0s autopkgtest [13:25:26]: starting date and time: 2025-02-21 13:25:26+0000 0s autopkgtest [13:25:26]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [13:25:26]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.k26ovzqj/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:build-essential --apt-upgrade libslow5lib --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=build-essential/12.12 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-20.secgroup --name adt-plucky-arm64-libslow5lib-20250221-132526-juju-7f2275-prod-proposed-migration-environment-2-2eb4d34e-1349-4858-beac-a3b7905ddeb4 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 139s autopkgtest [13:27:45]: testbed dpkg architecture: arm64 140s autopkgtest [13:27:46]: testbed apt version: 2.9.30ubuntu1 140s autopkgtest [13:27:46]: @@@@@@@@@@@@@@@@@@@@ test bed setup 140s autopkgtest [13:27:46]: testbed release detected to be: None 141s autopkgtest [13:27:47]: updating testbed package index (apt update) 141s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 142s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 142s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 142s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 142s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 142s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [719 kB] 142s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [90.3 kB] 142s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.8 kB] 142s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [132 kB] 142s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [7960 B] 142s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [677 kB] 142s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [10.7 kB] 142s Fetched 1765 kB in 1s (1984 kB/s) 143s Reading package lists... 144s Reading package lists... 145s Building dependency tree... 145s Reading state information... 145s Calculating upgrade... 145s Calculating upgrade... 146s The following packages will be upgraded: 146s base-files cloud-init cloud-init-base gcc-14-base motd-news-config 146s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 146s Need to get 752 kB of archives. 146s After this operation, 19.5 kB of additional disk space will be used. 146s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 motd-news-config all 13.6ubuntu1 [5168 B] 146s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 base-files arm64 13.6ubuntu1 [75.6 kB] 146s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14-base arm64 14.2.0-17ubuntu3 [53.6 kB] 146s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 cloud-init-base all 25.1-0ubuntu1 [616 kB] 146s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 cloud-init all 25.1-0ubuntu1 [2088 B] 147s Preconfiguring packages ... 147s Fetched 752 kB in 1s (1261 kB/s) 147s (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 ... 116668 files and directories currently installed.) 147s Preparing to unpack .../motd-news-config_13.6ubuntu1_all.deb ... 147s Unpacking motd-news-config (13.6ubuntu1) over (13.5ubuntu3) ... 148s Preparing to unpack .../base-files_13.6ubuntu1_arm64.deb ... 148s Unpacking base-files (13.6ubuntu1) over (13.5ubuntu3) ... 148s Setting up base-files (13.6ubuntu1) ... 148s Updating /root/.profile to current default. 149s motd-news.service is a disabled or a static unit not running, not starting it. 149s (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 ... 116668 files and directories currently installed.) 149s Preparing to unpack .../gcc-14-base_14.2.0-17ubuntu3_arm64.deb ... 149s Unpacking gcc-14-base:arm64 (14.2.0-17ubuntu3) over (14.2.0-17ubuntu1) ... 149s Preparing to unpack .../cloud-init-base_25.1-0ubuntu1_all.deb ... 149s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 149s for fn in glob1(directory, "%s.*" % fname): 149s Unpacking cloud-init-base (25.1-0ubuntu1) over (25.1~3geb1965a4-0ubuntu1) ... 149s Preparing to unpack .../cloud-init_25.1-0ubuntu1_all.deb ... 149s Unpacking cloud-init (25.1-0ubuntu1) over (25.1~3geb1965a4-0ubuntu1) ... 149s Setting up motd-news-config (13.6ubuntu1) ... 149s Setting up gcc-14-base:arm64 (14.2.0-17ubuntu3) ... 149s Setting up cloud-init-base (25.1-0ubuntu1) ... 151s Setting up cloud-init (25.1-0ubuntu1) ... 151s Processing triggers for man-db (2.13.0-1) ... 152s Processing triggers for plymouth-theme-ubuntu-text (24.004.60-2ubuntu5) ... 152s Processing triggers for install-info (7.1.1-1) ... 152s Processing triggers for rsyslog (8.2412.0-2ubuntu1) ... 152s Processing triggers for initramfs-tools (0.145ubuntu2) ... 152s update-initramfs: Generating /boot/initrd.img-6.12.0-15-generic 152s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 173s System running in EFI mode, skipping. 174s Reading package lists... 174s Building dependency tree... 174s Reading state information... 174s Solving dependencies... 175s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 175s autopkgtest [13:28:21]: upgrading testbed (apt dist-upgrade and autopurge) 175s Reading package lists... 175s Building dependency tree... 175s Reading state information... 176s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 176s Starting 2 pkgProblemResolver with broken count: 0 176s Done 177s Entering ResolveByKeep 177s 177s Calculating upgrade... 178s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 178s Reading package lists... 178s Building dependency tree... 178s Reading state information... 178s Starting pkgProblemResolver with broken count: 0 179s Starting 2 pkgProblemResolver with broken count: 0 179s Done 179s Solving dependencies... 179s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 180s autopkgtest [13:28:26]: rebooting testbed after setup commands that affected boot 203s autopkgtest [13:28:49]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP PREEMPT_DYNAMIC Tue Feb 4 15:49:33 UTC 2025 206s autopkgtest [13:28:52]: @@@@@@@@@@@@@@@@@@@@ apt-source libslow5lib 210s Get:1 http://ftpmaster.internal/ubuntu plucky/universe libslow5lib 0.7.0+dfsg-3build2 (dsc) [2457 B] 210s Get:2 http://ftpmaster.internal/ubuntu plucky/universe libslow5lib 0.7.0+dfsg-3build2 (tar) [2014 kB] 210s Get:3 http://ftpmaster.internal/ubuntu plucky/universe libslow5lib 0.7.0+dfsg-3build2 (diff) [8464 B] 210s gpgv: Signature made Tue Jan 28 11:27:41 2025 UTC 210s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 210s gpgv: Can't check signature: No public key 210s dpkg-source: warning: cannot verify inline signature for ./libslow5lib_0.7.0+dfsg-3build2.dsc: no acceptable signature found 210s autopkgtest [13:28:56]: testing package libslow5lib version 0.7.0+dfsg-3build2 211s autopkgtest [13:28:57]: build not needed 213s autopkgtest [13:28:59]: test run-pybinding-test: preparing testbed 213s Reading package lists... 213s Building dependency tree... 213s Reading state information... 214s Starting pkgProblemResolver with broken count: 0 214s Starting 2 pkgProblemResolver with broken count: 0 214s Done 214s The following NEW packages will be installed: 214s libblas3 libgfortran5 liblapack3 libslow5-0t64 libslow5-dev libstreamvbyte0 214s python3-all python3-numpy python3-slow5 python3.12 python3.12-minimal 215s 0 upgraded, 11 newly installed, 0 to remove and 0 not upgraded. 215s Need to get 10.7 MB of archives. 215s After this operation, 53.5 MB of additional disk space will be used. 215s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-minimal arm64 3.12.9-1 [2236 kB] 215s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12 arm64 3.12.9-1 [671 kB] 215s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.1-2 [161 kB] 215s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 15-20250213-1ubuntu1 [443 kB] 215s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.1-2 [2307 kB] 215s Get:6 http://ftpmaster.internal/ubuntu plucky/universe arm64 libslow5-0t64 arm64 0.7.0+dfsg-3build2 [62.3 kB] 215s Get:7 http://ftpmaster.internal/ubuntu plucky/universe arm64 libslow5-dev arm64 0.7.0+dfsg-3build2 [90.4 kB] 215s Get:8 http://ftpmaster.internal/ubuntu plucky/universe arm64 libstreamvbyte0 arm64 0.4.1-4ubuntu1 [6260 B] 215s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-all arm64 3.13.1-1~exp2 [894 B] 215s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-13 [4148 kB] 216s Get:11 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-slow5 arm64 0.7.0+dfsg-3build2 [538 kB] 216s Fetched 10.7 MB in 1s (9166 kB/s) 216s Selecting previously unselected package python3.12-minimal. 216s (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 ... 116669 files and directories currently installed.) 216s Preparing to unpack .../00-python3.12-minimal_3.12.9-1_arm64.deb ... 216s Unpacking python3.12-minimal (3.12.9-1) ... 217s Selecting previously unselected package python3.12. 217s Preparing to unpack .../01-python3.12_3.12.9-1_arm64.deb ... 217s Unpacking python3.12 (3.12.9-1) ... 217s Selecting previously unselected package libblas3:arm64. 217s Preparing to unpack .../02-libblas3_3.12.1-2_arm64.deb ... 217s Unpacking libblas3:arm64 (3.12.1-2) ... 217s Selecting previously unselected package libgfortran5:arm64. 217s Preparing to unpack .../03-libgfortran5_15-20250213-1ubuntu1_arm64.deb ... 217s Unpacking libgfortran5:arm64 (15-20250213-1ubuntu1) ... 217s Selecting previously unselected package liblapack3:arm64. 217s Preparing to unpack .../04-liblapack3_3.12.1-2_arm64.deb ... 217s Unpacking liblapack3:arm64 (3.12.1-2) ... 217s Selecting previously unselected package libslow5-0t64:arm64. 217s Preparing to unpack .../05-libslow5-0t64_0.7.0+dfsg-3build2_arm64.deb ... 217s Unpacking libslow5-0t64:arm64 (0.7.0+dfsg-3build2) ... 217s Selecting previously unselected package libslow5-dev:arm64. 217s Preparing to unpack .../06-libslow5-dev_0.7.0+dfsg-3build2_arm64.deb ... 217s Unpacking libslow5-dev:arm64 (0.7.0+dfsg-3build2) ... 217s Selecting previously unselected package libstreamvbyte0:arm64. 217s Preparing to unpack .../07-libstreamvbyte0_0.4.1-4ubuntu1_arm64.deb ... 217s Unpacking libstreamvbyte0:arm64 (0.4.1-4ubuntu1) ... 217s Selecting previously unselected package python3-all. 217s Preparing to unpack .../08-python3-all_3.13.1-1~exp2_arm64.deb ... 217s Unpacking python3-all (3.13.1-1~exp2) ... 217s Selecting previously unselected package python3-numpy. 217s Preparing to unpack .../09-python3-numpy_1%3a1.26.4+ds-13_arm64.deb ... 217s Unpacking python3-numpy (1:1.26.4+ds-13) ... 218s Selecting previously unselected package python3-slow5. 218s Preparing to unpack .../10-python3-slow5_0.7.0+dfsg-3build2_arm64.deb ... 218s Unpacking python3-slow5 (0.7.0+dfsg-3build2) ... 218s Setting up python3.12-minimal (3.12.9-1) ... 219s Setting up libstreamvbyte0:arm64 (0.4.1-4ubuntu1) ... 219s Setting up python3.12 (3.12.9-1) ... 220s Setting up python3-all (3.13.1-1~exp2) ... 220s Setting up libblas3:arm64 (3.12.1-2) ... 220s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 220s Setting up libslow5-0t64:arm64 (0.7.0+dfsg-3build2) ... 220s Setting up libgfortran5:arm64 (15-20250213-1ubuntu1) ... 220s Setting up liblapack3:arm64 (3.12.1-2) ... 220s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 220s Setting up libslow5-dev:arm64 (0.7.0+dfsg-3build2) ... 220s Setting up python3-numpy (1:1.26.4+ds-13) ... 224s Setting up python3-slow5 (0.7.0+dfsg-3build2) ... 224s Processing triggers for systemd (257.2-3ubuntu1) ... 224s Processing triggers for man-db (2.13.0-1) ... 225s Processing triggers for libc-bin (2.40-4ubuntu1) ... 227s autopkgtest [13:29:13]: test run-pybinding-test: [----------------------- 227s Testing with python3.12 in /tmp/autopkgtest.pe9nQ1/autopkgtest_tmp: 227s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example.slow5, mode: r 227s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example.slow5', mode: b'r' 227s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 1 227s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example.slow5, mode: r 227s 21-Feb-25 13:29:14 - [DEBUG]: Creating/loading index... 227s [slow5_idx_init::INFO] Index file not found. Creating an index at 'examples/example.slow5.idx'. 227s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names starting 227s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names aux_len: 0 227s 21-Feb-25 13:29:14 - [WARNING]: get_aux_names ret is NULL 227s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types starting 227s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types aux_len: 0 227s 21-Feb-25 13:29:14 - [WARNING]: get_aux_types self.s5_aux_type is NULL 227s 21-Feb-25 13:29:14 - [WARNING]: get_read unknown aux name: read_number 227s 21-Feb-25 13:29:14 - [WARNING]: get_read unknown aux name: start_mux 227s 21-Feb-25 13:29:14 - [WARNING]: get_read unknown aux name: blah 227s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 227s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 227s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 227s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 227s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 227s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: -1 227s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 227s [slow5_idx_get::ERROR] Read ID 'null_read' was not found. At src/slow5_idx.c:441 227s 21-Feb-25 13:29:14 - [DEBUG]: get_read return not 0: -7 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_hdr_keys head_len: 32 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_hdr_keys head_len: 32 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: Creating/loading index... 228s [slow5_idx_init::INFO] Index file not found. Creating an index at 'examples/example2.slow5.idx'. 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:14 - [WARNING]: get_read unknown aux name: blah 228s 21-Feb-25 13:29:14 - [WARNING]: get_read unknown aux name: blah 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example_write.slow5, mode: w 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example_write.slow5', mode: b'w' 228s 21-Feb-25 13:29:14 - [DEBUG]: Not writing blow5, skipping compression steps 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checking header stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: writting header... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: header written 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 305872 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152707 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 305872 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152707 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 305872 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152707 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 305906 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152741 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example_write_append.blow5, mode: w 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example_write_append.blow5', mode: b'w' 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write.slow5 already closed 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example_write.slow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.027582883834838867 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.01762247085571289 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.018764019012451172 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checking header stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: writting header... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: header written 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152976 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76384 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152976 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76384 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152976 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76384 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153010 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76418 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write_append.blow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example_write_append.blow5, mode: a 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example_write_append.blow5', mode: b'a' 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_hdr_keys head_len: 38 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.017174243927001953 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.018155813217163086 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152983 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s |==============================================| 228s | pyslow5 test launch | 228s |==============================================| 228s ['__class__', '__delattr__', '__dir__', '__doc__', '__eq__', '__format__', '__ge__', '__getattribute__', '__getstate__', '__gt__', '__hash__', '__init__', '__init_subclass__', '__le__', '__lt__', '__ne__', '__new__', '__reduce__', '__reduce_ex__', '__repr__', '__setattr__', '__setstate__', '__sizeof__', '__str__', '__subclasshook__', '_aux_header_type_validation', '_convert_to_pA', '_get_batches', '_get_read', '_get_read_aux', '_get_read_multi', '_get_seq_read_aux', '_header_type_validation', '_multi_record_type_validation', '_record_type_validation', 'close', 'get_all_headers', 'get_aux_names', 'get_aux_types', 'get_empty_header', 'get_empty_record', 'get_header_names', 'get_header_value', 'get_read', 'get_read_ids', 'get_read_list', 'get_read_list_multi', 'seq_reads', 'seq_reads_multi', 'write_header', 'write_record', 'write_record_batch'] 228s slow5 file opened and object created in: 0.0011 seconds 228s ============================================== 228s get_read check, r1 228s get_read in: 0.0056 seconds 228s read_id: r1 228s read_group: 0 228s digitisation: 8192.0 228s offset: 23.0 228s range: 1467.61 228s sampling_rate: 4000.0 228s len_raw_signal: 59676 228s signal: [1039 588 588 593 586 574 570 585 588 586] 228s pylen of signal: 59676 228s AUX FIELDS: 228s read_number: None 228s start_mux: None 228s blah: None 228s ============================================== 228s get_read check, r4, converte to pA 228s get_read in: 0.0047 seconds 228s read_id: r4 228s read_group: 0 228s digitisation: 8192.0 228s offset: 23.0 228s range: 1467.61 228s sampling_rate: 4000.0 228s len_raw_signal: 59670 228s signal: [190.25902 108.92418 109.46163 109.10333 107.67012 108.38673 228s 108.745026 109.10333 111.074 108.38673 ] 228s pylen of signal: 59670 228s signal value type: 228s ============================================== 228s seq_reads check, all reads 228s seq_reads readIDs: 228s type check reads: 228s r1 228s r2 228s r3 228s r4 228s r5 228s seq_reads in: 0.0131 seconds 228s ============================================== 228s Yield check, selected reads 228s get_read_list in: 0.0 seconds 228s yielded readIDs: 228s r1 r1 228s r3 r3 228s null_read read not found, None returned 228s r5 r5 228s r2 r2 228s r1 r1 228s ============================================== 228s Get headder names 228s header names: 228s ['asic_id', 'asic_id_eeprom', 'asic_temp', 'auto_update', 'auto_update_source', 'bream_core_version', 'bream_is_standard', 'bream_map_version', 'bream_ont_version', 'bream_prod_version', 'bream_rnd_version', 'device_id', 'exp_script_name', 'exp_script_purpose', 'exp_start_time', 'experiment_kit', 'experiment_type', 'file_version', 'filename', 'flow_cell_id', 'heatsink_temp', 'hostname', 'installation_type', 'local_firmware_file', 'operating_system', 'protocol_run_id', 'protocols_version', 'run_id', 'sample_frequency', 'usb_config', 'user_filename_input', 'version'] 228s ============================================== 228s get_all_headers 228s {'asic_id': '3574887596', 'asic_id_eeprom': '0', 'asic_temp': '29.2145729', 'auto_update': '1', 'auto_update_source': 'https://mirror.oxfordnanoportal.com/software/MinKNOW/', 'bream_core_version': '1.1.20.1', 'bream_is_standard': '1', 'bream_map_version': '1.1.20.1', 'bream_ont_version': '1.1.20.1', 'bream_prod_version': '1.1.20.1', 'bream_rnd_version': '0.1.1', 'device_id': 'MN16450', 'exp_script_name': 'python/recipes/nc/NC_48Hr_Sequencing_Run_FLO-MIN106_SQK-LSK108.py', 'exp_script_purpose': 'sequencing_run', 'exp_start_time': '1479433093', 'experiment_kit': 'genomic_dna', 'experiment_type': 'customer_qc', 'file_version': '1', 'filename': 'deamernanopore_20161117_fnfab43577_mn16450_sequencing_run_ma_821_r9_4_na12878_11_17_16_88738', 'flow_cell_id': 'FAB43577', 'heatsink_temp': '33.9921875', 'hostname': 'DEAMERNANOPORE', 'installation_type': 'map', 'local_firmware_file': '0', 'operating_system': 'Windows 6.2', 'protocol_run_id': 'a4429838-103c-497f-a824-7dffa72cfd81', 'protocols_version': '1.1.20', 'run_id': 'd6e473a6d513ec6bfc150c60fd4556d72f0e6d18', 'sample_frequency': '4000', 'usb_config': '1.0.11_ONT#MinION_fpga_1.0.1#ctrl#Auto', 'user_filename_input': 'ma_821_r9.4_na12878_11_17_16', 'version': '1.1.20'} 228s ============================================== 228s Get headder attributes 228s flow_cell_id: FAB43577 228s exp_start_time: 1479433093 228s heatsink_temp: 33.9921875 228s asic_id: 3574887596 228s asic_id_eeprom: 0 228s asic_temp: 29.2145729 228s auto_update: 1 228s auto_update_source: https://mirror.oxfordnanoportal.com/software/MinKNOW/ 228s bream_core_version: 1.1.20.1 228s bream_is_standard: 1 228s bream_map_version: 1.1.20.1 228s bream_ont_version: 1.1.20.1 228s bream_prod_version: 1.1.20.1 228s bream_rnd_version: 0.1.1 228s device_id: MN16450 228s exp_script_name: python/recipes/nc/NC_48Hr_Sequencing_Run_FLO-MIN106_SQK-LSK108.py 228s exp_script_purpose: sequencing_run 228s exp_start_time: 1479433093 228s experiment_kit: genomic_dna 228s experiment_type: customer_qc 228s file_version: 1 228s filename: deamernanopore_20161117_fnfab43577_mn16450_sequencing_run_ma_821_r9_4_na12878_11_17_16_88738 228s flow_cell_id: FAB43577 228s heatsink_temp: 33.9921875 228s hostname: DEAMERNANOPORE 228s installation_type: map 228s local_firmware_file: 0 228s operating_system: Windows 6.2 228s protocol_run_id: a4429838-103c-497f-a824-7dffa72cfd81 228s protocols_version: 1.1.20 228s run_id: d6e473a6d513ec6bfc150c60fd4556d72f0e6d18 228s sample_frequency: 4000 228s usb_config: 1.0.11_ONT#MinION_fpga_1.0.1#ctrl#Auto 228s user_filename_input: ma_821_r9.4_na12878_11_17_16 228s version: 1.1.20 228s ============================================== 228s get_read check, 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_id: 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_group: 3 228s digitisation: 8192.0 228s offset: 6.0 228s range: 1444.86 228s sampling_rate: 4000.0 228s len_raw_signal: 38164 228s signal: [1462 1075 795 801 797 788 817 791 801 802] 228s pylen of signal: 38164 228s AUX FIELDS: 228s read_number: 2287 228s start_mux: 2 228s blah: None 228s AUX FIELDS: 228s blah: None 228s AUX FIELDS: 228s read_number: 2287 228s ============================================== 228s Get aux names 228s aux names: 228s ['channel_number', 'median_before', 'read_number', 'start_mux', 'start_time'] 228s ============================================== 228s Get aux types 228s aux types: 228s [22, 9, 2, 4, 7] 228s ============================================== 228s AUX FIELDS: 228s channel_number: 391 228s median_before: 260.557264 228s read_number: 2287 228s start_mux: 2 228s start_time: 36886851 228s ============================================== 228s seq_reads with aux: 228s type check reads: 228s r0 228s read_number 4019 228s r1 228s read_number 2287 228s r2 228s read_number 4019 228s r3 228s read_number 2287 228s r4 228s read_number 4019 228s r5 228s read_number 2287 228s 0a238451-b9ed-446d-a152-badd074006c4 228s read_number 4019 228s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_number 2287 228s ============================================== 228s write reads no aux 228s ret: write_header(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ============================================== 228s append reads no aux 228s ret: write_header(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s get_all_headers 228s {'asic_id': 'test_0', 'asic_id_eeprom': 'test_1', 'asic_temp': 'test_2', 'asic_version': 'test_3', 'auto_update': 'test_4', 'auto_update_source': 'test_5', 'barcoding_enabled': 'test_6', 'bream_is_standard': 'test_7', 'configuration_version': 'test_8', 'device_id': 'test_9', 'device_type': 'test_10', 'distribution_status': 'test_11', 'distribution_version': 'test_12', 'exp_script_name': 'test_13', 'exp_script_purpose': 'test_14', 'exp_start_time': 'test_15', 'experiment_duration_set': 'test_16', 'flow_cell_id': 'test_17', 'flow_cell_product_code': 'test_18', 'guppy_version': 'test_19', 'heatsink_temp': 'test_20', 'hostname': 'test_21', 'hublett_board_id': 'test_36', 'installation_type': 'test_22', 'local_basecalling': 'test_23', 'operating_system': 'test_24', 'package': 'test_25', 'protocol_group_id': 'test_26', 'protocol_run_id': 'test_27', 'protocol_start_time': 'test_28', 'protocols_version': 'test_29', 'run_id': 'test_30', 'sample_frequency': 'test_31', 'sample_id': 'test_32', 'satellite_firmware_version': 'test_37', 'sequencing_kit': 'test_33', 'usb_config': 'test_34', 'version': 'test_35'}21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152983 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 152983 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153017 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76425 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write_append.blow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example_write_aux.blow5, mode: w 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example_write_aux.blow5', mode: b'w' 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write_append.blow5 already closed 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example_write_append.blow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.02734088897705078 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.017178773880004883 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.01829838752746582 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checking header stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: writting header... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: header written 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 67258 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 32408 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 67258 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 32408 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 67260 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 32408 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 67298 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 32446 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write_aux.blow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example_write_append_aux.blow5, mode: w 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example_write_append_aux.blow5', mode: b'w' 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write_aux.blow5 already closed 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example_write_aux.blow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.02743363380432129 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.017328977584838867 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.018652677536010742 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checking header stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: writting header... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: header written 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153008 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76416 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153008 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76416 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153008 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76416 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153042 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76450 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write_append_aux.blow5 closed 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example_write_append_aux.blow5, mode: a 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example_write_append_aux.blow5', mode: b'a' 228s 21-Feb-25 13:29:14 - [DEBUG]: examples/example_write_append.blow5 already closed 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example_write_append.blow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.02770853042602539 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:14 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:14 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:14 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_slow5_get_next: 0.01720118522644043 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_time_yield_reads: 0.01850581169128418 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:14 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153015 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76423 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153015 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 76423 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:14 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_write() ret: 153015 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:14 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:14 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76423 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153049 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76457 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append_aux.blow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi return: 3 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi return: 3 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi return: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi has no more batches - batchsize:3 ret:2 228s 21-Feb-25 13:29:15 - [DEBUG]: seq_reads_multi timings: 228s 21-Feb-25 13:29:15 - [DEBUG]: aux_total_time: 0.0002269744873046875 228s 21-Feb-25 13:29:15 - [DEBUG]: primary_total_time: 0.00022172927856445312 228s 21-Feb-25 13:29:15 - [DEBUG]: pA_total_time: 0.0014688968658447266 228s 21-Feb-25 13:29:15 - [DEBUG]: signal_total_time: 0.0002028942108154297 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.01270151138305664 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.001967191696166992 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: Creating/loading index... 228s 21-Feb-25 13:29:15 - [DEBUG]: Setting up batching... 228s 21-Feb-25 13:29:15 - [DEBUG]: read_list: ['r0', 'r1', 'r2', 'r3', 'r4', 'r5', '0a238451-b9ed-446d-a152-badd074006c4', '0d624d4b-671f-40b8-9798-84f2ccc4d7fc'] 228s 21-Feb-25 13:29:15 - [DEBUG]: batch for loop start 228s 21-Feb-25 13:29:15 - [DEBUG]: Batch: r0,r1,r2 228s 21-Feb-25 13:29:15 - [DEBUG]: Starting rid assignment 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: r0, bin: b'r0' 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: r1, bin: b'r1' 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: r2, bin: b'r2' 228s 21-Feb-25 13:29:15 - [DEBUG]: rid assignment complete 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_batch: num_reads: 3 228s 21-Feb-25 13:29:15 - [DEBUG]: get_read_multi slow5_get_batch ret: 3 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: Batch: r3,r4,r5 228s 21-Feb-25 13:29:15 - [DEBUG]: Starting rid assignment 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: r3, bin: b'r3' 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: r4, bin: b'r4' 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: r5, bin: b'r5' 228s 21-Feb-25 13:29:15 - [DEBUG]: rid assignment complete 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_batch: num_reads: 3 228s 21-Feb-25 13:29:15 - [DEBUG]: get_read_multi slow5_get_batch ret: 3 228s 21-Feb-25 13:29:15 - [DEBUG]: Batch: 0a238451-b9ed-446d-a152-badd074006c4,0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s 21-Feb-25 13:29:15 - [DEBUG]: Starting rid assignment 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: 0a238451-b9ed-446d-a152-badd074006c4, bin: b'0a238451-b9ed-446d-a152-badd074006c4' 228s 21-Feb-25 13:29:15 - [DEBUG]: readID: 0d624d4b-671f-40b8-9798-84f2ccc4d7fc, bin: b'0d624d4b-671f-40b8-9798-84f2ccc4d7fc' 228s 21-Feb-25 13:29:15 - [DEBUG]: rid assignment complete 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_batch: num_reads: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: get_read_multi slow5_get_batch ret: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: seq_reads_multi timings: 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write_aux_multi.slow5, mode: w 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write_aux_multi.slow5', mode: b'w' 228s 21-Feb-25 13:29:15 - [DEBUG]: Not writing blow5, skipping compression steps 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append_aux.blow5 already closed 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_append_aux.blow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.027435302734375 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017446517944335938 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.018670082092285156 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: Setting up batching... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: batch for loop start 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checking header stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: writting header... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: header written 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_write_batch() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() aux 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_write_batch() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() aux 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_write_batch() 228s 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ============================================== 228s write reads with aux 228s ret: write_header(): 0 228s ret: write_header(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ============================================== 228s append reads with aux 228s ret: write_header(): 0 228s ret: write_header(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ============================================== 228s seq_reads_multi with aux: 228s type check reads: 228s r0 228s read_number 4019 228s r1 228s read_number 2287 228s r2 228s read_number 4019 228s r3 228s read_number 2287 228s r4 228s read_number 4019 228s r5 228s read_number 2287 228s 0a238451-b9ed-446d-a152-badd074006c4 228s read_number 4019 228s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_number 2287 228s ============================================== 228s get_reads_multi with aux: 228s type check reads: 228s r0 228s read_number 4019 228s r1 228s read_number 2287 228s r2 228s read_number 4019 228s r3 228s read_number 2287 228s r4 228s read_number 4019 228s r5 228s read_number 2287 228s 0a238451-b9ed-446d-a152-badd074006c4 228s read_number 4019 228s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_number 2287 228s ============================================== 228s write reads with aux multi 228s ret: write_header(): 0 228s ret: write_header(): 0 228s {'r0': {'read_id': 'r0', 'read_group': 0, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r1': {'read_id': 'r1', 'read_group': 0, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, 'r2': {'read_id': 'r2', 'read_group': 1, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r3': {'read_id': 'r3', 'read_group': 1, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, 'r4': {'read_id': 'r4', 'read_group': 2, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r5': {'read_id': 'r5', 'read_group': 2, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, '0a238451-b9ed-446d-a152-badd074006c4': {'read_id': '0a238451-b9ed-446d-a152-badd074006c4', 'read_group': 3, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, '0d624d4b-671f-40b8-9798-84f2ccc4d7fc': {'read_id': '0d624d4b-671f-40b8-9798-84f2ccc4d7fc', 'read_group': 3, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}} 228s {'r0': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r1': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, 'r2': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r3': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, 'r4': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r5': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, '0a238451-b9ed-446d-a152-badd074006c4': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, '0d624d4b-671f-40b8-9798-84f2ccc4d7fc': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}} 228s ret: write_record(): 0 228s ============================================== 228s get all readIDs from index 228s ['r0', 'r1', 'r2', 'r3', 'r4', 'r5', '0a238451-b9ed-446d-a152-badd074006c4', '0d624d4b-671f-40b8-9798-84f2ccc4d7fc'] 228s number of reads: 8 228s ============================================== 228s done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() aux 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_aux_multi.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.01744866371154785 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.018755197525024414 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: Creating/loading index... 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.01142740249633789 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.012788772583007812 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017258405685424805 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.020842313766479492 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_aux_multi.slow5 already closed 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_aux_multi.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0299530029296875 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.05831170082092285 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append_aux.blow5 already closed 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_append_aux.blow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.027869462966918945 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s Testing with python3.13 in /tmp/autopkgtest.pe9nQ1/autopkgtest_tmp: 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 1 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: Creating/loading index... 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 0 228s 21-Feb-25 13:29:15 - [WARNING]: get_aux_names ret is NULL 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 0 228s 21-Feb-25 13:29:15 - [WARNING]: get_aux_types self.s5_aux_type is NULL 228s 21-Feb-25 13:29:15 - [WARNING]: get_read unknown aux name: read_number 228s 21-Feb-25 13:29:15 - [WARNING]: get_read unknown aux name: blah 228s 21-Feb-25 13:29:15 - [WARNING]: get_read unknown aux name: start_mux 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s [slow5_idx_get::ERROR] Read ID 'null_read' was not found. At src/slow5_idx.c:441 228s 21-Feb-25 13:29:15 - [DEBUG]: get_read return not 0: -7 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_hdr_keys head_len: 32 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_hdr_keys head_len: 32 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: Creating/loading index... 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:15 - [WARNING]: get_read unknown aux name: blah 228s 21-Feb-25 13:29:15 - [WARNING]: get_read unknown aux name: blah 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write.slow5, mode: w 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write.slow5', mode: b'w' 228s 21-Feb-25 13:29:15 - [DEBUG]: Not writing blow5, skipping compression steps 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checking header stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: writting header... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: header written 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 305872 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152707 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 305872 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152707 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 305872 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152707 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 305906 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152741 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write_append.blow5, mode: w 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write_append.blow5', mode: b'w' 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write.slow5 already closed 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.026711702346801758 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017223119735717773 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.01834845542907715 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checking header stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: writting header... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: header written 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152976 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76384 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152976 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76384 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152976 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76384 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153010 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76418 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s |==============================================| 228s | pyslow5 test launch | 228s |==============================================| 228s ['__class__', '__delattr__', '__dir__', '__doc__', '__eq__', '__format__', '__ge__', '__getattribute__', '__getstate__', '__gt__', '__hash__', '__init__', '__init_subclass__', '__le__', '__lt__', '__ne__', '__new__', '__reduce__', '__reduce_ex__', '__repr__', '__setattr__', '__setstate__', '__sizeof__', '__str__', '__subclasshook__', '_aux_header_type_validation', '_convert_to_pA', '_get_batches', '_get_read', '_get_read_aux', '_get_read_multi', '_get_seq_read_aux', '_header_type_validation', '_multi_record_type_validation', '_record_type_validation', 'close', 'get_all_headers', 'get_aux_names', 'get_aux_types', 'get_empty_header', 'get_empty_record', 'get_header_names', 'get_header_value', 'get_read', 'get_read_ids', 'get_read_list', 'get_read_list_multi', 'seq_reads', 'seq_reads_multi', 'write_header', 'write_record', 'write_record_batch'] 228s slow5 file opened and object created in: 0.0007 seconds 228s ============================================== 228s get_read check, r1 228s get_read in: 0.0035 seconds 228s read_id: r1 228s read_group: 0 228s digitisation: 8192.0 228s offset: 23.0 228s range: 1467.61 228s sampling_rate: 4000.0 228s len_raw_signal: 59676 228s signal: [1039 588 588 593 586 574 570 585 588 586] 228s pylen of signal: 59676 228s AUX FIELDS: 228s read_number: None 228s start_mux: None 228s blah: None 228s ============================================== 228s get_read check, r4, converte to pA 228s get_read in: 0.0068 seconds 228s read_id: r4 228s read_group: 0 228s digitisation: 8192.0 228s offset: 23.0 228s range: 1467.61 228s sampling_rate: 4000.0 228s len_raw_signal: 59670 228s signal: [190.25902 108.92418 109.46163 109.10333 107.67012 108.38673 228s 108.745026 109.10333 111.074 108.38673 ] 228s pylen of signal: 59670 228s signal value type: 228s ============================================== 228s seq_reads check, all reads 228s seq_reads readIDs: 228s type check reads: 228s r1 228s r2 228s r3 228s r4 228s r5 228s seq_reads in: 0.0127 seconds 228s ============================================== 228s Yield check, selected reads 228s get_read_list in: 0.0 seconds 228s yielded readIDs: 228s r1 r1 228s r3 r3 228s null_read read not found, None returned 228s r5 r5 228s r2 r2 228s r1 r1 228s ============================================== 228s Get headder names 228s header names: 228s ['asic_id', 'asic_id_eeprom', 'asic_temp', 'auto_update', 'auto_update_source', 'bream_core_version', 'bream_is_standard', 'bream_map_version', 'bream_ont_version', 'bream_prod_version', 'bream_rnd_version', 'device_id', 'exp_script_name', 'exp_script_purpose', 'exp_start_time', 'experiment_kit', 'experiment_type', 'file_version', 'filename', 'flow_cell_id', 'heatsink_temp', 'hostname', 'installation_type', 'local_firmware_file', 'operating_system', 'protocol_run_id', 'protocols_version', 'run_id', 'sample_frequency', 'usb_config', 'user_filename_input', 'version'] 228s ============================================== 228s get_all_headers 228s {'asic_id': '3574887596', 'asic_id_eeprom': '0', 'asic_temp': '29.2145729', 'auto_update': '1', 'auto_update_source': 'https://mirror.oxfordnanoportal.com/software/MinKNOW/', 'bream_core_version': '1.1.20.1', 'bream_is_standard': '1', 'bream_map_version': '1.1.20.1', 'bream_ont_version': '1.1.20.1', 'bream_prod_version': '1.1.20.1', 'bream_rnd_version': '0.1.1', 'device_id': 'MN16450', 'exp_script_name': 'python/recipes/nc/NC_48Hr_Sequencing_Run_FLO-MIN106_SQK-LSK108.py', 'exp_script_purpose': 'sequencing_run', 'exp_start_time': '1479433093', 'experiment_kit': 'genomic_dna', 'experiment_type': 'customer_qc', 'file_version': '1', 'filename': 'deamernanopore_20161117_fnfab43577_mn16450_sequencing_run_ma_821_r9_4_na12878_11_17_16_88738', 'flow_cell_id': 'FAB43577', 'heatsink_temp': '33.9921875', 'hostname': 'DEAMERNANOPORE', 'installation_type': 'map', 'local_firmware_file': '0', 'operating_system': 'Windows 6.2', 'protocol_run_id': 'a4429838-103c-497f-a824-7dffa72cfd81', 'protocols_version': '1.1.20', 'run_id': 'd6e473a6d513ec6bfc150c60fd4556d72f0e6d18', 'sample_frequency': '4000', 'usb_config': '1.0.11_ONT#MinION_fpga_1.0.1#ctrl#Auto', 'user_filename_input': 'ma_821_r9.4_na12878_11_17_16', 'version': '1.1.20'} 228s ============================================== 228s Get headder attributes 228s flow_cell_id: FAB43577 228s exp_start_time: 1479433093 228s heatsink_temp: 33.9921875 228s asic_id: 3574887596 228s asic_id_eeprom: 0 228s asic_temp: 29.2145729 228s auto_update: 1 228s auto_update_source: https://mirror.oxfordnanoportal.com/software/MinKNOW/ 228s bream_core_version: 1.1.20.1 228s bream_is_standard: 1 228s bream_map_version: 1.1.20.1 228s bream_ont_version: 1.1.20.1 228s bream_prod_version: 1.1.20.1 228s bream_rnd_version: 0.1.1 228s device_id: MN16450 228s exp_script_name: python/recipes/nc/NC_48Hr_Sequencing_Run_FLO-MIN106_SQK-LSK108.py 228s exp_script_purpose: sequencing_run 228s exp_start_time: 1479433093 228s experiment_kit: genomic_dna 228s experiment_type: customer_qc 228s file_version: 1 228s filename: deamernanopore_20161117_fnfab43577_mn16450_sequencing_run_ma_821_r9_4_na12878_11_17_16_88738 228s flow_cell_id: FAB43577 228s heatsink_temp: 33.9921875 228s hostname: DEAMERNANOPORE 228s installation_type: map 228s local_firmware_file: 0 228s operating_system: Windows 6.2 228s protocol_run_id: a4429838-103c-497f-a824-7dffa72cfd81 228s protocols_version: 1.1.20 228s run_id: d6e473a6d513ec6bfc150c60fd4556d72f0e6d18 228s sample_frequency: 4000 228s usb_config: 1.0.11_ONT#MinION_fpga_1.0.1#ctrl#Auto 228s user_filename_input: ma_821_r9.4_na12878_11_17_16 228s version: 1.1.20 228s ============================================== 228s get_read check, 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_id: 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_group: 3 228s digitisation: 8192.0 228s offset: 6.0 228s range: 1444.86 228s sampling_rate: 4000.0 228s len_raw_signal: 38164 228s signal: [1462 1075 795 801 797 788 817 791 801 802] 228s pylen of signal: 38164 228s AUX FIELDS: 228s read_number: 2287 228s start_mux: 2 228s blah: None 228s AUX FIELDS: 228s blah: None 228s AUX FIELDS: 228s read_number: 2287 228s ============================================== 228s Get aux names 228s aux names: 228s ['channel_number', 'median_before', 'read_number', 'start_mux', 'start_time'] 228s ============================================== 228s Get aux types 228s aux types: 228s [22, 9, 2, 4, 7] 228s ============================================== 228s AUX FIELDS: 228s channel_number: 391 228s median_before: 260.557264 228s read_number: 2287 228s start_mux: 2 228s start_time: 36886851 228s ============================================== 228s seq_reads with aux: 228s type check reads: 228s r0 228s read_number 4019 228s r1 228s read_number 2287 228s r2 228s read_number 4019 228s r3 228s read_number 2287 228s r4 228s read_number 4019 228s r5 228s read_number 2287 228s 0a238451-b9ed-446d-a152-badd074006c4 228s read_number 4019 228s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 228s read_number 2287 228s ============================================== 228s write reads no aux 228s ret: write_header(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ============================================== 228s append reads no aux 228s ret: write_header(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s ret: write_record(): 0 228s get_all_headers 228s {'asic_id': 'test_0', 'asic_id_eeprom': 'test_1', 'asic_temp': 'test_2', 'asic_version': 'test_3', 'auto_update': 'test_4', 'auto_update_source': 'test_5', 'barcoding_enabled': 'test_6', 'bream_is_standard': 'test_7', 'configuration_version': 'test_8', 'device_id': 'test_9', 'device_type': 'test_10', 'distribution_status': 'test_11', 'distribution_version': 'test_12', 'exp_script_name': 'test_13', 'exp_script_purpose': 'test_14', 'exp_start_time': 'test_15', 'experiment_duration_set': 'test_16', 'flow_cell_id': 'test_17', 'flow_cell_product_code': 'test_18', 'guppy_version': 'test_19', 'heatsink_temp': 'test_20', 'hostname': 'test_21', 'hublett_board_id': 'test_36', 'installation_type': 'test_22', 'local_basecalling': 'test_23', 'operating_system': 'test_24', 'package': 'test_25', 'protocol_group_id': 'test_26', 'protocol_run_id': 'test_27', 'protocol_start_time': 'test_28', 'protocols_version': 'test_29', 'run_id': 'test_30', 'sample_frequency': 'test_31', 'sample_id': 'test_32', 'satellite_firmware_version': 'test_37', 'sequencing_kit': 'test_33', 'usb_config': 'test_34', 'version': 'test_35'}21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append.blow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write_append.blow5, mode: a 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write_append.blow5', mode: b'a' 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_hdr_keys head_len: 38 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.01763916015625 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.01869940757751465 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152983 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152983 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 152983 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76391 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153017 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76425 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append.blow5 closed 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write_aux.blow5, mode: w 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write_aux.blow5', mode: b'w' 228s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append.blow5 already closed 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_append.blow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.026821136474609375 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 228s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 228s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 228s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017701387405395508 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.018809080123901367 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 228s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 228s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 228s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checking header stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: writting header... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: header written 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 228s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 67258 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 32408 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 67258 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 32408 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 67260 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 32408 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 67298 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 32446 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_aux.blow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write_append_aux.blow5, mode: w 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write_append_aux.blow5', mode: b'w' 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_aux.blow5 already closed 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_aux.blow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.02696371078491211 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 229s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017238616943359375 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.018651962280273438 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checking header stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: writting header... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: header written 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153008 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76416 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153008 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76416 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153008 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76416 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153042 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76450 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append_aux.blow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write_append_aux.blow5, mode: a 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write_append_aux.blow5', mode: b'a' 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append.blow5 already closed 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_append.blow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.026789426803588867 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 229s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017589569091796875 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.018903732299804688 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153015 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76423 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153015 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76423 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153015 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76423 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 153049 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_write() ret: 76457 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: slow5_rec_free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append_aux.blow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 229s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi return: 3 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi return: 3 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi return: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next_multi has no more batches - batchsize:3 ret:2 229s 21-Feb-25 13:29:15 - [DEBUG]: seq_reads_multi timings: 229s 21-Feb-25 13:29:15 - [DEBUG]: aux_total_time: 0.00022363662719726562 229s 21-Feb-25 13:29:15 - [DEBUG]: primary_total_time: 0.0002999305725097656 229s 21-Feb-25 13:29:15 - [DEBUG]: pA_total_time: 0.0033457279205322266 229s 21-Feb-25 13:29:15 - [DEBUG]: signal_total_time: 0.00027370452880859375 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 229s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.012885570526123047 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.003909111022949219 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: Creating/loading index... 229s 21-Feb-25 13:29:15 - [DEBUG]: Setting up batching... 229s 21-Feb-25 13:29:15 - [DEBUG]: read_list: ['r0', 'r1', 'r2', 'r3', 'r4', 'r5', '0a238451-b9ed-446d-a152-badd074006c4', '0d624d4b-671f-40b8-9798-84f2ccc4d7fc'] 229s 21-Feb-25 13:29:15 - [DEBUG]: batch for loop start 229s 21-Feb-25 13:29:15 - [DEBUG]: Batch: r0,r1,r2 229s 21-Feb-25 13:29:15 - [DEBUG]: Starting rid assignment 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: r0, bin: b'r0' 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: r1, bin: b'r1' 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: r2, bin: b'r2' 229s 21-Feb-25 13:29:15 - [DEBUG]: rid assignment complete 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_batch: num_reads: 3 229s 21-Feb-25 13:29:15 - [DEBUG]: get_read_multi slow5_get_batch ret: 3 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: Batch: r3,r4,r5 229s 21-Feb-25 13:29:15 - [DEBUG]: Starting rid assignment 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: r3, bin: b'r3' 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: r4, bin: b'r4' 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: r5, bin: b'r5' 229s 21-Feb-25 13:29:15 - [DEBUG]: rid assignment complete 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_batch: num_reads: 3 229s 21-Feb-25 13:29:15 - [DEBUG]: get_read_multi slow5_get_batch ret: 3 229s 21-Feb-25 13:29:15 - [DEBUG]: Batch: 0a238451-b9ed-446d-a152-badd074006c4,0d624d4b-671f-40b8-9798-84f2ccc4d7fc 229s 21-Feb-25 13:29:15 - [DEBUG]: Starting rid assignment 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: 0a238451-b9ed-446d-a152-badd074006c4, bin: b'0a238451-b9ed-446d-a152-badd074006c4' 229s 21-Feb-25 13:29:15 - [DEBUG]: readID: 0d624d4b-671f-40b8-9798-84f2ccc4d7fc, bin: b'0d624d4b-671f-40b8-9798-84f2ccc4d7fc' 229s 21-Feb-25 13:29:15 - [DEBUG]: rid assignment complete 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_batch: num_reads: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: get_read_multi slow5_get_batch ret: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: seq_reads_multi timings: 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example_write_aux_multi.slow5, mode: w 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example_write_aux_multi.slow5', mode: b'w' 229s 21-Feb-25 13:29:15 - [DEBUG]: Not writing blow5, skipping compression steps 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append_aux.blow5 already closed 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_append_aux.blow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.02692890167236328 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 229s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017441272735595703 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.01887035369873047 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_names aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types starting 229s 21-Feb-25 13:29:15 - [DEBUG]: get_aux_types aux_len: 5 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: 0 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next return: -1 229s 21-Feb-25 13:29:15 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: Setting up batching... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: batch for loop start 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checking header stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: writting header... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: header written 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_write_batch() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() aux 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_write_batch() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() aux 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation running 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: doing aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux passed tests... 229s 21-Feb-25 13:29:15 - [DEBUG]: _record_type_validation: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: _record_type_validation done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_rec_init() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write assignments done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write processing raw_signal 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: self.write raw_signal done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: aux stuff done 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: slow5_write_batch() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: free() aux 229s 21-Feb-25 13:29:15 - [DEBUG]: write_record_batch: function complete, returning 0 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_aux_multi.slow5 closed 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 229s 21-Feb-25 13:29:15 - [DEBUG]: Number of read_groups: 4 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.017297029495239258 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0185549259185791 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: FILE: examples/example2.slow5, mode: r 229s 21-Feb-25 13:29:15 - [DEBUG]: Creating/loading index... 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example2.slow5 closed 229s 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ============================================== 229s write reads with aux 229s ret: write_header(): 0 229s ret: write_header(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ============================================== 229s append reads with aux 229s ret: write_header(): 0 229s ret: write_header(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ret: write_record(): 0 229s ============================================== 229s seq_reads_multi with aux: 229s type check reads: 229s r0 229s read_number 4019 229s r1 229s read_number 2287 229s r2 229s read_number 4019 229s r3 229s read_number 2287 229s r4 229s read_number 4019 229s r5 229s read_number 2287 229s 0a238451-b9ed-446d-a152-badd074006c4 229s read_number 4019 229s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 229s read_number 2287 229s ============================================== 229s get_reads_multi with aux: 229s type check reads: 229s r0 229s read_number 4019 229s r1 229s read_number 2287 229s r2 229s read_number 4019 229s r3 229s read_number 2287 229s r4 229s read_number 4019 229s r5 229s read_number 2287 229s 0a238451-b9ed-446d-a152-badd074006c4 229s read_number 4019 229s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 229s read_number 2287 229s ============================================== 229s write reads with aux multi 229s ret: write_header(): 0 229s ret: write_header(): 0 229s {'r0': {'read_id': 'r0', 'read_group': 0, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r1': {'read_id': 'r1', 'read_group': 0, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, 'r2': {'read_id': 'r2', 'read_group': 1, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r3': {'read_id': 'r3', 'read_group': 1, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, 'r4': {'read_id': 'r4', 'read_group': 2, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r5': {'read_id': 'r5', 'read_group': 2, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, '0a238451-b9ed-446d-a152-badd074006c4': {'read_id': '0a238451-b9ed-446d-a152-badd074006c4', 'read_group': 3, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, '0d624d4b-671f-40b8-9798-84f2ccc4d7fc': {'read_id': '0d624d4b-671f-40b8-9798-84f2ccc4d7fc', 'read_group': 3, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}} 229s {'r0': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r1': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, 'r2': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r3': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, 'r4': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r5': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, '0a238451-b9ed-446d-a152-badd074006c4': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, '0d624d4b-671f-40b8-9798-84f2ccc4d7fc': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}} 229s ret: write_record(): 0 229s ============================================== 229s get all readIDs from index 229s ['r0', 'r1', 'r2', 'r3', 'r4', 'r5', '0a238451-b9ed-446d-a152-badd074006c4', '0d624d4b-671f-40b8-9798-84f2ccc4d7fc'] 229s number of reads: 8 229s ============================================== 229s done 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.011554956436157227 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.012337207794189453 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.01772308349609375 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.022748947143554688 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_aux_multi.slow5 already closed 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_aux_multi.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.02951192855834961 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.05867433547973633 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: examples/example_write_append_aux.blow5 already closed 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example_write_append_aux.blow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.027471542358398438 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: pathname: examples/example2.slow5 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_time_yield_reads: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_single_write_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 229s 21-Feb-25 13:29:15 - [DEBUG]: total_multi_write_time: 0.0 seconds 229s autopkgtest [13:29:15]: test run-pybinding-test: -----------------------] 230s autopkgtest [13:29:16]: test run-pybinding-test: - - - - - - - - - - results - - - - - - - - - - 230s run-pybinding-test PASS 230s autopkgtest [13:29:16]: test run-pkg-test: preparing testbed 400s autopkgtest [13:32:06]: testbed dpkg architecture: arm64 400s autopkgtest [13:32:06]: testbed apt version: 2.9.30ubuntu1 400s autopkgtest [13:32:06]: @@@@@@@@@@@@@@@@@@@@ test bed setup 400s autopkgtest [13:32:06]: testbed release detected to be: plucky 401s autopkgtest [13:32:07]: updating testbed package index (apt update) 402s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 402s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 402s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 402s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 402s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 402s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [90.3 kB] 402s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [719 kB] 402s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.8 kB] 402s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [132 kB] 402s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [7960 B] 402s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [677 kB] 402s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [10.7 kB] 402s Fetched 1765 kB in 1s (1872 kB/s) 404s Reading package lists... 405s Reading package lists... 406s Building dependency tree... 406s Reading state information... 407s Calculating upgrade... 407s Calculating upgrade... 409s The following packages will be upgraded: 409s base-files cloud-init cloud-init-base gcc-14-base motd-news-config 409s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 409s Need to get 752 kB of archives. 409s After this operation, 19.5 kB of additional disk space will be used. 409s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 motd-news-config all 13.6ubuntu1 [5168 B] 409s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 base-files arm64 13.6ubuntu1 [75.6 kB] 409s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14-base arm64 14.2.0-17ubuntu3 [53.6 kB] 409s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 cloud-init-base all 25.1-0ubuntu1 [616 kB] 409s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 cloud-init all 25.1-0ubuntu1 [2088 B] 410s Preconfiguring packages ... 410s Fetched 752 kB in 1s (1315 kB/s) 411s (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 ... 116668 files and directories currently installed.) 411s Preparing to unpack .../motd-news-config_13.6ubuntu1_all.deb ... 411s Unpacking motd-news-config (13.6ubuntu1) over (13.5ubuntu3) ... 411s Preparing to unpack .../base-files_13.6ubuntu1_arm64.deb ... 411s Unpacking base-files (13.6ubuntu1) over (13.5ubuntu3) ... 411s Setting up base-files (13.6ubuntu1) ... 411s Updating /root/.profile to current default. 412s motd-news.service is a disabled or a static unit not running, not starting it. 412s (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 ... 116668 files and directories currently installed.) 412s Preparing to unpack .../gcc-14-base_14.2.0-17ubuntu3_arm64.deb ... 412s Unpacking gcc-14-base:arm64 (14.2.0-17ubuntu3) over (14.2.0-17ubuntu1) ... 412s Preparing to unpack .../cloud-init-base_25.1-0ubuntu1_all.deb ... 413s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 413s for fn in glob1(directory, "%s.*" % fname): 413s Unpacking cloud-init-base (25.1-0ubuntu1) over (25.1~3geb1965a4-0ubuntu1) ... 413s Preparing to unpack .../cloud-init_25.1-0ubuntu1_all.deb ... 413s Unpacking cloud-init (25.1-0ubuntu1) over (25.1~3geb1965a4-0ubuntu1) ... 413s Setting up motd-news-config (13.6ubuntu1) ... 413s Setting up gcc-14-base:arm64 (14.2.0-17ubuntu3) ... 413s Setting up cloud-init-base (25.1-0ubuntu1) ... 416s Setting up cloud-init (25.1-0ubuntu1) ... 416s Processing triggers for man-db (2.13.0-1) ... 416s Processing triggers for plymouth-theme-ubuntu-text (24.004.60-2ubuntu5) ... 416s Processing triggers for install-info (7.1.1-1) ... 417s Processing triggers for rsyslog (8.2412.0-2ubuntu1) ... 417s Processing triggers for initramfs-tools (0.145ubuntu2) ... 417s update-initramfs: Generating /boot/initrd.img-6.12.0-15-generic 417s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 440s System running in EFI mode, skipping. 440s Reading package lists... 440s Building dependency tree... 440s Reading state information... 441s Solving dependencies... 441s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 441s autopkgtest [13:32:47]: upgrading testbed (apt dist-upgrade and autopurge) 442s Reading package lists... 442s Building dependency tree... 442s Reading state information... 443s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 443s Starting 2 pkgProblemResolver with broken count: 0 443s Done 443s Entering ResolveByKeep 444s 444s Calculating upgrade... 444s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 445s Reading package lists... 445s Building dependency tree... 445s Reading state information... 445s Starting pkgProblemResolver with broken count: 0 446s Starting 2 pkgProblemResolver with broken count: 0 446s Done 446s Solving dependencies... 446s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 447s autopkgtest [13:32:53]: rebooting testbed after setup commands that affected boot 474s Reading package lists... 475s Building dependency tree... 475s Reading state information... 475s Starting pkgProblemResolver with broken count: 0 475s Starting 2 pkgProblemResolver with broken count: 0 475s Done 476s The following NEW packages will be installed: 476s build-essential cpp cpp-14 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu 476s g++ g++-14 g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14 476s gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu libasan8 libblas3 libcc1-0 476s libgcc-14-dev libgfortran5 libgomp1 libhwasan0 libisl23 libitm1 liblapack3 476s liblsan0 libmpc3 libslow5-0t64 libslow5-dev libstdc++-14-dev 476s libstreamvbyte-dev libstreamvbyte0 libtsan2 libubsan1 python3-numpy 476s python3-slow5 zlib1g-dev 476s 0 upgraded, 35 newly installed, 0 to remove and 0 not upgraded. 476s Need to get 68.7 MB of archives. 476s After this operation, 253 MB of additional disk space will be used. 476s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 libisl23 arm64 0.27-1 [676 kB] 476s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libmpc3 arm64 1.3.1-1build2 [56.8 kB] 476s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [10.6 MB] 477s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14 arm64 14.2.0-17ubuntu3 [1028 B] 477s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [5558 B] 477s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp arm64 4:14.2.0-1ubuntu1 [22.4 kB] 477s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 libcc1-0 arm64 15-20250213-1ubuntu1 [44.2 kB] 477s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 15-20250213-1ubuntu1 [146 kB] 477s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 libitm1 arm64 15-20250213-1ubuntu1 [28.0 kB] 477s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 libasan8 arm64 15-20250213-1ubuntu1 [2928 kB] 477s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 liblsan0 arm64 15-20250213-1ubuntu1 [1319 kB] 477s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 libtsan2 arm64 15-20250213-1ubuntu1 [2695 kB] 477s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libubsan1 arm64 15-20250213-1ubuntu1 [1178 kB] 477s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 libhwasan0 arm64 15-20250213-1ubuntu1 [1642 kB] 477s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libgcc-14-dev arm64 14.2.0-17ubuntu3 [2593 kB] 477s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [20.9 MB] 478s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14 arm64 14.2.0-17ubuntu3 [526 kB] 478s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [1200 B] 478s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc arm64 4:14.2.0-1ubuntu1 [4998 B] 478s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libstdc++-14-dev arm64 14.2.0-17ubuntu3 [2499 kB] 478s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [12.1 MB] 478s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14 arm64 14.2.0-17ubuntu3 [21.8 kB] 478s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [956 B] 478s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 g++ arm64 4:14.2.0-1ubuntu1 [1080 B] 478s Get:25 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 build-essential arm64 12.12 [4610 B] 478s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.1-2 [161 kB] 478s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 15-20250213-1ubuntu1 [443 kB] 478s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.1-2 [2307 kB] 478s Get:29 http://ftpmaster.internal/ubuntu plucky/universe arm64 libslow5-0t64 arm64 0.7.0+dfsg-3build2 [62.3 kB] 478s Get:30 http://ftpmaster.internal/ubuntu plucky/universe arm64 libslow5-dev arm64 0.7.0+dfsg-3build2 [90.4 kB] 478s Get:31 http://ftpmaster.internal/ubuntu plucky/universe arm64 libstreamvbyte0 arm64 0.4.1-4ubuntu1 [6260 B] 478s Get:32 http://ftpmaster.internal/ubuntu plucky/universe arm64 libstreamvbyte-dev arm64 0.4.1-4ubuntu1 [6620 B] 478s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-13 [4148 kB] 478s Get:34 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-slow5 arm64 0.7.0+dfsg-3build2 [538 kB] 478s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1ubuntu1 [894 kB] 479s Fetched 68.7 MB in 3s (25.9 MB/s) 479s Selecting previously unselected package libisl23:arm64. 479s (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 ... 116669 files and directories currently installed.) 479s Preparing to unpack .../00-libisl23_0.27-1_arm64.deb ... 479s Unpacking libisl23:arm64 (0.27-1) ... 479s Selecting previously unselected package libmpc3:arm64. 479s Preparing to unpack .../01-libmpc3_1.3.1-1build2_arm64.deb ... 479s Unpacking libmpc3:arm64 (1.3.1-1build2) ... 479s Selecting previously unselected package cpp-14-aarch64-linux-gnu. 479s Preparing to unpack .../02-cpp-14-aarch64-linux-gnu_14.2.0-17ubuntu3_arm64.deb ... 479s Unpacking cpp-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 480s Selecting previously unselected package cpp-14. 480s Preparing to unpack .../03-cpp-14_14.2.0-17ubuntu3_arm64.deb ... 480s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 480s Selecting previously unselected package cpp-aarch64-linux-gnu. 480s Preparing to unpack .../04-cpp-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ... 480s Unpacking cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 480s Selecting previously unselected package cpp. 480s Preparing to unpack .../05-cpp_4%3a14.2.0-1ubuntu1_arm64.deb ... 480s Unpacking cpp (4:14.2.0-1ubuntu1) ... 480s Selecting previously unselected package libcc1-0:arm64. 480s Preparing to unpack .../06-libcc1-0_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking libcc1-0:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package libgomp1:arm64. 480s Preparing to unpack .../07-libgomp1_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking libgomp1:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package libitm1:arm64. 480s Preparing to unpack .../08-libitm1_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking libitm1:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package libasan8:arm64. 480s Preparing to unpack .../09-libasan8_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking libasan8:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package liblsan0:arm64. 480s Preparing to unpack .../10-liblsan0_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking liblsan0:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package libtsan2:arm64. 480s Preparing to unpack .../11-libtsan2_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking libtsan2:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package libubsan1:arm64. 480s Preparing to unpack .../12-libubsan1_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking libubsan1:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package libhwasan0:arm64. 480s Preparing to unpack .../13-libhwasan0_15-20250213-1ubuntu1_arm64.deb ... 480s Unpacking libhwasan0:arm64 (15-20250213-1ubuntu1) ... 480s Selecting previously unselected package libgcc-14-dev:arm64. 480s Preparing to unpack .../14-libgcc-14-dev_14.2.0-17ubuntu3_arm64.deb ... 480s Unpacking libgcc-14-dev:arm64 (14.2.0-17ubuntu3) ... 480s Selecting previously unselected package gcc-14-aarch64-linux-gnu. 480s Preparing to unpack .../15-gcc-14-aarch64-linux-gnu_14.2.0-17ubuntu3_arm64.deb ... 480s Unpacking gcc-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 481s Selecting previously unselected package gcc-14. 481s Preparing to unpack .../16-gcc-14_14.2.0-17ubuntu3_arm64.deb ... 481s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 481s Selecting previously unselected package gcc-aarch64-linux-gnu. 481s Preparing to unpack .../17-gcc-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ... 481s Unpacking gcc-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 481s Selecting previously unselected package gcc. 481s Preparing to unpack .../18-gcc_4%3a14.2.0-1ubuntu1_arm64.deb ... 481s Unpacking gcc (4:14.2.0-1ubuntu1) ... 481s Selecting previously unselected package libstdc++-14-dev:arm64. 481s Preparing to unpack .../19-libstdc++-14-dev_14.2.0-17ubuntu3_arm64.deb ... 481s Unpacking libstdc++-14-dev:arm64 (14.2.0-17ubuntu3) ... 481s Selecting previously unselected package g++-14-aarch64-linux-gnu. 481s Preparing to unpack .../20-g++-14-aarch64-linux-gnu_14.2.0-17ubuntu3_arm64.deb ... 481s Unpacking g++-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 481s Selecting previously unselected package g++-14. 481s Preparing to unpack .../21-g++-14_14.2.0-17ubuntu3_arm64.deb ... 481s Unpacking g++-14 (14.2.0-17ubuntu3) ... 481s Selecting previously unselected package g++-aarch64-linux-gnu. 481s Preparing to unpack .../22-g++-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ... 481s Unpacking g++-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 481s Selecting previously unselected package g++. 481s Preparing to unpack .../23-g++_4%3a14.2.0-1ubuntu1_arm64.deb ... 481s Unpacking g++ (4:14.2.0-1ubuntu1) ... 481s Selecting previously unselected package build-essential. 481s Preparing to unpack .../24-build-essential_12.12_arm64.deb ... 481s Unpacking build-essential (12.12) ... 481s Selecting previously unselected package libblas3:arm64. 481s Preparing to unpack .../25-libblas3_3.12.1-2_arm64.deb ... 481s Unpacking libblas3:arm64 (3.12.1-2) ... 481s Selecting previously unselected package libgfortran5:arm64. 481s Preparing to unpack .../26-libgfortran5_15-20250213-1ubuntu1_arm64.deb ... 481s Unpacking libgfortran5:arm64 (15-20250213-1ubuntu1) ... 482s Selecting previously unselected package liblapack3:arm64. 482s Preparing to unpack .../27-liblapack3_3.12.1-2_arm64.deb ... 482s Unpacking liblapack3:arm64 (3.12.1-2) ... 482s Selecting previously unselected package libslow5-0t64:arm64. 482s Preparing to unpack .../28-libslow5-0t64_0.7.0+dfsg-3build2_arm64.deb ... 482s Unpacking libslow5-0t64:arm64 (0.7.0+dfsg-3build2) ... 482s Selecting previously unselected package libslow5-dev:arm64. 482s Preparing to unpack .../29-libslow5-dev_0.7.0+dfsg-3build2_arm64.deb ... 482s Unpacking libslow5-dev:arm64 (0.7.0+dfsg-3build2) ... 482s Selecting previously unselected package libstreamvbyte0:arm64. 482s Preparing to unpack .../30-libstreamvbyte0_0.4.1-4ubuntu1_arm64.deb ... 482s Unpacking libstreamvbyte0:arm64 (0.4.1-4ubuntu1) ... 482s Selecting previously unselected package libstreamvbyte-dev:arm64. 482s Preparing to unpack .../31-libstreamvbyte-dev_0.4.1-4ubuntu1_arm64.deb ... 482s Unpacking libstreamvbyte-dev:arm64 (0.4.1-4ubuntu1) ... 482s Selecting previously unselected package python3-numpy. 482s Preparing to unpack .../32-python3-numpy_1%3a1.26.4+ds-13_arm64.deb ... 482s Unpacking python3-numpy (1:1.26.4+ds-13) ... 482s Selecting previously unselected package python3-slow5. 482s Preparing to unpack .../33-python3-slow5_0.7.0+dfsg-3build2_arm64.deb ... 482s Unpacking python3-slow5 (0.7.0+dfsg-3build2) ... 482s Selecting previously unselected package zlib1g-dev:arm64. 482s Preparing to unpack .../34-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_arm64.deb ... 482s Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 482s Setting up libstreamvbyte0:arm64 (0.4.1-4ubuntu1) ... 482s Setting up libgomp1:arm64 (15-20250213-1ubuntu1) ... 482s Setting up libblas3:arm64 (3.12.1-2) ... 482s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 482s Setting up libstreamvbyte-dev:arm64 (0.4.1-4ubuntu1) ... 482s Setting up libmpc3:arm64 (1.3.1-1build2) ... 482s Setting up libslow5-0t64:arm64 (0.7.0+dfsg-3build2) ... 482s Setting up libgfortran5:arm64 (15-20250213-1ubuntu1) ... 482s Setting up libubsan1:arm64 (15-20250213-1ubuntu1) ... 482s Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 482s Setting up libhwasan0:arm64 (15-20250213-1ubuntu1) ... 482s Setting up libasan8:arm64 (15-20250213-1ubuntu1) ... 482s Setting up libtsan2:arm64 (15-20250213-1ubuntu1) ... 482s Setting up libisl23:arm64 (0.27-1) ... 482s Setting up libcc1-0:arm64 (15-20250213-1ubuntu1) ... 482s Setting up liblsan0:arm64 (15-20250213-1ubuntu1) ... 482s Setting up libitm1:arm64 (15-20250213-1ubuntu1) ... 482s Setting up liblapack3:arm64 (3.12.1-2) ... 482s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 482s Setting up libslow5-dev:arm64 (0.7.0+dfsg-3build2) ... 482s Setting up python3-numpy (1:1.26.4+ds-13) ... 484s Setting up cpp-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 484s Setting up libgcc-14-dev:arm64 (14.2.0-17ubuntu3) ... 484s Setting up libstdc++-14-dev:arm64 (14.2.0-17ubuntu3) ... 484s Setting up cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 484s Setting up python3-slow5 (0.7.0+dfsg-3build2) ... 484s Setting up cpp-14 (14.2.0-17ubuntu3) ... 484s Setting up cpp (4:14.2.0-1ubuntu1) ... 484s Setting up gcc-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 484s Setting up gcc-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 484s Setting up g++-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 484s Setting up gcc-14 (14.2.0-17ubuntu3) ... 484s Setting up g++-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 484s Setting up g++-14 (14.2.0-17ubuntu3) ... 484s Setting up gcc (4:14.2.0-1ubuntu1) ... 484s Setting up g++ (4:14.2.0-1ubuntu1) ... 484s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 484s Setting up build-essential (12.12) ... 484s Processing triggers for man-db (2.13.0-1) ... 485s Processing triggers for libc-bin (2.40-4ubuntu1) ... 495s autopkgtest [13:33:41]: test run-pkg-test: [----------------------- 495s Checking unit_test_ascii.c 495s Done! 495s Checking unit_test_binary.c 496s Done! 496s Checking unit_test_empty.c 496s Done! 496s Checking unit_test_enum.c 496s Done! 496s Checking unit_test_helpers.c 496s Done! 496s Checking unit_test_lossless.c 496s Done! 496s Checking unit_test_press.c 496s Done! 496s Checking unit_test_two_rg.c 496s Done! 497s autopkgtest [13:33:43]: test run-pkg-test: -----------------------] 497s autopkgtest [13:33:43]: test run-pkg-test: - - - - - - - - - - results - - - - - - - - - - 497s run-pkg-test PASS 498s autopkgtest [13:33:44]: @@@@@@@@@@@@@@@@@@@@ summary 498s run-pybinding-test PASS 498s run-pkg-test PASS 506s nova [W] Using flock in prodstack6-arm64 506s flock: timeout while waiting to get lock 506s Creating nova instance adt-plucky-arm64-libslow5lib-20250221-132526-juju-7f2275-prod-proposed-migration-environment-2-2eb4d34e-1349-4858-beac-a3b7905ddeb4 from image adt/ubuntu-plucky-arm64-server-20250221.img (UUID 7cc4cd7e-6f5b-4658-9b17-e38e7fa05fb0)... 506s nova [W] Timed out waiting for dfd241d1-7bfb-4c2a-aebc-7237106044ed to get deleted. 506s nova [W] Using flock in prodstack6-arm64 506s Creating nova instance adt-plucky-arm64-libslow5lib-20250221-132526-juju-7f2275-prod-proposed-migration-environment-2-2eb4d34e-1349-4858-beac-a3b7905ddeb4 from image adt/ubuntu-plucky-arm64-server-20250221.img (UUID 7cc4cd7e-6f5b-4658-9b17-e38e7fa05fb0)... 506s nova [W] Timed out waiting for 3f584410-2535-4c0b-88aa-d0f776e6461b to get deleted.