Diff of the two buildlogs: -- --- b1/build.log 2024-10-21 01:31:02.880830241 +0000 +++ b2/build.log 2024-10-21 01:33:39.319256564 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Oct 20 13:27:33 -12 2024 -I: pbuilder-time-stamp: 1729474053 +I: Current time: Sun Nov 23 21:54:05 +14 2025 +I: pbuilder-time-stamp: 1763884445 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,51 +30,83 @@ dpkg-source: info: applying fix_BIN_OFFSETS_MAX I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2525591/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2863652/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-amd64. +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 Nov 23 07:54 /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/2863652/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2863652/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='amd64' - 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]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='b42c2d1499434828a00ae3f07c2e189f' - 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='2525591' - PS1='# ' - PS2='> ' + INVOCATION_ID=a6f7bbcc5aa64a98bfb0b34d1a8991ed + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-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=2863652 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.sG009pLB/pbuilderrc_QKNZ --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.sG009pLB/b1 --logfile b1/build.log python-bx_0.13.0-1.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + 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.sG009pLB/pbuilderrc_IEpy --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.sG009pLB/b2 --logfile b2/build.log python-bx_0.13.0-1.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom01-amd64 6.1.0-26-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2525591/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2863652/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -225,7 +257,7 @@ Get: 92 http://deb.debian.org/debian trixie/main amd64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 93 http://deb.debian.org/debian trixie/main amd64 python3-pytest all 8.3.3-1 [249 kB] Get: 94 http://deb.debian.org/debian trixie/main amd64 python3-pytest-cython all 0.1.1-1 [8068 B] -Fetched 48.4 MB in 3s (19.1 MB/s) +Fetched 48.4 MB in 2s (23.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19799 files and directories currently installed.) @@ -542,8 +574,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Mon Oct 21 01:28:52 UTC 2024. -Universal Time is now: Mon Oct 21 01:28:52 UTC 2024. +Local time is now: Sun Nov 23 07:54:40 UTC 2025. +Universal Time is now: Sun Nov 23 07:54:40 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -632,7 +664,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/python-bx-0.13.0/ && 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 > ../python-bx_0.13.0-1_source.changes +I: user script /srv/workspace/pbuilder/2863652/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/2863652/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/python-bx-0.13.0/ && 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 > ../python-bx_0.13.0-1_source.changes dpkg-buildpackage: info: source package python-bx dpkg-buildpackage: info: source version 0.13.0-1 dpkg-buildpackage: info: source distribution unstable @@ -666,135 +702,135 @@ creating build/lib.linux-x86_64-cpython-312 creating build/lib.linux-x86_64-cpython-312/bx_extras copying lib/bx_extras/fpconst_tests.py -> build/lib.linux-x86_64-cpython-312/bx_extras +copying lib/bx_extras/stats.py -> build/lib.linux-x86_64-cpython-312/bx_extras +copying lib/bx_extras/__init__.py -> build/lib.linux-x86_64-cpython-312/bx_extras copying lib/bx_extras/pstat.py -> build/lib.linux-x86_64-cpython-312/bx_extras copying lib/bx_extras/fpconst.py -> build/lib.linux-x86_64-cpython-312/bx_extras copying lib/bx_extras/lrucache.py -> build/lib.linux-x86_64-cpython-312/bx_extras -copying lib/bx_extras/__init__.py -> build/lib.linux-x86_64-cpython-312/bx_extras -copying lib/bx_extras/stats.py -> build/lib.linux-x86_64-cpython-312/bx_extras creating build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/wiggle_tests.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/bitset_utils.py -> build/lib.linux-x86_64-cpython-312/bx copying lib/bx/filter.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/seqmapping_tests.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/interval_index_file.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/wiggle_tests.py -> build/lib.linux-x86_64-cpython-312/bx copying lib/bx/bitset_tests.py -> build/lib.linux-x86_64-cpython-312/bx copying lib/bx/wiggle.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/bitset_builders.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/seqmapping_tests.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/interval_index_file.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/__init__.py -> build/lib.linux-x86_64-cpython-312/bx copying lib/bx/interval_index_file_tests.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/seqmapping.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/binned_array_tests.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/gene_reader.py -> build/lib.linux-x86_64-cpython-312/bx copying lib/bx/binned_array.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/bitset_utils.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/__init__.py -> build/lib.linux-x86_64-cpython-312/bx -copying lib/bx/bitset_builders.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/gene_reader.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/binned_array_tests.py -> build/lib.linux-x86_64-cpython-312/bx +copying lib/bx/seqmapping.py -> build/lib.linux-x86_64-cpython-312/bx creating build/lib.linux-x86_64-cpython-312/bx/tabular -copying lib/bx/tabular/io.py -> build/lib.linux-x86_64-cpython-312/bx/tabular copying lib/bx/tabular/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/tabular -creating build/lib.linux-x86_64-cpython-312/bx/arrays -copying lib/bx/arrays/array_tree_tests.py -> build/lib.linux-x86_64-cpython-312/bx/arrays -copying lib/bx/arrays/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/arrays -creating build/lib.linux-x86_64-cpython-312/bx/intseq -copying lib/bx/intseq/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/intseq -creating build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/pwm_score_positions.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/position_weight_matrix.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/pwm_score_maf.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/bed_score_aligned_string.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/bed_score_aligned_pwm.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/pwm_tests.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/pwm_score_motifs.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/pwm -copying lib/bx/pwm/maf_select_motifs.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/tabular/io.py -> build/lib.linux-x86_64-cpython-312/bx/tabular +creating build/lib.linux-x86_64-cpython-312/bx/cookbook +copying lib/bx/cookbook/doc_optparse.py -> build/lib.linux-x86_64-cpython-312/bx/cookbook +copying lib/bx/cookbook/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/cookbook +copying lib/bx/cookbook/attribute.py -> build/lib.linux-x86_64-cpython-312/bx/cookbook +creating build/lib.linux-x86_64-cpython-312/bx/motif +copying lib/bx/motif/pwm_tests.py -> build/lib.linux-x86_64-cpython-312/bx/motif +copying lib/bx/motif/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/motif +copying lib/bx/motif/pwm.py -> build/lib.linux-x86_64-cpython-312/bx/motif creating build/lib.linux-x86_64-cpython-312/bx/intervals +copying lib/bx/intervals/cluster_tests.py -> build/lib.linux-x86_64-cpython-312/bx/intervals copying lib/bx/intervals/intersection_tests.py -> build/lib.linux-x86_64-cpython-312/bx/intervals copying lib/bx/intervals/random_intervals.py -> build/lib.linux-x86_64-cpython-312/bx/intervals -copying lib/bx/intervals/cluster_tests.py -> build/lib.linux-x86_64-cpython-312/bx/intervals -copying lib/bx/intervals/io.py -> build/lib.linux-x86_64-cpython-312/bx/intervals copying lib/bx/intervals/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/intervals -creating build/lib.linux-x86_64-cpython-312/bx/bbi -copying lib/bx/bbi/bigwig_tests.py -> build/lib.linux-x86_64-cpython-312/bx/bbi -copying lib/bx/bbi/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/bbi -creating build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/seeklzop.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/seekbzip2_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/filecache.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/filecache_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/cdb_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/cdb.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/seeklzop_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/readlengths.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/bgzf_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/seekbzip2.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/misc -copying lib/bx/misc/binary_file.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/intervals/io.py -> build/lib.linux-x86_64-cpython-312/bx/intervals +creating build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/pwm_score_motifs.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/pwm_tests.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/pwm_score_positions.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/maf_select_motifs.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/bed_score_aligned_string.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/pwm_score_maf.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/position_weight_matrix.py -> build/lib.linux-x86_64-cpython-312/bx/pwm +copying lib/bx/pwm/bed_score_aligned_pwm.py -> build/lib.linux-x86_64-cpython-312/bx/pwm creating build/lib.linux-x86_64-cpython-312/bx/phylo -copying lib/bx/phylo/newick_tests.py -> build/lib.linux-x86_64-cpython-312/bx/phylo -copying lib/bx/phylo/newick.py -> build/lib.linux-x86_64-cpython-312/bx/phylo +copying lib/bx/phylo/phast.py -> build/lib.linux-x86_64-cpython-312/bx/phylo copying lib/bx/phylo/phast_tests.py -> build/lib.linux-x86_64-cpython-312/bx/phylo +copying lib/bx/phylo/newick.py -> build/lib.linux-x86_64-cpython-312/bx/phylo +copying lib/bx/phylo/newick_tests.py -> build/lib.linux-x86_64-cpython-312/bx/phylo copying lib/bx/phylo/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/phylo -copying lib/bx/phylo/phast.py -> build/lib.linux-x86_64-cpython-312/bx/phylo -creating build/lib.linux-x86_64-cpython-312/bx/cookbook -copying lib/bx/cookbook/attribute.py -> build/lib.linux-x86_64-cpython-312/bx/cookbook -copying lib/bx/cookbook/doc_optparse.py -> build/lib.linux-x86_64-cpython-312/bx/cookbook -copying lib/bx/cookbook/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/cookbook +creating build/lib.linux-x86_64-cpython-312/bx/intseq +copying lib/bx/intseq/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/intseq creating build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/seq.py -> build/lib.linux-x86_64-cpython-312/bx/seq +copying lib/bx/seq/nib_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq copying lib/bx/seq/qdna_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/seq_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq copying lib/bx/seq/nib.py -> build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/fasta.py -> build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/fasta_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/twobit.py -> build/lib.linux-x86_64-cpython-312/bx/seq copying lib/bx/seq/core.py -> build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/nib_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/twobit_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq -copying lib/bx/seq/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/seq +copying lib/bx/seq/seq_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq copying lib/bx/seq/qdna.py -> build/lib.linux-x86_64-cpython-312/bx/seq -creating build/lib.linux-x86_64-cpython-312/bx/motif -copying lib/bx/motif/pwm_tests.py -> build/lib.linux-x86_64-cpython-312/bx/motif -copying lib/bx/motif/pwm.py -> build/lib.linux-x86_64-cpython-312/bx/motif -copying lib/bx/motif/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/motif +copying lib/bx/seq/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/seq +copying lib/bx/seq/fasta_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq +copying lib/bx/seq/twobit_tests.py -> build/lib.linux-x86_64-cpython-312/bx/seq +copying lib/bx/seq/twobit.py -> build/lib.linux-x86_64-cpython-312/bx/seq +copying lib/bx/seq/seq.py -> build/lib.linux-x86_64-cpython-312/bx/seq +copying lib/bx/seq/fasta.py -> build/lib.linux-x86_64-cpython-312/bx/seq +creating build/lib.linux-x86_64-cpython-312/bx/bbi +copying lib/bx/bbi/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/bbi +copying lib/bx/bbi/bigwig_tests.py -> build/lib.linux-x86_64-cpython-312/bx/bbi creating build/lib.linux-x86_64-cpython-312/bx/align -copying lib/bx/align/score_tests.py -> build/lib.linux-x86_64-cpython-312/bx/align -copying lib/bx/align/epo.py -> build/lib.linux-x86_64-cpython-312/bx/align copying lib/bx/align/lav_tests.py -> build/lib.linux-x86_64-cpython-312/bx/align -copying lib/bx/align/axt.py -> build/lib.linux-x86_64-cpython-312/bx/align -copying lib/bx/align/score.py -> build/lib.linux-x86_64-cpython-312/bx/align +copying lib/bx/align/lav.py -> build/lib.linux-x86_64-cpython-312/bx/align +copying lib/bx/align/epo.py -> build/lib.linux-x86_64-cpython-312/bx/align copying lib/bx/align/core.py -> build/lib.linux-x86_64-cpython-312/bx/align +copying lib/bx/align/score.py -> build/lib.linux-x86_64-cpython-312/bx/align +copying lib/bx/align/maf.py -> build/lib.linux-x86_64-cpython-312/bx/align copying lib/bx/align/maf_tests.py -> build/lib.linux-x86_64-cpython-312/bx/align copying lib/bx/align/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/align -copying lib/bx/align/lav.py -> build/lib.linux-x86_64-cpython-312/bx/align +copying lib/bx/align/axt.py -> build/lib.linux-x86_64-cpython-312/bx/align +copying lib/bx/align/score_tests.py -> build/lib.linux-x86_64-cpython-312/bx/align copying lib/bx/align/epo_tests.py -> build/lib.linux-x86_64-cpython-312/bx/align -copying lib/bx/align/maf.py -> build/lib.linux-x86_64-cpython-312/bx/align +creating build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/cdb_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/seekbzip2_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/cdb.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/seeklzop_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/bgzf_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/filecache.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/binary_file.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/seekbzip2.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/filecache_tests.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/readlengths.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/misc +copying lib/bx/misc/seeklzop.py -> build/lib.linux-x86_64-cpython-312/bx/misc +creating build/lib.linux-x86_64-cpython-312/bx/arrays +copying lib/bx/arrays/array_tree_tests.py -> build/lib.linux-x86_64-cpython-312/bx/arrays +copying lib/bx/arrays/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/arrays +creating build/lib.linux-x86_64-cpython-312/bx/motif/logo +copying lib/bx/motif/logo/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/motif/logo +creating build/lib.linux-x86_64-cpython-312/bx/motif/io +copying lib/bx/motif/io/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/motif/io +copying lib/bx/motif/io/transfac.py -> build/lib.linux-x86_64-cpython-312/bx/motif/io +copying lib/bx/motif/io/transfac_tests.py -> build/lib.linux-x86_64-cpython-312/bx/motif/io creating build/lib.linux-x86_64-cpython-312/bx/intervals/operations copying lib/bx/intervals/operations/base_coverage.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations -copying lib/bx/intervals/operations/intersect.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations -copying lib/bx/intervals/operations/join.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations copying lib/bx/intervals/operations/complement.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations -copying lib/bx/intervals/operations/coverage.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations copying lib/bx/intervals/operations/find_clusters.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations -copying lib/bx/intervals/operations/quicksect.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations -copying lib/bx/intervals/operations/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations +copying lib/bx/intervals/operations/concat.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations +copying lib/bx/intervals/operations/intersect.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations copying lib/bx/intervals/operations/subtract.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations copying lib/bx/intervals/operations/merge.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations -copying lib/bx/intervals/operations/concat.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations -creating build/lib.linux-x86_64-cpython-312/bx/motif/io -copying lib/bx/motif/io/transfac.py -> build/lib.linux-x86_64-cpython-312/bx/motif/io -copying lib/bx/motif/io/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/motif/io -copying lib/bx/motif/io/transfac_tests.py -> build/lib.linux-x86_64-cpython-312/bx/motif/io -creating build/lib.linux-x86_64-cpython-312/bx/motif/logo -copying lib/bx/motif/logo/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/motif/logo -creating build/lib.linux-x86_64-cpython-312/bx/align/sitemask -copying lib/bx/align/sitemask/cpg.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask -copying lib/bx/align/sitemask/core.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask -copying lib/bx/align/sitemask/quality.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask -copying lib/bx/align/sitemask/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask -copying lib/bx/align/sitemask/sitemask_tests.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask +copying lib/bx/intervals/operations/coverage.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations +copying lib/bx/intervals/operations/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations +copying lib/bx/intervals/operations/quicksect.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations +copying lib/bx/intervals/operations/join.py -> build/lib.linux-x86_64-cpython-312/bx/intervals/operations creating build/lib.linux-x86_64-cpython-312/bx/align/tools -copying lib/bx/align/tools/tile.py -> build/lib.linux-x86_64-cpython-312/bx/align/tools copying lib/bx/align/tools/fuse.py -> build/lib.linux-x86_64-cpython-312/bx/align/tools copying lib/bx/align/tools/thread.py -> build/lib.linux-x86_64-cpython-312/bx/align/tools copying lib/bx/align/tools/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/align/tools copying lib/bx/align/tools/chop.py -> build/lib.linux-x86_64-cpython-312/bx/align/tools +copying lib/bx/align/tools/tile.py -> build/lib.linux-x86_64-cpython-312/bx/align/tools +creating build/lib.linux-x86_64-cpython-312/bx/align/sitemask +copying lib/bx/align/sitemask/sitemask_tests.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask +copying lib/bx/align/sitemask/quality.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask +copying lib/bx/align/sitemask/core.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask +copying lib/bx/align/sitemask/__init__.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask +copying lib/bx/align/sitemask/cpg.py -> build/lib.linux-x86_64-cpython-312/bx/align/sitemask copying lib/bx/motif/logo/template.ps -> build/lib.linux-x86_64-cpython-312/bx/motif/logo running build_ext /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/bitset.pyx @@ -1112,194 +1148,194 @@ x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-312/lib/bx/misc/_seekbzip2.o build/temp.linux-x86_64-cpython-312/src/bunzip/micro-bunzip.o -L/usr/lib/x86_64-linux-gnu -o build/lib.linux-x86_64-cpython-312/bx/misc/_seekbzip2.cpython-312-x86_64-linux-gnu.so running build_scripts creating build/scripts-3.12 -copying and adjusting scripts/maf_extract_ranges_indexed.py -> build/scripts-3.12 -copying and adjusting scripts/maf_drop_overlapping.py -> build/scripts-3.12 -copying and adjusting scripts/maf_col_counts_all.py -> build/scripts-3.12 -copying and adjusting scripts/maf_truncate.py -> build/scripts-3.12 -copying and adjusting scripts/lav_to_maf.py -> build/scripts-3.12 -copying and adjusting scripts/interval_count_intersections.py -> build/scripts-3.12 -copying and adjusting scripts/maf_to_axt.py -> build/scripts-3.12 -copying and adjusting scripts/maf_limit_to_species.py -> build/scripts-3.12 -copying and adjusting scripts/bed_coverage_by_interval.py -> build/scripts-3.12 -copying and adjusting scripts/maf_to_concat_fasta.py -> build/scripts-3.12 +copying and adjusting scripts/wiggle_to_binned_array.py -> build/scripts-3.12 +copying and adjusting scripts/maf_thread_for_species.py -> build/scripts-3.12 +copying and adjusting scripts/lzop_build_offset_table.py -> build/scripts-3.12 +copying and adjusting scripts/axt_to_fasta.py -> build/scripts-3.12 +copying and adjusting scripts/maf_split_by_src.py -> build/scripts-3.12 +copying and adjusting scripts/find_in_sorted_file.py -> build/scripts-3.12 +copying and adjusting scripts/pretty_table.py -> build/scripts-3.12 +copying and adjusting scripts/aggregate_scores_in_intervals.py -> build/scripts-3.12 +copying and adjusting scripts/gene_fourfold_sites.py -> build/scripts-3.12 +copying and adjusting scripts/maf_filter_max_wc.py -> build/scripts-3.12 +copying and adjusting scripts/bed_rand_intersect.py -> build/scripts-3.12 +copying and adjusting scripts/nib_length.py -> build/scripts-3.12 +copying and adjusting scripts/maf_chunk.py -> build/scripts-3.12 +copying and adjusting scripts/bed_bigwig_profile.py -> build/scripts-3.12 +copying and adjusting scripts/bed_coverage.py -> build/scripts-3.12 +copying and adjusting scripts/maf_print_scores.py -> build/scripts-3.12 +copying and adjusting scripts/maf_div_sites.py -> build/scripts-3.12 +copying and adjusting scripts/maf_to_fasta.py -> build/scripts-3.12 +copying and adjusting scripts/bed_subtract_basewise.py -> build/scripts-3.12 copying and adjusting scripts/bed_count_by_interval.py -> build/scripts-3.12 -copying and adjusting scripts/maf_to_int_seqs.py -> build/scripts-3.12 +copying and adjusting scripts/maf_gap_frequency.py -> build/scripts-3.12 +copying and adjusting scripts/axt_to_maf.py -> build/scripts-3.12 +copying and adjusting scripts/div_snp_table_chr.py -> build/scripts-3.12 +copying and adjusting scripts/mMK_bitset.py -> build/scripts-3.12 +copying and adjusting scripts/maf_word_frequency.py -> build/scripts-3.12 +copying and adjusting scripts/random_lines.py -> build/scripts-3.12 +copying and adjusting scripts/bed_count_overlapping.py -> build/scripts-3.12 +copying and adjusting scripts/maf_to_concat_fasta.py -> build/scripts-3.12 +copying and adjusting scripts/get_scores_in_intervals.py -> build/scripts-3.12 copying and adjusting scripts/maf_shuffle_columns.py -> build/scripts-3.12 -copying and adjusting scripts/maf_covered_ranges.py -> build/scripts-3.12 -copying and adjusting scripts/maf_filter.py -> build/scripts-3.12 +copying and adjusting scripts/maf_limit_to_species.py -> build/scripts-3.12 +copying and adjusting scripts/qv_to_bqv.py -> build/scripts-3.12 copying and adjusting scripts/bed_merge_overlapping.py -> build/scripts-3.12 -copying and adjusting scripts/table_filter.py -> build/scripts-3.12 +copying and adjusting scripts/interval_count_intersections.py -> build/scripts-3.12 +copying and adjusting scripts/maf_col_counts_all.py -> build/scripts-3.12 +copying and adjusting scripts/bed_intersect.py -> build/scripts-3.12 +copying and adjusting scripts/prefix_lines.py -> build/scripts-3.12 +copying and adjusting scripts/maf_col_counts.py -> build/scripts-3.12 +copying and adjusting scripts/bed_diff_basewise_summary.py -> build/scripts-3.12 +copying and adjusting scripts/ucsc_gene_table_to_intervals.py -> build/scripts-3.12 +copying and adjusting scripts/maf_count.py -> build/scripts-3.12 +copying and adjusting scripts/maf_extract_chrom_ranges.py -> build/scripts-3.12 +copying and adjusting scripts/bed_coverage_by_interval.py -> build/scripts-3.12 copying and adjusting scripts/axt_extract_ranges.py -> build/scripts-3.12 -copying and adjusting scripts/maf_tile_2bit.py -> build/scripts-3.12 -copying and adjusting scripts/gene_fourfold_sites.py -> build/scripts-3.12 -copying and adjusting scripts/maf_chop.py -> build/scripts-3.12 -copying and adjusting scripts/qv_to_bqv.py -> build/scripts-3.12 +copying and adjusting scripts/maf_extract_ranges.py -> build/scripts-3.12 +copying and adjusting scripts/bed_complement.py -> build/scripts-3.12 +copying and adjusting scripts/maf_drop_overlapping.py -> build/scripts-3.12 copying and adjusting scripts/maf_percent_columns_matching.py -> build/scripts-3.12 -copying and adjusting scripts/maf_select.py -> build/scripts-3.12 -copying and adjusting scripts/div_snp_table_chr.py -> build/scripts-3.12 -copying and adjusting scripts/maf_split_by_src.py -> build/scripts-3.12 -copying and adjusting scripts/bed_extend_to.py -> build/scripts-3.12 -copying and adjusting scripts/maf_gc_content.py -> build/scripts-3.12 -copying and adjusting scripts/maf_extract_chrom_ranges.py -> build/scripts-3.12 -copying and adjusting scripts/maf_col_counts.py -> build/scripts-3.12 +copying and adjusting scripts/maf_to_int_seqs.py -> build/scripts-3.12 +copying and adjusting scripts/one_field_per_line.py -> build/scripts-3.12 +copying and adjusting scripts/align_print_template.py -> build/scripts-3.12 +copying and adjusting scripts/maf_species_in_all_files.py -> build/scripts-3.12 copying and adjusting scripts/wiggle_to_array_tree.py -> build/scripts-3.12 -copying and adjusting scripts/aggregate_scores_in_intervals.py -> build/scripts-3.12 -copying and adjusting scripts/maf_word_frequency.py -> build/scripts-3.12 -copying and adjusting scripts/mMK_bitset.py -> build/scripts-3.12 -copying and adjusting scripts/mask_quality.py -> build/scripts-3.12 +copying and adjusting scripts/maf_gc_content.py -> build/scripts-3.12 copying and adjusting scripts/bed_intersect_basewise.py -> build/scripts-3.12 -copying and adjusting scripts/maf_interval_alignibility.py -> build/scripts-3.12 -copying and adjusting scripts/maf_chunk.py -> build/scripts-3.12 -copying and adjusting scripts/align_print_template.py -> build/scripts-3.12 -copying and adjusting scripts/maf_covered_regions.py -> build/scripts-3.12 -copying and adjusting scripts/one_field_per_line.py -> build/scripts-3.12 -copying and adjusting scripts/nib_length.py -> build/scripts-3.12 -copying and adjusting scripts/line_select.py -> build/scripts-3.12 -copying and adjusting scripts/maf_region_coverage_by_src.py -> build/scripts-3.12 -copying and adjusting scripts/bed_bigwig_profile.py -> build/scripts-3.12 -copying and adjusting scripts/maf_mapping_word_frequency.py -> build/scripts-3.12 +copying and adjusting scripts/maf_chop.py -> build/scripts-3.12 +copying and adjusting scripts/out_to_chain.py -> build/scripts-3.12 +copying and adjusting scripts/maf_mask_cpg.py -> build/scripts-3.12 copying and adjusting scripts/maf_print_chroms.py -> build/scripts-3.12 -copying and adjusting scripts/maf_tile.py -> build/scripts-3.12 -copying and adjusting scripts/bed_diff_basewise_summary.py -> build/scripts-3.12 -copying and adjusting scripts/maf_extract_ranges.py -> build/scripts-3.12 -copying and adjusting scripts/maf_print_scores.py -> build/scripts-3.12 -copying and adjusting scripts/int_seqs_to_char_strings.py -> build/scripts-3.12 -copying and adjusting scripts/bed_rand_intersect.py -> build/scripts-3.12 -copying and adjusting scripts/tfloc_summary.py -> build/scripts-3.12 -copying and adjusting scripts/maf_percent_identity.py -> build/scripts-3.12 -copying and adjusting scripts/bed_subtract_basewise.py -> build/scripts-3.12 +copying and adjusting scripts/table_filter.py -> build/scripts-3.12 +copying and adjusting scripts/maf_filter.py -> build/scripts-3.12 +copying and adjusting scripts/maf_region_coverage_by_src.py -> build/scripts-3.12 +copying and adjusting scripts/maf_extract_ranges_indexed.py -> build/scripts-3.12 copying and adjusting scripts/bed_build_windows.py -> build/scripts-3.12 -copying and adjusting scripts/axt_to_fasta.py -> build/scripts-3.12 -copying and adjusting scripts/maf_mask_cpg.py -> build/scripts-3.12 -copying and adjusting scripts/pretty_table.py -> build/scripts-3.12 -copying and adjusting scripts/maf_to_fasta.py -> build/scripts-3.12 -copying and adjusting scripts/maf_randomize.py -> build/scripts-3.12 -copying and adjusting scripts/interval_join.py -> build/scripts-3.12 -copying and adjusting scripts/maf_filter_max_wc.py -> build/scripts-3.12 -copying and adjusting scripts/out_to_chain.py -> build/scripts-3.12 +copying and adjusting scripts/int_seqs_to_char_strings.py -> build/scripts-3.12 +copying and adjusting scripts/maf_truncate.py -> build/scripts-3.12 copying and adjusting scripts/wiggle_to_simple.py -> build/scripts-3.12 -copying and adjusting scripts/lav_to_axt.py -> build/scripts-3.12 -copying and adjusting scripts/bed_complement.py -> build/scripts-3.12 -copying and adjusting scripts/wiggle_to_chr_binned_array.py -> build/scripts-3.12 +copying and adjusting scripts/interval_join.py -> build/scripts-3.12 copying and adjusting scripts/table_add_column.py -> build/scripts-3.12 -copying and adjusting scripts/axt_to_maf.py -> build/scripts-3.12 -copying and adjusting scripts/bed_count_overlapping.py -> build/scripts-3.12 -copying and adjusting scripts/bnMapper.py -> build/scripts-3.12 -copying and adjusting scripts/maf_species_in_all_files.py -> build/scripts-3.12 -copying and adjusting scripts/nib_intervals_to_fasta.py -> build/scripts-3.12 -copying and adjusting scripts/wiggle_to_binned_array.py -> build/scripts-3.12 -copying and adjusting scripts/maf_count.py -> build/scripts-3.12 -copying and adjusting scripts/bed_coverage.py -> build/scripts-3.12 -copying and adjusting scripts/random_lines.py -> build/scripts-3.12 -copying and adjusting scripts/maf_gap_frequency.py -> build/scripts-3.12 -copying and adjusting scripts/get_scores_in_intervals.py -> build/scripts-3.12 +copying and adjusting scripts/line_select.py -> build/scripts-3.12 copying and adjusting scripts/maf_mean_length_ungapped_piece.py -> build/scripts-3.12 +copying and adjusting scripts/maf_translate_chars.py -> build/scripts-3.12 +copying and adjusting scripts/maf_to_axt.py -> build/scripts-3.12 +copying and adjusting scripts/lav_to_maf.py -> build/scripts-3.12 +copying and adjusting scripts/maf_tile_2.py -> build/scripts-3.12 copying and adjusting scripts/maf_build_index.py -> build/scripts-3.12 +copying and adjusting scripts/bnMapper.py -> build/scripts-3.12 +copying and adjusting scripts/maf_interval_alignibility.py -> build/scripts-3.12 +copying and adjusting scripts/nib_intervals_to_fasta.py -> build/scripts-3.12 +copying and adjusting scripts/tfloc_summary.py -> build/scripts-3.12 +copying and adjusting scripts/mask_quality.py -> build/scripts-3.12 +copying and adjusting scripts/maf_select.py -> build/scripts-3.12 +copying and adjusting scripts/maf_mapping_word_frequency.py -> build/scripts-3.12 +copying and adjusting scripts/maf_randomize.py -> build/scripts-3.12 copying and adjusting scripts/axt_to_lav.py -> build/scripts-3.12 -copying and adjusting scripts/lzop_build_offset_table.py -> build/scripts-3.12 -copying and adjusting scripts/bed_intersect.py -> build/scripts-3.12 -copying and adjusting scripts/find_in_sorted_file.py -> build/scripts-3.12 -copying and adjusting scripts/ucsc_gene_table_to_intervals.py -> build/scripts-3.12 -copying and adjusting scripts/maf_tile_2.py -> build/scripts-3.12 -copying and adjusting scripts/maf_thread_for_species.py -> build/scripts-3.12 -copying and adjusting scripts/maf_translate_chars.py -> build/scripts-3.12 +copying and adjusting scripts/bed_extend_to.py -> build/scripts-3.12 +copying and adjusting scripts/maf_tile.py -> build/scripts-3.12 +copying and adjusting scripts/maf_tile_2bit.py -> build/scripts-3.12 +copying and adjusting scripts/maf_percent_identity.py -> build/scripts-3.12 +copying and adjusting scripts/lav_to_axt.py -> build/scripts-3.12 +copying and adjusting scripts/wiggle_to_chr_binned_array.py -> build/scripts-3.12 +copying and adjusting scripts/maf_covered_ranges.py -> build/scripts-3.12 copying and adjusting scripts/nib_chrom_intervals_to_fasta.py -> build/scripts-3.12 -copying and adjusting scripts/prefix_lines.py -> build/scripts-3.12 -copying and adjusting scripts/maf_div_sites.py -> build/scripts-3.12 -changing mode of build/scripts-3.12/maf_extract_ranges_indexed.py from 644 to 755 -changing mode of build/scripts-3.12/maf_drop_overlapping.py from 644 to 755 -changing mode of build/scripts-3.12/maf_col_counts_all.py from 644 to 755 -changing mode of build/scripts-3.12/maf_truncate.py from 644 to 755 -changing mode of build/scripts-3.12/lav_to_maf.py from 644 to 755 -changing mode of build/scripts-3.12/interval_count_intersections.py from 644 to 755 -changing mode of build/scripts-3.12/maf_to_axt.py from 644 to 755 -changing mode of build/scripts-3.12/maf_limit_to_species.py from 644 to 755 -changing mode of build/scripts-3.12/bed_coverage_by_interval.py from 644 to 755 -changing mode of build/scripts-3.12/maf_to_concat_fasta.py from 644 to 755 +copying and adjusting scripts/maf_covered_regions.py -> build/scripts-3.12 +changing mode of build/scripts-3.12/wiggle_to_binned_array.py from 644 to 755 +changing mode of build/scripts-3.12/maf_thread_for_species.py from 644 to 755 +changing mode of build/scripts-3.12/lzop_build_offset_table.py from 644 to 755 +changing mode of build/scripts-3.12/axt_to_fasta.py from 644 to 755 +changing mode of build/scripts-3.12/maf_split_by_src.py from 644 to 755 +changing mode of build/scripts-3.12/find_in_sorted_file.py from 644 to 755 +changing mode of build/scripts-3.12/pretty_table.py from 644 to 755 +changing mode of build/scripts-3.12/aggregate_scores_in_intervals.py from 644 to 755 +changing mode of build/scripts-3.12/gene_fourfold_sites.py from 644 to 755 +changing mode of build/scripts-3.12/maf_filter_max_wc.py from 644 to 755 +changing mode of build/scripts-3.12/bed_rand_intersect.py from 644 to 755 +changing mode of build/scripts-3.12/nib_length.py from 644 to 755 +changing mode of build/scripts-3.12/maf_chunk.py from 644 to 755 +changing mode of build/scripts-3.12/bed_bigwig_profile.py from 644 to 755 +changing mode of build/scripts-3.12/bed_coverage.py from 644 to 755 +changing mode of build/scripts-3.12/maf_print_scores.py from 644 to 755 +changing mode of build/scripts-3.12/maf_div_sites.py from 644 to 755 +changing mode of build/scripts-3.12/maf_to_fasta.py from 644 to 755 +changing mode of build/scripts-3.12/bed_subtract_basewise.py from 644 to 755 changing mode of build/scripts-3.12/bed_count_by_interval.py from 644 to 755 -changing mode of build/scripts-3.12/maf_to_int_seqs.py from 644 to 755 +changing mode of build/scripts-3.12/maf_gap_frequency.py from 644 to 755 +changing mode of build/scripts-3.12/axt_to_maf.py from 644 to 755 +changing mode of build/scripts-3.12/div_snp_table_chr.py from 644 to 755 +changing mode of build/scripts-3.12/mMK_bitset.py from 644 to 755 +changing mode of build/scripts-3.12/maf_word_frequency.py from 644 to 755 +changing mode of build/scripts-3.12/random_lines.py from 644 to 755 +changing mode of build/scripts-3.12/bed_count_overlapping.py from 644 to 755 +changing mode of build/scripts-3.12/maf_to_concat_fasta.py from 644 to 755 +changing mode of build/scripts-3.12/get_scores_in_intervals.py from 644 to 755 changing mode of build/scripts-3.12/maf_shuffle_columns.py from 644 to 755 -changing mode of build/scripts-3.12/maf_covered_ranges.py from 644 to 755 -changing mode of build/scripts-3.12/maf_filter.py from 644 to 755 +changing mode of build/scripts-3.12/maf_limit_to_species.py from 644 to 755 +changing mode of build/scripts-3.12/qv_to_bqv.py from 644 to 755 changing mode of build/scripts-3.12/bed_merge_overlapping.py from 644 to 755 -changing mode of build/scripts-3.12/table_filter.py from 644 to 755 +changing mode of build/scripts-3.12/interval_count_intersections.py from 644 to 755 +changing mode of build/scripts-3.12/maf_col_counts_all.py from 644 to 755 +changing mode of build/scripts-3.12/bed_intersect.py from 644 to 755 +changing mode of build/scripts-3.12/prefix_lines.py from 644 to 755 +changing mode of build/scripts-3.12/maf_col_counts.py from 644 to 755 +changing mode of build/scripts-3.12/bed_diff_basewise_summary.py from 644 to 755 +changing mode of build/scripts-3.12/ucsc_gene_table_to_intervals.py from 644 to 755 +changing mode of build/scripts-3.12/maf_count.py from 644 to 755 +changing mode of build/scripts-3.12/maf_extract_chrom_ranges.py from 644 to 755 +changing mode of build/scripts-3.12/bed_coverage_by_interval.py from 644 to 755 changing mode of build/scripts-3.12/axt_extract_ranges.py from 644 to 755 -changing mode of build/scripts-3.12/maf_tile_2bit.py from 644 to 755 -changing mode of build/scripts-3.12/gene_fourfold_sites.py from 644 to 755 -changing mode of build/scripts-3.12/maf_chop.py from 644 to 755 -changing mode of build/scripts-3.12/qv_to_bqv.py from 644 to 755 +changing mode of build/scripts-3.12/maf_extract_ranges.py from 644 to 755 +changing mode of build/scripts-3.12/bed_complement.py from 644 to 755 +changing mode of build/scripts-3.12/maf_drop_overlapping.py from 644 to 755 changing mode of build/scripts-3.12/maf_percent_columns_matching.py from 644 to 755 -changing mode of build/scripts-3.12/maf_select.py from 644 to 755 -changing mode of build/scripts-3.12/div_snp_table_chr.py from 644 to 755 -changing mode of build/scripts-3.12/maf_split_by_src.py from 644 to 755 -changing mode of build/scripts-3.12/bed_extend_to.py from 644 to 755 -changing mode of build/scripts-3.12/maf_gc_content.py from 644 to 755 -changing mode of build/scripts-3.12/maf_extract_chrom_ranges.py from 644 to 755 -changing mode of build/scripts-3.12/maf_col_counts.py from 644 to 755 +changing mode of build/scripts-3.12/maf_to_int_seqs.py from 644 to 755 +changing mode of build/scripts-3.12/one_field_per_line.py from 644 to 755 +changing mode of build/scripts-3.12/align_print_template.py from 644 to 755 +changing mode of build/scripts-3.12/maf_species_in_all_files.py from 644 to 755 changing mode of build/scripts-3.12/wiggle_to_array_tree.py from 644 to 755 -changing mode of build/scripts-3.12/aggregate_scores_in_intervals.py from 644 to 755 -changing mode of build/scripts-3.12/maf_word_frequency.py from 644 to 755 -changing mode of build/scripts-3.12/mMK_bitset.py from 644 to 755 -changing mode of build/scripts-3.12/mask_quality.py from 644 to 755 +changing mode of build/scripts-3.12/maf_gc_content.py from 644 to 755 changing mode of build/scripts-3.12/bed_intersect_basewise.py from 644 to 755 -changing mode of build/scripts-3.12/maf_interval_alignibility.py from 644 to 755 -changing mode of build/scripts-3.12/maf_chunk.py from 644 to 755 -changing mode of build/scripts-3.12/align_print_template.py from 644 to 755 -changing mode of build/scripts-3.12/maf_covered_regions.py from 644 to 755 -changing mode of build/scripts-3.12/one_field_per_line.py from 644 to 755 -changing mode of build/scripts-3.12/nib_length.py from 644 to 755 -changing mode of build/scripts-3.12/line_select.py from 644 to 755 -changing mode of build/scripts-3.12/maf_region_coverage_by_src.py from 644 to 755 -changing mode of build/scripts-3.12/bed_bigwig_profile.py from 644 to 755 -changing mode of build/scripts-3.12/maf_mapping_word_frequency.py from 644 to 755 +changing mode of build/scripts-3.12/maf_chop.py from 644 to 755 +changing mode of build/scripts-3.12/out_to_chain.py from 644 to 755 +changing mode of build/scripts-3.12/maf_mask_cpg.py from 644 to 755 changing mode of build/scripts-3.12/maf_print_chroms.py from 644 to 755 -changing mode of build/scripts-3.12/maf_tile.py from 644 to 755 -changing mode of build/scripts-3.12/bed_diff_basewise_summary.py from 644 to 755 -changing mode of build/scripts-3.12/maf_extract_ranges.py from 644 to 755 -changing mode of build/scripts-3.12/maf_print_scores.py from 644 to 755 -changing mode of build/scripts-3.12/int_seqs_to_char_strings.py from 644 to 755 -changing mode of build/scripts-3.12/bed_rand_intersect.py from 644 to 755 -changing mode of build/scripts-3.12/tfloc_summary.py from 644 to 755 -changing mode of build/scripts-3.12/maf_percent_identity.py from 644 to 755 -changing mode of build/scripts-3.12/bed_subtract_basewise.py from 644 to 755 +changing mode of build/scripts-3.12/table_filter.py from 644 to 755 +changing mode of build/scripts-3.12/maf_filter.py from 644 to 755 +changing mode of build/scripts-3.12/maf_region_coverage_by_src.py from 644 to 755 +changing mode of build/scripts-3.12/maf_extract_ranges_indexed.py from 644 to 755 changing mode of build/scripts-3.12/bed_build_windows.py from 644 to 755 -changing mode of build/scripts-3.12/axt_to_fasta.py from 644 to 755 -changing mode of build/scripts-3.12/maf_mask_cpg.py from 644 to 755 -changing mode of build/scripts-3.12/pretty_table.py from 644 to 755 -changing mode of build/scripts-3.12/maf_to_fasta.py from 644 to 755 -changing mode of build/scripts-3.12/maf_randomize.py from 644 to 755 -changing mode of build/scripts-3.12/interval_join.py from 644 to 755 -changing mode of build/scripts-3.12/maf_filter_max_wc.py from 644 to 755 -changing mode of build/scripts-3.12/out_to_chain.py from 644 to 755 +changing mode of build/scripts-3.12/int_seqs_to_char_strings.py from 644 to 755 +changing mode of build/scripts-3.12/maf_truncate.py from 644 to 755 changing mode of build/scripts-3.12/wiggle_to_simple.py from 644 to 755 -changing mode of build/scripts-3.12/lav_to_axt.py from 644 to 755 -changing mode of build/scripts-3.12/bed_complement.py from 644 to 755 -changing mode of build/scripts-3.12/wiggle_to_chr_binned_array.py from 644 to 755 +changing mode of build/scripts-3.12/interval_join.py from 644 to 755 changing mode of build/scripts-3.12/table_add_column.py from 644 to 755 -changing mode of build/scripts-3.12/axt_to_maf.py from 644 to 755 -changing mode of build/scripts-3.12/bed_count_overlapping.py from 644 to 755 -changing mode of build/scripts-3.12/bnMapper.py from 644 to 755 -changing mode of build/scripts-3.12/maf_species_in_all_files.py from 644 to 755 -changing mode of build/scripts-3.12/nib_intervals_to_fasta.py from 644 to 755 -changing mode of build/scripts-3.12/wiggle_to_binned_array.py from 644 to 755 -changing mode of build/scripts-3.12/maf_count.py from 644 to 755 -changing mode of build/scripts-3.12/bed_coverage.py from 644 to 755 -changing mode of build/scripts-3.12/random_lines.py from 644 to 755 -changing mode of build/scripts-3.12/maf_gap_frequency.py from 644 to 755 -changing mode of build/scripts-3.12/get_scores_in_intervals.py from 644 to 755 +changing mode of build/scripts-3.12/line_select.py from 644 to 755 changing mode of build/scripts-3.12/maf_mean_length_ungapped_piece.py from 644 to 755 +changing mode of build/scripts-3.12/maf_translate_chars.py from 644 to 755 +changing mode of build/scripts-3.12/maf_to_axt.py from 644 to 755 +changing mode of build/scripts-3.12/lav_to_maf.py from 644 to 755 +changing mode of build/scripts-3.12/maf_tile_2.py from 644 to 755 changing mode of build/scripts-3.12/maf_build_index.py from 644 to 755 +changing mode of build/scripts-3.12/bnMapper.py from 644 to 755 +changing mode of build/scripts-3.12/maf_interval_alignibility.py from 644 to 755 +changing mode of build/scripts-3.12/nib_intervals_to_fasta.py from 644 to 755 +changing mode of build/scripts-3.12/tfloc_summary.py from 644 to 755 +changing mode of build/scripts-3.12/mask_quality.py from 644 to 755 +changing mode of build/scripts-3.12/maf_select.py from 644 to 755 +changing mode of build/scripts-3.12/maf_mapping_word_frequency.py from 644 to 755 +changing mode of build/scripts-3.12/maf_randomize.py from 644 to 755 changing mode of build/scripts-3.12/axt_to_lav.py from 644 to 755 -changing mode of build/scripts-3.12/lzop_build_offset_table.py from 644 to 755 -changing mode of build/scripts-3.12/bed_intersect.py from 644 to 755 -changing mode of build/scripts-3.12/find_in_sorted_file.py from 644 to 755 -changing mode of build/scripts-3.12/ucsc_gene_table_to_intervals.py from 644 to 755 -changing mode of build/scripts-3.12/maf_tile_2.py from 644 to 755 -changing mode of build/scripts-3.12/maf_thread_for_species.py from 644 to 755 -changing mode of build/scripts-3.12/maf_translate_chars.py from 644 to 755 +changing mode of build/scripts-3.12/bed_extend_to.py from 644 to 755 +changing mode of build/scripts-3.12/maf_tile.py from 644 to 755 +changing mode of build/scripts-3.12/maf_tile_2bit.py from 644 to 755 +changing mode of build/scripts-3.12/maf_percent_identity.py from 644 to 755 +changing mode of build/scripts-3.12/lav_to_axt.py from 644 to 755 +changing mode of build/scripts-3.12/wiggle_to_chr_binned_array.py from 644 to 755 +changing mode of build/scripts-3.12/maf_covered_ranges.py from 644 to 755 changing mode of build/scripts-3.12/nib_chrom_intervals_to_fasta.py from 644 to 755 -changing mode of build/scripts-3.12/prefix_lines.py from 644 to 755 -changing mode of build/scripts-3.12/maf_div_sites.py from 644 to 755 +changing mode of build/scripts-3.12/maf_covered_regions.py from 644 to 755 installing to build/bdist.linux-x86_64/wheel running install running install_lib @@ -1307,158 +1343,158 @@ creating build/bdist.linux-x86_64/wheel creating build/bdist.linux-x86_64/wheel/bx_extras copying build/lib.linux-x86_64-cpython-312/bx_extras/fpconst_tests.py -> build/bdist.linux-x86_64/wheel/./bx_extras +copying build/lib.linux-x86_64-cpython-312/bx_extras/stats.py -> build/bdist.linux-x86_64/wheel/./bx_extras +copying build/lib.linux-x86_64-cpython-312/bx_extras/__init__.py -> build/bdist.linux-x86_64/wheel/./bx_extras copying build/lib.linux-x86_64-cpython-312/bx_extras/pstat.py -> build/bdist.linux-x86_64/wheel/./bx_extras copying build/lib.linux-x86_64-cpython-312/bx_extras/fpconst.py -> build/bdist.linux-x86_64/wheel/./bx_extras copying build/lib.linux-x86_64-cpython-312/bx_extras/lrucache.py -> build/bdist.linux-x86_64/wheel/./bx_extras -copying build/lib.linux-x86_64-cpython-312/bx_extras/__init__.py -> build/bdist.linux-x86_64/wheel/./bx_extras -copying build/lib.linux-x86_64-cpython-312/bx_extras/stats.py -> build/bdist.linux-x86_64/wheel/./bx_extras creating build/bdist.linux-x86_64/wheel/bx -copying build/lib.linux-x86_64-cpython-312/bx/wiggle_tests.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/bitset_utils.py -> build/bdist.linux-x86_64/wheel/./bx copying build/lib.linux-x86_64-cpython-312/bx/filter.py -> build/bdist.linux-x86_64/wheel/./bx -copying build/lib.linux-x86_64-cpython-312/bx/seqmapping_tests.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/wiggle_tests.py -> build/bdist.linux-x86_64/wheel/./bx creating build/bdist.linux-x86_64/wheel/bx/tabular -copying build/lib.linux-x86_64-cpython-312/bx/tabular/io.py -> build/bdist.linux-x86_64/wheel/./bx/tabular copying build/lib.linux-x86_64-cpython-312/bx/tabular/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/tabular -creating build/bdist.linux-x86_64/wheel/bx/arrays -copying build/lib.linux-x86_64-cpython-312/bx/arrays/wiggle.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/arrays -copying build/lib.linux-x86_64-cpython-312/bx/arrays/array_tree_tests.py -> build/bdist.linux-x86_64/wheel/./bx/arrays -copying build/lib.linux-x86_64-cpython-312/bx/arrays/array_tree.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/arrays -copying build/lib.linux-x86_64-cpython-312/bx/arrays/bed.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/arrays -copying build/lib.linux-x86_64-cpython-312/bx/arrays/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/arrays -copying build/lib.linux-x86_64-cpython-312/bx/interval_index_file.py -> build/bdist.linux-x86_64/wheel/./bx -creating build/bdist.linux-x86_64/wheel/bx/intseq -copying build/lib.linux-x86_64-cpython-312/bx/intseq/ngramcount.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/intseq -copying build/lib.linux-x86_64-cpython-312/bx/intseq/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/intseq -creating build/bdist.linux-x86_64/wheel/bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_score_positions.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/position_weight_matrix.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_score_maf.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/bed_score_aligned_string.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/bed_score_aligned_pwm.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_tests.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_score_motifs.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/_position_weight_matrix.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/pwm -copying build/lib.linux-x86_64-cpython-312/bx/pwm/maf_select_motifs.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/tabular/io.py -> build/bdist.linux-x86_64/wheel/./bx/tabular +creating build/bdist.linux-x86_64/wheel/bx/cookbook +copying build/lib.linux-x86_64-cpython-312/bx/cookbook/doc_optparse.py -> build/bdist.linux-x86_64/wheel/./bx/cookbook +copying build/lib.linux-x86_64-cpython-312/bx/cookbook/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/cookbook +copying build/lib.linux-x86_64-cpython-312/bx/cookbook/attribute.py -> build/bdist.linux-x86_64/wheel/./bx/cookbook +copying build/lib.linux-x86_64-cpython-312/bx/bitset.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx +creating build/bdist.linux-x86_64/wheel/bx/motif +copying build/lib.linux-x86_64-cpython-312/bx/motif/pwm_tests.py -> build/bdist.linux-x86_64/wheel/./bx/motif +creating build/bdist.linux-x86_64/wheel/bx/motif/logo +copying build/lib.linux-x86_64-cpython-312/bx/motif/logo/template.ps -> build/bdist.linux-x86_64/wheel/./bx/motif/logo +copying build/lib.linux-x86_64-cpython-312/bx/motif/logo/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/motif/logo +creating build/bdist.linux-x86_64/wheel/bx/motif/io +copying build/lib.linux-x86_64-cpython-312/bx/motif/io/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/motif/io +copying build/lib.linux-x86_64-cpython-312/bx/motif/io/transfac.py -> build/bdist.linux-x86_64/wheel/./bx/motif/io +copying build/lib.linux-x86_64-cpython-312/bx/motif/io/transfac_tests.py -> build/bdist.linux-x86_64/wheel/./bx/motif/io +copying build/lib.linux-x86_64-cpython-312/bx/motif/_pwm.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/motif +copying build/lib.linux-x86_64-cpython-312/bx/motif/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/motif +copying build/lib.linux-x86_64-cpython-312/bx/motif/pwm.py -> build/bdist.linux-x86_64/wheel/./bx/motif creating build/bdist.linux-x86_64/wheel/bx/intervals +copying build/lib.linux-x86_64-cpython-312/bx/intervals/cluster_tests.py -> build/bdist.linux-x86_64/wheel/./bx/intervals copying build/lib.linux-x86_64-cpython-312/bx/intervals/intersection_tests.py -> build/bdist.linux-x86_64/wheel/./bx/intervals copying build/lib.linux-x86_64-cpython-312/bx/intervals/random_intervals.py -> build/bdist.linux-x86_64/wheel/./bx/intervals copying build/lib.linux-x86_64-cpython-312/bx/intervals/cluster.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/intervals -copying build/lib.linux-x86_64-cpython-312/bx/intervals/cluster_tests.py -> build/bdist.linux-x86_64/wheel/./bx/intervals -copying build/lib.linux-x86_64-cpython-312/bx/intervals/io.py -> build/bdist.linux-x86_64/wheel/./bx/intervals -copying build/lib.linux-x86_64-cpython-312/bx/intervals/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/intervals copying build/lib.linux-x86_64-cpython-312/bx/intervals/intersection.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/intervals +copying build/lib.linux-x86_64-cpython-312/bx/intervals/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/intervals +copying build/lib.linux-x86_64-cpython-312/bx/intervals/io.py -> build/bdist.linux-x86_64/wheel/./bx/intervals creating build/bdist.linux-x86_64/wheel/bx/intervals/operations copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/base_coverage.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations -copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/intersect.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations -copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/join.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/complement.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations -copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/coverage.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/find_clusters.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations -copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/quicksect.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations -copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations +copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/concat.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations +copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/intersect.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/subtract.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/merge.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations -copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/concat.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations -copying build/lib.linux-x86_64-cpython-312/bx/bitset.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/coverage.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations +copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations +copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/quicksect.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations +copying build/lib.linux-x86_64-cpython-312/bx/intervals/operations/join.py -> build/bdist.linux-x86_64/wheel/./bx/intervals/operations copying build/lib.linux-x86_64-cpython-312/bx/bitset_tests.py -> build/bdist.linux-x86_64/wheel/./bx copying build/lib.linux-x86_64-cpython-312/bx/wiggle.py -> build/bdist.linux-x86_64/wheel/./bx -copying build/lib.linux-x86_64-cpython-312/bx/interval_index_file_tests.py -> build/bdist.linux-x86_64/wheel/./bx -copying build/lib.linux-x86_64-cpython-312/bx/seqmapping.py -> build/bdist.linux-x86_64/wheel/./bx -creating build/bdist.linux-x86_64/wheel/bx/bbi -copying build/lib.linux-x86_64-cpython-312/bx/bbi/bigwig_tests.py -> build/bdist.linux-x86_64/wheel/./bx/bbi -copying build/lib.linux-x86_64-cpython-312/bx/bbi/bbi_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi -copying build/lib.linux-x86_64-cpython-312/bx/bbi/bpt_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi -copying build/lib.linux-x86_64-cpython-312/bx/bbi/bigbed_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi -copying build/lib.linux-x86_64-cpython-312/bx/bbi/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/bbi -copying build/lib.linux-x86_64-cpython-312/bx/bbi/cirtree_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi -copying build/lib.linux-x86_64-cpython-312/bx/bbi/bigwig_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi -creating build/bdist.linux-x86_64/wheel/bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/seeklzop.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/seekbzip2_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/filecache.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/filecache_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/cdb_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/cdb.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/seeklzop_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/_seekbzip2.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/readlengths.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/bgzf_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/bgzf.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/seekbzip2.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/misc/binary_file.py -> build/bdist.linux-x86_64/wheel/./bx/misc -copying build/lib.linux-x86_64-cpython-312/bx/binned_array_tests.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/bitset_builders.py -> build/bdist.linux-x86_64/wheel/./bx +creating build/bdist.linux-x86_64/wheel/bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_score_motifs.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_tests.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_score_positions.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/maf_select_motifs.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/bed_score_aligned_string.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/pwm_score_maf.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/position_weight_matrix.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/bed_score_aligned_pwm.py -> build/bdist.linux-x86_64/wheel/./bx/pwm +copying build/lib.linux-x86_64-cpython-312/bx/pwm/_position_weight_matrix.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/pwm creating build/bdist.linux-x86_64/wheel/bx/phylo -copying build/lib.linux-x86_64-cpython-312/bx/phylo/newick_tests.py -> build/bdist.linux-x86_64/wheel/./bx/phylo -copying build/lib.linux-x86_64-cpython-312/bx/phylo/newick.py -> build/bdist.linux-x86_64/wheel/./bx/phylo +copying build/lib.linux-x86_64-cpython-312/bx/phylo/phast.py -> build/bdist.linux-x86_64/wheel/./bx/phylo copying build/lib.linux-x86_64-cpython-312/bx/phylo/phast_tests.py -> build/bdist.linux-x86_64/wheel/./bx/phylo +copying build/lib.linux-x86_64-cpython-312/bx/phylo/newick.py -> build/bdist.linux-x86_64/wheel/./bx/phylo +copying build/lib.linux-x86_64-cpython-312/bx/phylo/newick_tests.py -> build/bdist.linux-x86_64/wheel/./bx/phylo copying build/lib.linux-x86_64-cpython-312/bx/phylo/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/phylo -copying build/lib.linux-x86_64-cpython-312/bx/phylo/phast.py -> build/bdist.linux-x86_64/wheel/./bx/phylo -creating build/bdist.linux-x86_64/wheel/bx/cookbook -copying build/lib.linux-x86_64-cpython-312/bx/cookbook/attribute.py -> build/bdist.linux-x86_64/wheel/./bx/cookbook -copying build/lib.linux-x86_64-cpython-312/bx/cookbook/doc_optparse.py -> build/bdist.linux-x86_64/wheel/./bx/cookbook -copying build/lib.linux-x86_64-cpython-312/bx/cookbook/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/cookbook -copying build/lib.linux-x86_64-cpython-312/bx/gene_reader.py -> build/bdist.linux-x86_64/wheel/./bx -copying build/lib.linux-x86_64-cpython-312/bx/binned_array.py -> build/bdist.linux-x86_64/wheel/./bx +creating build/bdist.linux-x86_64/wheel/bx/intseq +copying build/lib.linux-x86_64-cpython-312/bx/intseq/ngramcount.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/intseq +copying build/lib.linux-x86_64-cpython-312/bx/intseq/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/intseq creating build/bdist.linux-x86_64/wheel/bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/seq.py -> build/bdist.linux-x86_64/wheel/./bx/seq +copying build/lib.linux-x86_64-cpython-312/bx/seq/nib_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq copying build/lib.linux-x86_64-cpython-312/bx/seq/qdna_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/seq_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq copying build/lib.linux-x86_64-cpython-312/bx/seq/nib.py -> build/bdist.linux-x86_64/wheel/./bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/fasta.py -> build/bdist.linux-x86_64/wheel/./bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/fasta_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/twobit.py -> build/bdist.linux-x86_64/wheel/./bx/seq copying build/lib.linux-x86_64-cpython-312/bx/seq/core.py -> build/bdist.linux-x86_64/wheel/./bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/nib_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/twobit_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq -copying build/lib.linux-x86_64-cpython-312/bx/seq/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/seq +copying build/lib.linux-x86_64-cpython-312/bx/seq/seq_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq copying build/lib.linux-x86_64-cpython-312/bx/seq/qdna.py -> build/bdist.linux-x86_64/wheel/./bx/seq copying build/lib.linux-x86_64-cpython-312/bx/seq/_nib.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/seq +copying build/lib.linux-x86_64-cpython-312/bx/seq/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/seq +copying build/lib.linux-x86_64-cpython-312/bx/seq/fasta_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq +copying build/lib.linux-x86_64-cpython-312/bx/seq/twobit_tests.py -> build/bdist.linux-x86_64/wheel/./bx/seq copying build/lib.linux-x86_64-cpython-312/bx/seq/_twobit.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/seq -creating build/bdist.linux-x86_64/wheel/bx/motif -copying build/lib.linux-x86_64-cpython-312/bx/motif/_pwm.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/motif -creating build/bdist.linux-x86_64/wheel/bx/motif/io -copying build/lib.linux-x86_64-cpython-312/bx/motif/io/transfac.py -> build/bdist.linux-x86_64/wheel/./bx/motif/io -copying build/lib.linux-x86_64-cpython-312/bx/motif/io/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/motif/io -copying build/lib.linux-x86_64-cpython-312/bx/motif/io/transfac_tests.py -> build/bdist.linux-x86_64/wheel/./bx/motif/io -creating build/bdist.linux-x86_64/wheel/bx/motif/logo -copying build/lib.linux-x86_64-cpython-312/bx/motif/logo/template.ps -> build/bdist.linux-x86_64/wheel/./bx/motif/logo -copying build/lib.linux-x86_64-cpython-312/bx/motif/logo/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/motif/logo -copying build/lib.linux-x86_64-cpython-312/bx/motif/pwm_tests.py -> build/bdist.linux-x86_64/wheel/./bx/motif -copying build/lib.linux-x86_64-cpython-312/bx/motif/pwm.py -> build/bdist.linux-x86_64/wheel/./bx/motif -copying build/lib.linux-x86_64-cpython-312/bx/motif/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/motif -copying build/lib.linux-x86_64-cpython-312/bx/bitset_utils.py -> build/bdist.linux-x86_64/wheel/./bx -copying build/lib.linux-x86_64-cpython-312/bx/__init__.py -> build/bdist.linux-x86_64/wheel/./bx -copying build/lib.linux-x86_64-cpython-312/bx/_seqmapping.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/seq/twobit.py -> build/bdist.linux-x86_64/wheel/./bx/seq +copying build/lib.linux-x86_64-cpython-312/bx/seq/seq.py -> build/bdist.linux-x86_64/wheel/./bx/seq +copying build/lib.linux-x86_64-cpython-312/bx/seq/fasta.py -> build/bdist.linux-x86_64/wheel/./bx/seq +creating build/bdist.linux-x86_64/wheel/bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/bbi/bpt_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/bbi/bigwig_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/bbi/bigbed_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/bbi/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/bbi/bigwig_tests.py -> build/bdist.linux-x86_64/wheel/./bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/bbi/bbi_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/bbi/cirtree_file.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/bbi +copying build/lib.linux-x86_64-cpython-312/bx/seqmapping_tests.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/interval_index_file.py -> build/bdist.linux-x86_64/wheel/./bx creating build/bdist.linux-x86_64/wheel/bx/align -creating build/bdist.linux-x86_64/wheel/bx/align/sitemask -copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/cpg.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask -copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/core.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask -copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/_cpg.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask -copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/quality.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask -copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask -copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/sitemask_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask -copying build/lib.linux-x86_64-cpython-312/bx/align/score_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align -copying build/lib.linux-x86_64-cpython-312/bx/align/epo.py -> build/bdist.linux-x86_64/wheel/./bx/align -copying build/lib.linux-x86_64-cpython-312/bx/align/lav_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align copying build/lib.linux-x86_64-cpython-312/bx/align/_epo.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/align -copying build/lib.linux-x86_64-cpython-312/bx/align/axt.py -> build/bdist.linux-x86_64/wheel/./bx/align creating build/bdist.linux-x86_64/wheel/bx/align/tools -copying build/lib.linux-x86_64-cpython-312/bx/align/tools/tile.py -> build/bdist.linux-x86_64/wheel/./bx/align/tools copying build/lib.linux-x86_64-cpython-312/bx/align/tools/fuse.py -> build/bdist.linux-x86_64/wheel/./bx/align/tools copying build/lib.linux-x86_64-cpython-312/bx/align/tools/thread.py -> build/bdist.linux-x86_64/wheel/./bx/align/tools copying build/lib.linux-x86_64-cpython-312/bx/align/tools/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/align/tools copying build/lib.linux-x86_64-cpython-312/bx/align/tools/chop.py -> build/bdist.linux-x86_64/wheel/./bx/align/tools -copying build/lib.linux-x86_64-cpython-312/bx/align/_core.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/align -copying build/lib.linux-x86_64-cpython-312/bx/align/score.py -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/tools/tile.py -> build/bdist.linux-x86_64/wheel/./bx/align/tools +copying build/lib.linux-x86_64-cpython-312/bx/align/lav_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/lav.py -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/epo.py -> build/bdist.linux-x86_64/wheel/./bx/align +creating build/bdist.linux-x86_64/wheel/bx/align/sitemask +copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/sitemask_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask +copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/quality.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask +copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/core.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask +copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask +copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/_cpg.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask +copying build/lib.linux-x86_64-cpython-312/bx/align/sitemask/cpg.py -> build/bdist.linux-x86_64/wheel/./bx/align/sitemask copying build/lib.linux-x86_64-cpython-312/bx/align/core.py -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/score.py -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/maf.py -> build/bdist.linux-x86_64/wheel/./bx/align copying build/lib.linux-x86_64-cpython-312/bx/align/maf_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align copying build/lib.linux-x86_64-cpython-312/bx/align/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/align -copying build/lib.linux-x86_64-cpython-312/bx/align/lav.py -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/_core.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/axt.py -> build/bdist.linux-x86_64/wheel/./bx/align +copying build/lib.linux-x86_64-cpython-312/bx/align/score_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align copying build/lib.linux-x86_64-cpython-312/bx/align/epo_tests.py -> build/bdist.linux-x86_64/wheel/./bx/align -copying build/lib.linux-x86_64-cpython-312/bx/align/maf.py -> build/bdist.linux-x86_64/wheel/./bx/align -copying build/lib.linux-x86_64-cpython-312/bx/bitset_builders.py -> build/bdist.linux-x86_64/wheel/./bx +creating build/bdist.linux-x86_64/wheel/bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/cdb_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/_seekbzip2.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/seekbzip2_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/cdb.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/seeklzop_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/bgzf_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/filecache.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/binary_file.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/seekbzip2.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/filecache_tests.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/readlengths.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/bgzf.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/misc/seeklzop.py -> build/bdist.linux-x86_64/wheel/./bx/misc +copying build/lib.linux-x86_64-cpython-312/bx/__init__.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/interval_index_file_tests.py -> build/bdist.linux-x86_64/wheel/./bx +creating build/bdist.linux-x86_64/wheel/bx/arrays +copying build/lib.linux-x86_64-cpython-312/bx/arrays/bed.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/arrays +copying build/lib.linux-x86_64-cpython-312/bx/arrays/array_tree_tests.py -> build/bdist.linux-x86_64/wheel/./bx/arrays +copying build/lib.linux-x86_64-cpython-312/bx/arrays/array_tree.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/arrays +copying build/lib.linux-x86_64-cpython-312/bx/arrays/__init__.py -> build/bdist.linux-x86_64/wheel/./bx/arrays +copying build/lib.linux-x86_64-cpython-312/bx/arrays/wiggle.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx/arrays +copying build/lib.linux-x86_64-cpython-312/bx/binned_array.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/gene_reader.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/binned_array_tests.py -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/_seqmapping.cpython-312-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./bx +copying build/lib.linux-x86_64-cpython-312/bx/seqmapping.py -> build/bdist.linux-x86_64/wheel/./bx running install_egg_info running egg_info creating lib/bx_python.egg-info @@ -1475,196 +1511,196 @@ running install_scripts creating build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data creating build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_extract_ranges_indexed.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_drop_overlapping.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_col_counts_all.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_truncate.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/lav_to_maf.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/interval_count_intersections.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_to_axt.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_limit_to_species.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_coverage_by_interval.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_to_concat_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/wiggle_to_binned_array.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_thread_for_species.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/lzop_build_offset_table.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/axt_to_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_split_by_src.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/find_in_sorted_file.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/pretty_table.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/aggregate_scores_in_intervals.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/gene_fourfold_sites.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_filter_max_wc.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_rand_intersect.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/nib_length.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_chunk.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_bigwig_profile.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_coverage.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_print_scores.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_div_sites.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_to_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_subtract_basewise.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/bed_count_by_interval.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_to_int_seqs.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_gap_frequency.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/axt_to_maf.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/div_snp_table_chr.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/mMK_bitset.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_word_frequency.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/random_lines.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_count_overlapping.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_to_concat_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/get_scores_in_intervals.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/maf_shuffle_columns.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_covered_ranges.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_filter.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_limit_to_species.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/qv_to_bqv.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/bed_merge_overlapping.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/table_filter.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/interval_count_intersections.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_col_counts_all.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_intersect.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/prefix_lines.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_col_counts.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_diff_basewise_summary.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/ucsc_gene_table_to_intervals.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_count.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_extract_chrom_ranges.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_coverage_by_interval.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/axt_extract_ranges.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_tile_2bit.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/gene_fourfold_sites.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_chop.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/qv_to_bqv.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_extract_ranges.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_complement.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_drop_overlapping.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/maf_percent_columns_matching.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_select.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/div_snp_table_chr.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_split_by_src.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_extend_to.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_gc_content.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_extract_chrom_ranges.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_col_counts.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_to_int_seqs.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/one_field_per_line.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/align_print_template.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_species_in_all_files.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/wiggle_to_array_tree.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/aggregate_scores_in_intervals.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_word_frequency.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/mMK_bitset.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/mask_quality.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_gc_content.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/bed_intersect_basewise.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_interval_alignibility.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_chunk.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/align_print_template.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_covered_regions.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/one_field_per_line.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/nib_length.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/line_select.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_region_coverage_by_src.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_bigwig_profile.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_mapping_word_frequency.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_chop.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/out_to_chain.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_mask_cpg.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/maf_print_chroms.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_tile.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_diff_basewise_summary.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_extract_ranges.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_print_scores.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/int_seqs_to_char_strings.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_rand_intersect.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/tfloc_summary.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_percent_identity.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_subtract_basewise.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/table_filter.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_filter.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_region_coverage_by_src.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_extract_ranges_indexed.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/bed_build_windows.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/axt_to_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_mask_cpg.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/pretty_table.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_to_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_randomize.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/interval_join.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_filter_max_wc.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/out_to_chain.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/int_seqs_to_char_strings.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_truncate.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/wiggle_to_simple.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/lav_to_axt.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_complement.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/wiggle_to_chr_binned_array.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/interval_join.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/table_add_column.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/axt_to_maf.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_count_overlapping.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bnMapper.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_species_in_all_files.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/nib_intervals_to_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/wiggle_to_binned_array.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_count.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_coverage.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/random_lines.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_gap_frequency.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/get_scores_in_intervals.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/line_select.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/maf_mean_length_ungapped_piece.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_translate_chars.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_to_axt.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/lav_to_maf.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_tile_2.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/maf_build_index.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bnMapper.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_interval_alignibility.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/nib_intervals_to_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/tfloc_summary.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/mask_quality.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_select.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_mapping_word_frequency.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_randomize.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/axt_to_lav.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/lzop_build_offset_table.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/bed_intersect.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/find_in_sorted_file.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/ucsc_gene_table_to_intervals.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_tile_2.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_thread_for_species.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_translate_chars.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/bed_extend_to.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_tile.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_tile_2bit.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_percent_identity.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/lav_to_axt.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/wiggle_to_chr_binned_array.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +copying build/scripts-3.12/maf_covered_ranges.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.12/nib_chrom_intervals_to_fasta.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/prefix_lines.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -copying build/scripts-3.12/maf_div_sites.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_extract_ranges_indexed.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_drop_overlapping.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_col_counts_all.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_truncate.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/lav_to_maf.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/interval_count_intersections.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_axt.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_limit_to_species.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_coverage_by_interval.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_concat_fasta.py to 755 +copying build/scripts-3.12/maf_covered_regions.py -> build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_binned_array.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_thread_for_species.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/lzop_build_offset_table.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/axt_to_fasta.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_split_by_src.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/find_in_sorted_file.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/pretty_table.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/aggregate_scores_in_intervals.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/gene_fourfold_sites.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_filter_max_wc.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_rand_intersect.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/nib_length.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_chunk.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_bigwig_profile.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_coverage.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_print_scores.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_div_sites.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_fasta.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_subtract_basewise.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_count_by_interval.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_int_seqs.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_gap_frequency.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/axt_to_maf.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/div_snp_table_chr.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/mMK_bitset.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_word_frequency.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/random_lines.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_count_overlapping.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_concat_fasta.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/get_scores_in_intervals.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_shuffle_columns.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_covered_ranges.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_filter.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_limit_to_species.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/qv_to_bqv.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_merge_overlapping.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/table_filter.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/interval_count_intersections.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_col_counts_all.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_intersect.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/prefix_lines.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_col_counts.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_diff_basewise_summary.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/ucsc_gene_table_to_intervals.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_count.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_extract_chrom_ranges.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_coverage_by_interval.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/axt_extract_ranges.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_tile_2bit.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/gene_fourfold_sites.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_chop.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/qv_to_bqv.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_extract_ranges.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_complement.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_drop_overlapping.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_percent_columns_matching.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_select.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/div_snp_table_chr.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_split_by_src.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_extend_to.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_gc_content.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_extract_chrom_ranges.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_col_counts.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_int_seqs.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/one_field_per_line.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/align_print_template.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_species_in_all_files.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_array_tree.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/aggregate_scores_in_intervals.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_word_frequency.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/mMK_bitset.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/mask_quality.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_gc_content.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_intersect_basewise.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_interval_alignibility.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_chunk.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/align_print_template.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_covered_regions.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/one_field_per_line.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/nib_length.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/line_select.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_region_coverage_by_src.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_bigwig_profile.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_mapping_word_frequency.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_chop.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/out_to_chain.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_mask_cpg.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_print_chroms.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_tile.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_diff_basewise_summary.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_extract_ranges.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_print_scores.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/int_seqs_to_char_strings.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_rand_intersect.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/tfloc_summary.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_percent_identity.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_subtract_basewise.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/table_filter.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_filter.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_region_coverage_by_src.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_extract_ranges_indexed.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_build_windows.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/axt_to_fasta.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_mask_cpg.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/pretty_table.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_fasta.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_randomize.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/interval_join.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_filter_max_wc.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/out_to_chain.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/int_seqs_to_char_strings.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_truncate.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_simple.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/lav_to_axt.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_complement.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_chr_binned_array.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/interval_join.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/table_add_column.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/axt_to_maf.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_count_overlapping.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bnMapper.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_species_in_all_files.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/nib_intervals_to_fasta.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_binned_array.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_count.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_coverage.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/random_lines.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_gap_frequency.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/get_scores_in_intervals.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/line_select.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_mean_length_ungapped_piece.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_translate_chars.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_to_axt.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/lav_to_maf.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_tile_2.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_build_index.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bnMapper.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_interval_alignibility.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/nib_intervals_to_fasta.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/tfloc_summary.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/mask_quality.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_select.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_mapping_word_frequency.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_randomize.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/axt_to_lav.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/lzop_build_offset_table.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_intersect.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/find_in_sorted_file.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/ucsc_gene_table_to_intervals.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_tile_2.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_thread_for_species.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_translate_chars.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/bed_extend_to.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_tile.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_tile_2bit.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_percent_identity.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/lav_to_axt.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_chr_binned_array.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_covered_ranges.py to 755 changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/nib_chrom_intervals_to_fasta.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/prefix_lines.py to 755 -changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_div_sites.py to 755 +changing mode of build/bdist.linux-x86_64/wheel/bx_python-0.13.0.data/scripts/maf_covered_regions.py to 755 creating build/bdist.linux-x86_64/wheel/bx_python-0.13.0.dist-info/WHEEL -creating '/build/reproducible-path/python-bx-0.13.0/.pybuild/cpython3_3.12_bx-python/.tmp-9z23l2w7/bx_python-0.13.0-cp312-cp312-linux_x86_64.whl' and adding 'build/bdist.linux-x86_64/wheel' to it +creating '/build/reproducible-path/python-bx-0.13.0/.pybuild/cpython3_3.12_bx-python/.tmp-xtd2et67/bx_python-0.13.0-cp312-cp312-linux_x86_64.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'bx/__init__.py' adding 'bx/_seqmapping.cpython-312-x86_64-linux-gnu.so' adding 'bx/binned_array.py' @@ -1955,7 +1991,7 @@ assert allclose(sd.sum_data / sd.valid_count, values) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -======================= 139 passed, 6 warnings in 6.25s ======================== +======================= 139 passed, 6 warnings in 4.94s ======================== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -1966,100 +2002,100 @@ debian/rules override_dh_python3 make[1]: Entering directory '/build/reproducible-path/python-bx-0.13.0' dh_python3 --shebang=/usr/bin/python3 -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_extract_ranges_indexed.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_drop_overlapping.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_col_counts_all.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_truncate.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/lav_to_maf.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/interval_count_intersections.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_axt.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_limit_to_species.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_coverage_by_interval.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_concat_fasta.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_binned_array.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_thread_for_species.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/lzop_build_offset_table.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/axt_to_fasta.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_split_by_src.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/find_in_sorted_file.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/pretty_table.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/aggregate_scores_in_intervals.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/gene_fourfold_sites.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_filter_max_wc.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_rand_intersect.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/nib_length.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_chunk.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_bigwig_profile.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_coverage.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_print_scores.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_div_sites.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_fasta.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_subtract_basewise.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_count_by_interval.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_int_seqs.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_gap_frequency.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/axt_to_maf.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/div_snp_table_chr.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/mMK_bitset.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_word_frequency.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/random_lines.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_count_overlapping.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_concat_fasta.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/get_scores_in_intervals.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_shuffle_columns.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_covered_ranges.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_filter.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_limit_to_species.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/qv_to_bqv.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_merge_overlapping.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/table_filter.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/interval_count_intersections.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_col_counts_all.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_intersect.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/prefix_lines.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_col_counts.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_diff_basewise_summary.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/ucsc_gene_table_to_intervals.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_count.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_extract_chrom_ranges.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_coverage_by_interval.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/axt_extract_ranges.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_tile_2bit.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/gene_fourfold_sites.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_chop.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/qv_to_bqv.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_extract_ranges.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_complement.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_drop_overlapping.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_percent_columns_matching.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_select.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/div_snp_table_chr.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_split_by_src.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_extend_to.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_gc_content.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_extract_chrom_ranges.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_col_counts.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_int_seqs.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/one_field_per_line.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/align_print_template.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_species_in_all_files.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_array_tree.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/aggregate_scores_in_intervals.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_word_frequency.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/mMK_bitset.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/mask_quality.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_gc_content.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_intersect_basewise.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_interval_alignibility.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_chunk.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/align_print_template.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_covered_regions.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/one_field_per_line.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/nib_length.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/line_select.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_region_coverage_by_src.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_bigwig_profile.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_mapping_word_frequency.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_chop.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/out_to_chain.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_mask_cpg.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_print_chroms.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_tile.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_diff_basewise_summary.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_extract_ranges.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_print_scores.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/int_seqs_to_char_strings.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_rand_intersect.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/tfloc_summary.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_percent_identity.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_subtract_basewise.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/table_filter.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_filter.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_region_coverage_by_src.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_extract_ranges_indexed.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_build_windows.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/axt_to_fasta.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_mask_cpg.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/pretty_table.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_fasta.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_randomize.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/interval_join.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_filter_max_wc.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/out_to_chain.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/int_seqs_to_char_strings.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_truncate.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_simple.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/lav_to_axt.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_complement.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_chr_binned_array.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/interval_join.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/table_add_column.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/axt_to_maf.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_count_overlapping.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bnMapper.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_species_in_all_files.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/nib_intervals_to_fasta.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_binned_array.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_count.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_coverage.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/random_lines.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_gap_frequency.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/get_scores_in_intervals.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/line_select.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_mean_length_ungapped_piece.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_translate_chars.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_to_axt.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/lav_to_maf.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_tile_2.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_build_index.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bnMapper.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_interval_alignibility.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/nib_intervals_to_fasta.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/tfloc_summary.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/mask_quality.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_select.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_mapping_word_frequency.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_randomize.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/axt_to_lav.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/lzop_build_offset_table.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_intersect.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/find_in_sorted_file.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/ucsc_gene_table_to_intervals.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_tile_2.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_thread_for_species.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_translate_chars.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/bed_extend_to.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_tile.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_tile_2bit.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_percent_identity.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/lav_to_axt.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_chr_binned_array.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_covered_ranges.py I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/nib_chrom_intervals_to_fasta.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/prefix_lines.py -I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_div_sites.py +I: dh_python3 tools:113: replacing shebang in debian/python3-bx/usr/bin/maf_covered_regions.py dh_numpy3 make[1]: Leaving directory '/build/reproducible-path/python-bx-0.13.0' dh_installsystemduser -O--buildsystem=pybuild @@ -2087,12 +2123,14 @@ 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/2863652/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2863652/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/2525591 and its subdirectories -I: Current time: Sun Oct 20 13:31:01 -12 2024 -I: pbuilder-time-stamp: 1729474261 +I: removing directory /srv/workspace/pbuilder/2863652 and its subdirectories +I: Current time: Sun Nov 23 21:56:38 +14 2025 +I: pbuilder-time-stamp: 1763884598