.003s] +Searching alignments... [0.005s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.005s] Building query seed array... [0.002s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] -Deallocating memory... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.639s] +Computing alignments... [0.687s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -8674,17 +8710,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.899s +Total time = 1.477s Reported 489 pairwise alignments, 489 HSPs. 32 queries aligned. -+ diamond blastp --threads 1 --db test/M.faa.diamond --query test/E.faa --out /tmp/tmp.Y5X0dBq0fp/E.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/M.faa.diamond --query test/E.faa --out /tmp/tmp.AAIlZUB5V3/E.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/M.faa.diamond (type: Diamond database, sequences: 40, letters: 26963) @@ -8692,466 +8728,466 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.003s] +Masking queries... [0.005s] Algorithm: Double-indexed Building query histograms... [0.017s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0.003s] Initializing temporary storage... [0s] -Building reference histograms... [0.011s] +Building reference histograms... [0.015s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.005s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. Building reference seed array... [0.001s] -Building query seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Masking low complexity seeds... [0.006s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.002s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0.015s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.001s] Building query seed array... [0.002s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.004s] Building query seed array... [0.004s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] +Building reference seed array... [0.01s] +Building query seed array... [0.004s] Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.014s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0.008s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.007s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.003s] -Computing hash join... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.011s] Building query seed array... [0.002s] -Computing hash join... [0s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. Building reference seed array... [0.003s] -Building query seed array... [0.001s] +Building query seed array... [0.004s] Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.006s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. Building reference seed array... [0.003s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building query seed array... [0.008s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.001s] Building query seed array... [0.007s] -Computing hash join... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.005s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.005s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.01s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.009s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.007s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.007s] Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.009s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. +Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. Building reference seed array... [0.007s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.012s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.01s] -Building query seed array... [0.015s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.009s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0.004s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.012s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.008s] -Searching alignments... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.004s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. Building reference seed array... [0.007s] Building query seed array... [0.005s] -Computing hash join... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.005s] -Computing hash join... [0s] +Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.002s] +Deallocating memory... [0.006s] +Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.005s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.013s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.017s] +Building reference seed array... [0.005s] Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.008s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.016s] -Building query seed array... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.016s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [1.899s] +Computing alignments... [1.348s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -9161,17 +9197,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 3.353s +Total time = 2.55s Reported 1173 pairwise alignments, 1173 HSPs. 72 queries aligned. -+ diamond blastp --ignore-warnings --threads 1 --db test/E.faa.diamond --query test/C2.faa --out /tmp/tmp.Y5X0dBq0fp/C2.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --ignore-warnings --threads 1 --db test/E.faa.diamond --query test/C2.faa --out /tmp/tmp.AAIlZUB5V3/C2.faa.vs.E.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/E.faa.diamond (type: Diamond database, sequences: 72, letters: 54509) @@ -9181,464 +9217,464 @@ Loading query sequences... [0s] Masking queries... [0s] Algorithm: Double-indexed -Building query histograms... [0.008s] +Building query histograms... [0.004s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.006s] +Masking reference... [0.008s] Initializing temporary storage... [0s] -Building reference histograms... [0.021s] +Building reference histograms... [0.019s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.009s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.002s] +Building reference seed array... [0.001s] Building query seed array... [0s] -Computing hash join... [0.008s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.073s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.015s] -Building query seed array... [0.019s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.027s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.004s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.034s] -Building query seed array... [0.015s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.03s] -Building query seed array... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.009s] -Computing hash join... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.003s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.001s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.004s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.019s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.011s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.012s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.01s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.011s] -Computing hash join... [0.028s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. Building reference seed array... [0.008s] -Building query seed array... [0.031s] +Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.031s] -Building query seed array... [0.029s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.011s] +Building reference seed array... [0.007s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.01s] +Building reference seed array... [0.008s] +Building query seed array... [0.007s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.012s] -Building query seed array... [0.01s] +Building reference seed array... [0.004s] +Building query seed array... [0.009s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. Building reference seed array... [0.011s] -Building query seed array... [0.017s] -Computing hash join... [0.001s] +Building query seed array... [0.005s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.011s] +Building reference seed array... [0.008s] +Building query seed array... [0.007s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.007s] Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.011s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. Building reference seed array... [0.008s] -Building query seed array... [0s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.008s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.004s] Building query seed array... [0s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.006s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.007s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.006s] Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.001s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.012s] -Building query seed array... [0.003s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.002s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.004s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.01s] -Computing hash join... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.005s] -Computing hash join... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.006s] -Deallocating memory... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.012s] -Building query seed array... [0.011s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] +Deallocating memory... [0.003s] +Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. +Building reference seed array... [0.004s] +Building query seed array... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.006s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. Building reference seed array... [0.004s] Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.006s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.011s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.001s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.075s] +Computing alignments... [0.055s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -9648,164 +9684,164 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.047s +Total time = 0.925s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/E.faa --out /tmp/tmp.Y5X0dBq0fp/E.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/E.faa --out /tmp/tmp.AAIlZUB5V3/E.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/C2.faa.diamond (type: Diamond database, sequences: 2, letters: 726) Block size = 2000000000 Opening the input file... [0s] Opening the output file... [0s] -Loading query sequences... [0.005s] -Masking queries... [0.006s] +Loading query sequences... [0s] +Masking queries... [0.003s] Algorithm: Double-indexed -Building query histograms... [0.022s] +Building query histograms... [0.02s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.002s] +Masking reference... [0s] Initializing temporary storage... [0s] -Building reference histograms... [0s] -Allocating buffers... [0s] +Building reference histograms... [0.002s] +Allocating buffers... [0.003s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. Building reference seed array... [0s] -Building query seed array... [0.013s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0s] -Building query seed array... [0.009s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.014s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.004s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.007s] +Building reference seed array... [0s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.009s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building reference seed array... [0s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0.006s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.015s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. Building reference seed array... [0s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.006s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. +Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.006s] -Computing hash join... [0s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.007s] +Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. +Building reference seed array... [0.002s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0.002s] +Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.009s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.018s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. +Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] +Searching alignments... [0s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. +Building reference seed array... [0.002s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. @@ -9813,319 +9849,319 @@ Building query seed array... [0.005s] Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. Building reference seed array... [0s] -Building query seed array... [0.001s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.01s] -Building query seed array... [0.006s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.014s] -Computing hash join... [0s] -Masking low complexity seeds... [0.01s] +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.005s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.01s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.011s] +Building reference seed array... [0s] Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.008s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.002s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0.002s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. Building reference seed array... [0.006s] Building query seed array... [0.006s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.004s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0s] -Building query seed array... [0.01s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Building reference seed array... [0.01s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.006s] -Computing hash join... [0.009s] -Masking low complexity seeds... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.005s] +Building reference seed array... [0s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0s] -Building query seed array... [0.001s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.006s] +Building query seed array... [0.013s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.002s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] +Building reference seed array... [0s] +Building query seed array... [0.004s] Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.015s] +Building reference seed array... [0.003s] Building query seed array... [0.005s] -Computing hash join... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. Building reference seed array... [0s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.004s] Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.003s] Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.012s] +Building reference seed array... [0s] Building query seed array... [0.007s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.003s] Building query seed array... [0.002s] -Computing hash join... [0s] +Computing hash join... [0.001s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.005s] -Computing hash join... [0.01s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.003s] Building query seed array... [0.005s] -Computing hash join... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.002s] -Computing hash join... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.012s] -Building query seed array... [0.003s] -Computing hash join... [0.008s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.009s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.015s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.139s] +Computing alignments... [0.043s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -10135,17 +10171,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.815s +Total time = 1.061s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ diamond blastp --threads 1 --db test/L.faa.diamond --query test/M.faa --out /tmp/tmp.Y5X0dBq0fp/M.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/L.faa.diamond --query test/M.faa --out /tmp/tmp.AAIlZUB5V3/M.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/L.faa.diamond (type: Diamond database, sequences: 40, letters: 26652) @@ -10153,153 +10189,153 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.002s] +Masking queries... [0.001s] Algorithm: Double-indexed -Building query histograms... [0.024s] +Building query histograms... [0.011s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0.004s] Initializing temporary storage... [0s] -Building reference histograms... [0.022s] +Building reference histograms... [0.011s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.016s] +Searching alignments... [0.012s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.001s] -Computing hash join... [0.009s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.008s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.001s] -Computing hash join... [0.002s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.011s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.004s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.013s] -Computing hash join... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. Building reference seed array... [0.004s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.008s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.001s] Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0.007s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] +Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Searching alignments... [0.007s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.016s] -Building query seed array... [0.008s] +Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.015s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.012s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.012s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. Building reference seed array... [0.004s] -Building query seed array... [0.009s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.011s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.011s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.001s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. @@ -10307,312 +10343,312 @@ Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0.002s] -Searching alignments... [0.006s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.001s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.01s] -Building query seed array... [0.01s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.006s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.005s] -Computing hash join... [0.005s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.015s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.01s] -Computing hash join... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.006s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. +Building reference seed array... [0.008s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.002s] -Computing hash join... [0s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.007s] +Building reference seed array... [0.009s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.004s] Building query seed array... [0.001s] -Computing hash join... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. Building reference seed array... [0.004s] Building query seed array... [0.007s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.015s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.013s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.004s] Building query seed array... [0.001s] -Computing hash join... [0.005s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.01s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.011s] +Masking low complexity seeds... [0s] +Searching alignments... [0.013s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.008s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.011s] -Computing hash join... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.006s] Masking low complexity seeds... [0s] -Searching alignments... [0.013s] +Searching alignments... [0.014s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.016s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.01s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.011s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.006s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.004s] Building query seed array... [0.001s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.011s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.012s] -Building query seed array... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.008s] Computing hash join... [0.007s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.012s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.008s] +Building reference seed array... [0.006s] +Building query seed array... [0.005s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.011s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. Building reference seed array... [0.001s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.011s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.005s] Building query seed array... [0.003s] -Computing hash join... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.012s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.014s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.005s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.008s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.008s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] +Deallocating memory... [0.004s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.006s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.011s] -Computing hash join... [0.011s] -Masking low complexity seeds... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.016s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.012s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.017s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.011s] +Building reference seed array... [0.002s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.645s] +Computing alignments... [0.625s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -10622,17 +10658,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.68s +Total time = 1.951s Reported 390 pairwise alignments, 390 HSPs. 39 queries aligned. -+ diamond blastp --threads 1 --db test/M.faa.diamond --query test/L.faa --out /tmp/tmp.Y5X0dBq0fp/L.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/M.faa.diamond --query test/L.faa --out /tmp/tmp.AAIlZUB5V3/L.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/M.faa.diamond (type: Diamond database, sequences: 40, letters: 26963) @@ -10640,466 +10676,466 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.006s] +Masking queries... [0.001s] Algorithm: Double-indexed -Building query histograms... [0.018s] +Building query histograms... [0.011s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.004s] +Masking reference... [0.001s] Initializing temporary storage... [0s] -Building reference histograms... [0.013s] +Building reference histograms... [0.005s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.001s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.008s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.002s] +Building reference seed array... [0.011s] Building query seed array... [0.001s] -Computing hash join... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.008s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.006s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.004s] Building query seed array... [0.001s] -Computing hash join... [0s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.01s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. Building reference seed array... [0.005s] -Building query seed array... [0.001s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.004s] -Computing hash join... [0s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.001s] -Computing hash join... [0.006s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] +Masking low complexity seeds... [0s] Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. Building reference seed array... [0.005s] Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. Building reference seed array... [0.005s] -Building query seed array... [0.007s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.001s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. Building reference seed array... [0.005s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.003s] +Building reference seed array... [0.008s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. Building reference seed array... [0.005s] -Building query seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.008s] Building query seed array... [0.003s] -Computing hash join... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. Building reference seed array... [0.005s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.005s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0.001s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.012s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.018s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.011s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. Building reference seed array... [0.002s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.005s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.011s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.015s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.009s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.008s] +Building reference seed array... [0.005s] Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.011s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Building reference seed array... [0.005s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.009s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.009s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. +Building reference seed array... [0.005s] Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] +Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. +Building reference seed array... [0.005s] +Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0.007s] Searching alignments... [0.005s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] -Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. Building reference seed array... [0.005s] -Building query seed array... [0.005s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] +Building reference seed array... [0.002s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.011s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.003s] +Building reference seed array... [0.009s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.013s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.011s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.008s] Building query seed array... [0.001s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.009s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0.006s] -Searching alignments... [0.011s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.005s] Building query seed array... [0.001s] -Computing hash join... [0.011s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.009s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] -Deallocating memory... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] +Deallocating memory... [0.004s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.011s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.005s] +Building query seed array... [0.009s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.012s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.005s] +Building reference seed array... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.012s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.008s] +Building reference seed array... [0.004s] +Building query seed array... [0.005s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.69s] +Computing alignments... [0.612s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -11109,17 +11145,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 2.552s +Total time = 1.84s Reported 390 pairwise alignments, 390 HSPs. 40 queries aligned. -+ diamond blastp --ignore-warnings --threads 1 --db test/L.faa.diamond --query test/C2.faa --out /tmp/tmp.Y5X0dBq0fp/C2.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --ignore-warnings --threads 1 --db test/L.faa.diamond --query test/C2.faa --out /tmp/tmp.AAIlZUB5V3/C2.faa.vs.L.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/L.faa.diamond (type: Diamond database, sequences: 40, letters: 26652) @@ -11127,192 +11163,192 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.002s] +Masking queries... [0.001s] Algorithm: Double-indexed -Building query histograms... [0.008s] +Building query histograms... [0.004s] Seeking in database... [0s] Loading reference sequences... [0s] -Masking reference... [0.004s] +Masking reference... [0.001s] Initializing temporary storage... [0s] -Building reference histograms... [0.026s] +Building reference histograms... [0.01s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.002s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.01s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.003s] Building query seed array... [0s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. Building reference seed array... [0.004s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.001s] +Building reference seed array... [0.007s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.008s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. Building reference seed array... [0.001s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] +Building reference seed array... [0.004s] +Building query seed array... [0s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.003s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0s] +Building reference seed array... [0.002s] Building query seed array... [0s] Computing hash join... [0s] Masking low complexity seeds... [0s] @@ -11321,272 +11357,272 @@ Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. Building reference seed array... [0s] Building query seed array... [0s] -Computing hash join... [0s] +Computing hash join... [0.004s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.005s] -Building query seed array... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.007s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. Building reference seed array... [0.003s] Building query seed array... [0.003s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.001s] -Building query seed array... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.009s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.006s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.01s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.003s] -Computing hash join... [0.008s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.004s] Building query seed array... [0.003s] Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.012s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.006s] +Building query seed array... [0s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. Building reference seed array... [0.007s] -Building query seed array... [0.011s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.006s] +Building reference seed array... [0.003s] Building query seed array... [0.007s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.015s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] +Building reference seed array... [0.005s] +Building query seed array... [0s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] +Deallocating memory... [0.003s] +Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. +Building reference seed array... [0.003s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.015s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. Building reference seed array... [0.005s] -Building query seed array... [0.015s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.001s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.008s] -Computing hash join... [0s] +Building reference seed array... [0.012s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.004s] Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. Building reference seed array... [0.001s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0.004s] +Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Building query seed array... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.01s] -Searching alignments... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.006s] -Building query seed array... [0.004s] -Computing hash join... [0.007s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.001s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.073s] +Computing alignments... [0.088s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -11596,484 +11632,484 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.707s +Total time = 0.975s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/L.faa --out /tmp/tmp.Y5X0dBq0fp/L.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/L.faa --out /tmp/tmp.AAIlZUB5V3/L.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/C2.faa.diamond (type: Diamond database, sequences: 2, letters: 726) Block size = 2000000000 -Opening the input file... [0s] +Opening the input file... [0.006s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.007s] +Masking queries... [0.001s] Algorithm: Double-indexed -Building query histograms... [0.02s] +Building query histograms... [0.004s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0s] Initializing temporary storage... [0s] -Building reference histograms... [0.007s] +Building reference histograms... [0s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.006s] +Building reference seed array... [0s] +Building query seed array... [0s] Computing hash join... [0.001s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.004s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.001s] -Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Deallocating memory... [0.002s] +Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.006s] +Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.004s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. +Building reference seed array... [0s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.007s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.01s] +Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.001s] Searching alignments... [0s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. +Building reference seed array... [0.009s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.008s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.007s] Building query seed array... [0.008s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.006s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.009s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.01s] -Building query seed array... [0.008s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.008s] +Building reference seed array... [0.003s] +Building query seed array... [0.007s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.004s] +Building reference seed array... [0.007s] +Building query seed array... [0.008s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0.005s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.004s] -Computing hash join... [0.001s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] -Deallocating memory... [0s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0.001s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] +Building reference seed array... [0s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.008s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.007s] +Building reference seed array... [0s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.005s] -Building query seed array... [0.006s] -Computing hash join... [0.007s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. Building reference seed array... [0s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.009s] +Computing hash join... [0.004s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.007s] +Building reference seed array... [0s] Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.008s] +Building query seed array... [0.004s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. Building reference seed array... [0.006s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.003s] Building query seed array... [0.006s] -Computing hash join... [0.001s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.002s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] +Building reference seed array... [0.009s] +Building query seed array... [0.005s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.008s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.006s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.001s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.002s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.002s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] Searching alignments... [0.006s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.005s] +Building reference seed array... [0s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.006s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.011s] +Building reference seed array... [0s] Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.009s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. Building reference seed array... [0s] Building query seed array... [0.004s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.006s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0.001s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.01s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.009s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.008s] +Building reference seed array... [0s] Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.008s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. Building reference seed array... [0.004s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.005s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.119s] +Computing alignments... [0.051s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -12083,17 +12119,17 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.811s +Total time = 0.935s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ diamond blastp --ignore-warnings --threads 1 --db test/M.faa.diamond --query test/C2.faa --out /tmp/tmp.Y5X0dBq0fp/C2.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --ignore-warnings --threads 1 --db test/M.faa.diamond --query test/C2.faa --out /tmp/tmp.AAIlZUB5V3/C2.faa.vs.M.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/M.faa.diamond (type: Diamond database, sequences: 40, letters: 26963) @@ -12101,466 +12137,466 @@ Opening the input file... [0s] Opening the output file... [0s] Loading query sequences... [0s] -Masking queries... [0.003s] +Masking queries... [0s] Algorithm: Double-indexed -Building query histograms... [0.007s] +Building query histograms... [0s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0.004s] Initializing temporary storage... [0s] -Building reference histograms... [0.022s] +Building reference histograms... [0.011s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.009s] +Building reference seed array... [0.003s] Building query seed array... [0.002s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] -Deallocating memory... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] +Deallocating memory... [0.002s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.011s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. Building reference seed array... [0.003s] -Building query seed array... [0.006s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.007s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.006s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building query seed array... [0s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.011s] +Building reference seed array... [0.003s] Building query seed array... [0.002s] -Computing hash join... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. -Building reference seed array... [0.001s] -Building query seed array... [0s] -Computing hash join... [0.002s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0s] -Building query seed array... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0s] -Building query seed array... [0.01s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. -Building reference seed array... [0.01s] -Building query seed array... [0.005s] -Computing hash join... [0s] -Masking low complexity seeds... [0.009s] -Searching alignments... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.011s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.01s] +Building reference seed array... [0.008s] +Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.008s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. Building reference seed array... [0.007s] -Building query seed array... [0.011s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.01s] -Searching alignments... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. Building reference seed array... [0.001s] -Building query seed array... [0.009s] -Computing hash join... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] -Searching alignments... [0.002s] +Building reference seed array... [0.007s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.004s] -Building query seed array... [0.006s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. -Building reference seed array... [0.009s] +Building reference seed array... [0.004s] Building query seed array... [0.002s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Computing hash join... [0.007s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.01s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.006s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0.01s] -Building query seed array... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] +Building reference seed array... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0.003s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.006s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.007s] +Masking low complexity seeds... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0.001s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.009s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.006s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.007s] +Building reference seed array... [0.004s] +Building query seed array... [0.003s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. Building reference seed array... [0.008s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] +Building query seed array... [0.003s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.008s] Building query seed array... [0s] Computing hash join... [0s] -Masking low complexity seeds... [0s] -Searching alignments... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. Building reference seed array... [0.001s] -Building query seed array... [0.006s] +Building query seed array... [0.002s] Computing hash join... [0.007s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.004s] -Building query seed array... [0.006s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] Masking low complexity seeds... [0.003s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.008s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.001s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0.001s] Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] +Building reference seed array... [0.009s] +Building query seed array... [0s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.008s] -Building query seed array... [0.007s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Searching alignments... [0.01s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.002s] -Computing hash join... [0.005s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.007s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.01s] -Building query seed array... [0.01s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.005s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.003s] Building query seed array... [0.003s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. -Building reference seed array... [0.005s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Building reference seed array... [0.001s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.001s] +Building reference seed array... [0.008s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.005s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.072s] +Computing alignments... [0.055s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -12570,484 +12606,484 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.686s +Total time = 0.966s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/M.faa --out /tmp/tmp.Y5X0dBq0fp/M.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive ++ diamond blastp --threads 1 --db test/C2.faa.diamond --query test/M.faa --out /tmp/tmp.AAIlZUB5V3/M.faa.vs.C2.faa.diamond -e 1e-05 --outfmt 6 --sensitive diamond v2.1.14.168 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 1 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) -Temporary directory: /tmp/tmp.Y5X0dBq0fp +Temporary directory: /tmp/tmp.AAIlZUB5V3 #Target sequences to report alignments for: 25 Opening the database... [0s] Database: test/C2.faa.diamond (type: Diamond database, sequences: 2, letters: 726) Block size = 2000000000 Opening the input file... [0s] Opening the output file... [0s] -Loading query sequences... [0s] -Masking queries... [0.011s] +Loading query sequences... [0.005s] +Masking queries... [0.002s] Algorithm: Double-indexed -Building query histograms... [0.019s] +Building query histograms... [0.02s] Seeking in database... [0s] Loading reference sequences... [0s] Masking reference... [0s] Initializing temporary storage... [0s] -Building reference histograms... [0.006s] +Building reference histograms... [0.003s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4. -Building reference seed array... [0.011s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.004s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] -Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.012s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4. +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4. +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4. -Building reference seed array... [0.003s] +Building reference seed array... [0s] Building query seed array... [0.004s] -Computing hash join... [0.003s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4. Building reference seed array... [0.002s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4. -Building reference seed array... [0.004s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.003s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.008s] +Building reference seed array... [0.005s] +Building query seed array... [0.005s] Computing hash join... [0s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.006s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4. Building reference seed array... [0s] -Building query seed array... [0.008s] +Building query seed array... [0.003s] Computing hash join... [0s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.006s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0s] +Building reference seed array... [0s] +Building query seed array... [0.005s] +Computing hash join... [0.001s] +Masking low complexity seeds... [0.006s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] +Building reference seed array... [0s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.007s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4. Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.007s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.006s] -Computing hash join... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4. -Building reference seed array... [0s] -Building query seed array... [0s] -Computing hash join... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.006s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4. -Building reference seed array... [0s] -Building query seed array... [0.002s] -Computing hash join... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] -Searching alignments... [0.001s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4. Building reference seed array... [0s] -Building query seed array... [0.003s] +Building query seed array... [0.004s] Computing hash join... [0s] -Masking low complexity seeds... [0s] +Masking low complexity seeds... [0.002s] Searching alignments... [0s] -Deallocating memory... [0.001s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4. -Building reference seed array... [0s] -Building query seed array... [0.002s] +Building reference seed array... [0.006s] +Building query seed array... [0.004s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.003s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4. -Building reference seed array... [0.014s] -Building query seed array... [0.002s] -Computing hash join... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.003s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0s] +Building reference seed array... [0s] +Building query seed array... [0.001s] +Computing hash join... [0.001s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] -Deallocating memory... [0s] +Searching alignments... [0.003s] +Deallocating memory... [0.003s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4. -Building reference seed array... [0.002s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4. -Building reference seed array... [0.002s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0.004s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.003s] +Building query seed array... [0.005s] +Computing hash join... [0.006s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4. +Building reference seed array... [0.005s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.003s] +Deallocating memory... [0s] +Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4. +Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. Building reference seed array... [0.002s] -Building query seed array... [0.008s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] -Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.004s] -Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.005s] +Building reference seed array... [0s] +Building query seed array... [0.007s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] +Building reference seed array... [0.002s] +Building query seed array... [0.004s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4. -Building reference seed array... [0s] -Building query seed array... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.001s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.004s] +Building query seed array... [0.002s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.003s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4. Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0s] -Searching alignments... [0.007s] +Building query seed array... [0.002s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0.001s] +Searching alignments... [0.004s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4. -Building reference seed array... [0.003s] +Building reference seed array... [0.007s] Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.004s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] +Building reference seed array... [0.011s] +Building query seed array... [0.004s] Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4. -Building reference seed array... [0.002s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] +Building reference seed array... [0.001s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] Masking low complexity seeds... [0s] Searching alignments... [0.002s] -Deallocating memory... [0.003s] +Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4. Building reference seed array... [0.003s] -Building query seed array... [0.001s] -Computing hash join... [0.006s] +Building query seed array... [0.004s] +Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.006s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] +Building reference seed array... [0.007s] +Building query seed array... [0.004s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.01s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.005s] -Computing hash join... [0.002s] -Masking low complexity seeds... [0.005s] -Searching alignments... [0.004s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4. Building reference seed array... [0s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building query seed array... [0.008s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.009s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4. -Building reference seed array... [0.005s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.003s] +Building query seed array... [0.002s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4. -Building reference seed array... [0.005s] +Building reference seed array... [0.007s] Building query seed array... [0.007s] -Computing hash join... [0.004s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.007s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.001s] -Searching alignments... [0.004s] +Building reference seed array... [0.01s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] +Building reference seed array... [0.007s] +Building query seed array... [0.001s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building reference seed array... [0.002s] +Building query seed array... [0.001s] +Computing hash join... [0.006s] +Masking low complexity seeds... [0s] +Searching alignments... [0.002s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4. -Building reference seed array... [0.001s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.007s] -Searching alignments... [0.002s] +Building reference seed array... [0.006s] +Building query seed array... [0.006s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] +Building reference seed array... [0.005s] +Building query seed array... [0.006s] Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Masking low complexity seeds... [0s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4. -Building reference seed array... [0.004s] -Building query seed array... [0.008s] +Building reference seed array... [0.006s] +Building query seed array... [0.006s] Computing hash join... [0s] Masking low complexity seeds... [0s] -Searching alignments... [0.004s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.005s] +Computing hash join... [0s] +Masking low complexity seeds... [0.002s] +Searching alignments... [0.006s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4. Building reference seed array... [0.007s] Building query seed array... [0.008s] -Computing hash join... [0.007s] +Computing hash join... [0.003s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4. -Building reference seed array... [0.003s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.006s] +Building reference seed array... [0.007s] +Building query seed array... [0.007s] +Computing hash join... [0.005s] +Masking low complexity seeds... [0.008s] +Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4. -Building reference seed array... [0.007s] -Building query seed array... [0.008s] -Computing hash join... [0s] -Masking low complexity seeds... [0.002s] +Building reference seed array... [0s] +Building query seed array... [0.004s] +Computing hash join... [0.003s] +Masking low complexity seeds... [0.004s] Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4. -Building reference seed array... [0.007s] +Building reference seed array... [0s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.004s] -Searching alignments... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.003s] +Searching alignments... [0.005s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4. Building reference seed array... [0s] -Building query seed array... [0.008s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.002s] -Searching alignments... [0.003s] +Building query seed array... [0.004s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4. -Building reference seed array... [0.011s] -Building query seed array... [0.004s] +Building reference seed array... [0s] +Building query seed array... [0.007s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4. -Building reference seed array... [0.001s] +Building reference seed array... [0.004s] Building query seed array... [0.001s] -Computing hash join... [0.004s] +Computing hash join... [0.002s] Masking low complexity seeds... [0.003s] -Searching alignments... [0.009s] +Searching alignments... [0.001s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4. -Building reference seed array... [0.003s] -Building query seed array... [0.007s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0.005s] +Building reference seed array... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4. Building reference seed array... [0s] -Building query seed array... [0.006s] -Computing hash join... [0.007s] -Masking low complexity seeds... [0.003s] -Searching alignments... [0s] +Building query seed array... [0.003s] +Computing hash join... [0s] +Masking low complexity seeds... [0s] +Searching alignments... [0.008s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4. -Building reference seed array... [0.012s] +Building reference seed array... [0.003s] Building query seed array... [0.004s] -Computing hash join... [0.003s] -Masking low complexity seeds... [0s] +Computing hash join... [0.002s] +Masking low complexity seeds... [0.001s] Searching alignments... [0s] Deallocating memory... [0s] Deallocating buffers... [0s] Clearing query masking... [0s] -Computing alignments... [0.149s] +Computing alignments... [0.055s] Deallocating reference... [0s] Loading reference sequences... [0s] Deallocating buffers... [0s] @@ -13057,10 +13093,10 @@ Closing the output file... [0s] Closing the database... [0s] Cleaning up... [0s] -Total time = 1.572s +Total time = 1.111s Reported 1 pairwise alignments, 1 HSPs. 1 queries aligned. -+ rm -rf /tmp/tmp.Y5X0dBq0fp ++ rm -rf /tmp/tmp.AAIlZUB5V3 make[1]: Leaving directory '/build/reproducible-path/diamond-aligner-2.1.14' create-stamp debian/debhelper-build-stamp dh_prep @@ -13101,8 +13137,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'diamond-aligner-dbgsym' in '../diamond-aligner-dbgsym_2.1.14-1_arm64.deb'. dpkg-deb: building package 'diamond-aligner' in '../diamond-aligner_2.1.14-1_arm64.deb'. +dpkg-deb: building package 'diamond-aligner-dbgsym' in '../diamond-aligner-dbgsym_2.1.14-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../diamond-aligner_2.1.14-1_arm64.buildinfo dpkg-genchanges --build=binary -O../diamond-aligner_2.1.14-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -13110,12 +13146,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/848080/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/1073135 and its subdirectories -I: Current time: Mon Nov 23 02:25:55 -12 2026 -I: pbuilder-time-stamp: 1795443955 +I: removing directory /srv/workspace/pbuilder/848080 and its subdirectories +I: Current time: Tue Oct 21 22:08:19 +14 2025 +I: pbuilder-time-stamp: 1761034099