Martian Runtime - v4.0.2
2023-04-17 16:37:06 [build  ] Built with Go version go1.15.2
2023-04-17 16:37:06 [cmdline] mrp __399-A1.mro 399-A1 --jobmode local --localcores 20 --localmem 128
2023-04-17 16:37:06 [pid    ] 58759
2023-04-17 16:37:06 [environ] SLURM_NODELIST=cn-0036
2023-04-17 16:37:06 [environ] SLURM_JOB_NAME=step1_spaceranger_count_OCT121
2023-04-17 16:37:06 [environ] XDG_SESSION_ID=575628
2023-04-17 16:37:06 [environ] SLURM_TOPOLOGY_ADDR=cn-0036
2023-04-17 16:37:06 [environ] SLURM_NTASKS_PER_NODE=20
2023-04-17 16:37:06 [environ] HOSTNAME=cn-0036
2023-04-17 16:37:06 [environ] SLURM_PRIO_PROCESS=0
2023-04-17 16:37:06 [environ] SLURM_NODE_ALIASES=(null)
2023-04-17 16:37:06 [environ] SHELL=/bin/bash
2023-04-17 16:37:06 [environ] TERM=xterm-256color
2023-04-17 16:37:06 [environ] SLURM_JOB_QOS=normal
2023-04-17 16:37:06 [environ] TMPDIR=/tmp
2023-04-17 16:37:06 [environ] SLURM_TOPOLOGY_ADDR_PATTERN=node
2023-04-17 16:37:06 [environ] SSH_CLIENT=10.148.82.98 62400 22
2023-04-17 16:37:06 [environ] SLURM_ARRAY_JOB_ID=21477308
2023-04-17 16:37:06 [environ] LIBRARY_PATH=/cm/shared/apps/slurm/current/lib64/slurm:/cm/shared/apps/slurm/current/lib64
2023-04-17 16:37:06 [environ] SSH_TTY=/dev/pts/1266
2023-04-17 16:37:06 [environ] SLURM_NNODES=1
2023-04-17 16:37:06 [environ] USER=jw7078
2023-04-17 16:37:06 [environ] LS_COLORS=rs=0:di=38;5;27:ln=38;5;51:mh=44;38;5;15:pi=40;38;5;11:so=38;5;13:do=38;5;5:bd=48;5;232;38;5;11:cd=48;5;232;38;5;3:or=48;5;232;38;5;9:mi=05;48;5;232;38;5;15:su=48;5;196;38;5;15:sg=48;5;11;38;5;16:ca=48;5;196;38;5;226:tw=48;5;10;38;5;16:ow=48;5;10;38;5;21:st=48;5;21;38;5;15:ex=38;5;34:*.tar=38;5;9:*.tgz=38;5;9:*.arc=38;5;9:*.arj=38;5;9:*.taz=38;5;9:*.lha=38;5;9:*.lz4=38;5;9:*.lzh=38;5;9:*.lzma=38;5;9:*.tlz=38;5;9:*.txz=38;5;9:*.tzo=38;5;9:*.t7z=38;5;9:*.zip=38;5;9:*.z=38;5;9:*.Z=38;5;9:*.dz=38;5;9:*.gz=38;5;9:*.lrz=38;5;9:*.lz=38;5;9:*.lzo=38;5;9:*.xz=38;5;9:*.bz2=38;5;9:*.bz=38;5;9:*.tbz=38;5;9:*.tbz2=38;5;9:*.tz=38;5;9:*.deb=38;5;9:*.rpm=38;5;9:*.jar=38;5;9:*.war=38;5;9:*.ear=38;5;9:*.sar=38;5;9:*.rar=38;5;9:*.alz=38;5;9:*.ace=38;5;9:*.zoo=38;5;9:*.cpio=38;5;9:*.7z=38;5;9:*.rz=38;5;9:*.cab=38;5;9:*.jpg=38;5;13:*.jpeg=38;5;13:*.gif=38;5;13:*.bmp=38;5;13:*.pbm=38;5;13:*.pgm=38;5;13:*.ppm=38;5;13:*.tga=38;5;13:*.xbm=38;5;13:*.xpm=38;5;13:*.tif=38;5;13:*.tiff=38;5;13:*.png=38;5;13:*.svg=38;5;13:*.svgz=38;5;13:*.mng=38;5;13:*.pcx=38;5;13:*.mov=38;5;13:*.mpg=38;5;13:*.mpeg=38;5;13:*.m2v=38;5;13:*.mkv=38;5;13:*.webm=38;5;13:*.ogm=38;5;13:*.mp4=38;5;13:*.m4v=38;5;13:*.mp4v=38;5;13:*.vob=38;5;13:*.qt=38;5;13:*.nuv=38;5;13:*.wmv=38;5;13:*.asf=38;5;13:*.rm=38;5;13:*.rmvb=38;5;13:*.flc=38;5;13:*.avi=38;5;13:*.fli=38;5;13:*.flv=38;5;13:*.gl=38;5;13:*.dl=38;5;13:*.xcf=38;5;13:*.xwd=38;5;13:*.yuv=38;5;13:*.cgm=38;5;13:*.emf=38;5;13:*.axv=38;5;13:*.anx=38;5;13:*.ogv=38;5;13:*.ogx=38;5;13:*.aac=38;5;45:*.au=38;5;45:*.flac=38;5;45:*.mid=38;5;45:*.midi=38;5;45:*.mka=38;5;45:*.mp3=38;5;45:*.mpc=38;5;45:*.ogg=38;5;45:*.ra=38;5;45:*.wav=38;5;45:*.axa=38;5;45:*.oga=38;5;45:*.spx=38;5;45:*.xspf=38;5;45:
2023-04-17 16:37:06 [environ] SLURM_JOBID=21477321
2023-04-17 16:37:06 [environ] SLURM_ARRAY_TASK_ID=5
2023-04-17 16:37:06 [environ] SLURM_NTASKS=20
2023-04-17 16:37:06 [environ] SLURM_TASKS_PER_NODE=20
2023-04-17 16:37:06 [environ] SLURM_ARRAY_TASK_COUNT=8
2023-04-17 16:37:06 [environ] PATH=/gpfs/share/apps/spaceranger/1.2.1/lib/bin:/gpfs/share/apps/spaceranger/1.2.1/external/martian/bin:/gpfs/share/apps/spaceranger/1.2.1/external/anaconda/bin:/gpfs/share/apps/spaceranger/1.2.1/bin/tenkit:/gpfs/share/apps/spaceranger/1.2.1/bin:/cm/shared/apps/slurm/current/sbin:/cm/shared/apps/slurm/current/bin:/cm/local/apps/environment-modules/4.4.1/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/sbin:/usr/sbin:/cm/local/apps/environment-modules/current/bin:/opt/ibutils/bin:/usr/lpp/mmfs/bin:/gpfs/home/jw7078/.local/bin:/gpfs/home/jw7078/bin:/gpfs/share/apps/spaceranger/1.2.1
2023-04-17 16:37:06 [environ] SLURM_WORKING_CLUSTER=slurm_cluster:bigpurple-hn1.ib.cluster:6817:9472:109
2023-04-17 16:37:06 [environ] SLURM_CONF=/etc/slurm/slurm.conf
2023-04-17 16:37:06 [environ] SLURM_JOB_ID=21477321
2023-04-17 16:37:06 [environ] SLURM_CPUS_PER_TASK=1
2023-04-17 16:37:06 [environ] SLURM_JOB_USER=jw7078
2023-04-17 16:37:06 [environ] PWD=/gpfs/data/yanailab/projects/jw7078/processed_data
2023-04-17 16:37:06 [environ] SLURM_ARRAY_TASK_MAX=8
2023-04-17 16:37:06 [environ] LANG=C
2023-04-17 16:37:06 [environ] SLURM_JOB_UID=1024051431
2023-04-17 16:37:06 [environ] SLURM_NODEID=0
2023-04-17 16:37:06 [environ] SLURM_SUBMIT_DIR=/gpfs/home/jw7078
2023-04-17 16:37:06 [environ] SLURM_TASK_PID=58731
2023-04-17 16:37:06 [environ] SLURM_NPROCS=20
2023-04-17 16:37:06 [environ] SLURM_CPUS_ON_NODE=20
2023-04-17 16:37:06 [environ] SLURM_PROCID=0
2023-04-17 16:37:06 [environ] ENVIRONMENT=BATCH
2023-04-17 16:37:06 [environ] SLURM_JOB_NODELIST=cn-0036
2023-04-17 16:37:06 [environ] SLURM_ARRAY_TASK_MIN=1
2023-04-17 16:37:06 [environ] HOME=/gpfs/home/jw7078
2023-04-17 16:37:06 [environ] SHLVL=2
2023-04-17 16:37:06 [environ] SLURM_LOCALID=0
2023-04-17 16:37:06 [environ] SLURM_ARRAY_TASK_STEP=1
2023-04-17 16:37:06 [environ] SLURM_JOB_GID=1024082426
2023-04-17 16:37:06 [environ] SLURM_JOB_CPUS_PER_NODE=20
2023-04-17 16:37:06 [environ] SLURM_CLUSTER_NAME=slurm_cluster
2023-04-17 16:37:06 [environ] SLURM_GTIDS=0
2023-04-17 16:37:06 [environ] SLURM_SUBMIT_HOST=bigpurple-ln3
2023-04-17 16:37:06 [environ] SLURM_JOB_PARTITION=cpu_medium
2023-04-17 16:37:06 [environ] BASH_ENV=/cm/local/apps/environment-modules/4.4.1/init/bash
2023-04-17 16:37:06 [environ] LOGNAME=jw7078
2023-04-17 16:37:06 [environ] LD_LIBRARY_PATH_modshare=/cm/shared/apps/slurm/current/lib64:1:/cm/shared/apps/slurm/current/lib64/slurm:1
2023-04-17 16:37:06 [environ] SLURM_JOB_ACCOUNT=system
2023-04-17 16:37:06 [environ] SSH_CONNECTION=10.148.82.98 62400 10.189.18.111 22
2023-04-17 16:37:06 [environ] SLURM_JOB_NUM_NODES=1
2023-04-17 16:37:06 [environ] XDG_RUNTIME_DIR=/run/user/1024051431
2023-04-17 16:37:06 [environ] SLURM_MEM_PER_NODE=131072
2023-04-17 16:37:06 [environ] BASH_FUNC_module()=() {  unset _mlshdbg;
 if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '1' ]; then
 case "$-" in 
 *v*x*)
 set +vx;
 _mlshdbg='vx'
 ;;
 *v*)
 set +v;
 _mlshdbg='v'
 ;;
 *x*)
 set +x;
 _mlshdbg='x'
 ;;
 *)
 _mlshdbg=''
 ;;
 esac;
 fi;
 unset _mlre _mlIFS;
 if [ -n "${IFS+x}" ]; then
 _mlIFS=$IFS;
 fi;
 IFS=' ';
 for _mlv in ${MODULES_RUN_QUARANTINE:-};
 do
 if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then
 if [ -n "`eval 'echo ${'$_mlv'+x}'`" ]; then
 _mlre="${_mlre:-}${_mlv}_modquar='`eval 'echo ${'$_mlv'}'`' ";
 fi;
 _mlrv="MODULES_RUNENV_${_mlv}";
 _mlre="${_mlre:-}${_mlv}='`eval 'echo ${'$_mlrv':-}'`' ";
 fi;
 done;
 if [ -n "${_mlre:-}" ]; then
 eval `eval ${_mlre}/usr/bin/tclsh /cm/local/apps/environment-modules/4.4.1/libexec/modulecmd.tcl bash '"$@"'`;
 else
 eval `/usr/bin/tclsh /cm/local/apps/environment-modules/4.4.1/libexec/modulecmd.tcl bash "$@"`;
 fi;
 _mlstatus=$?;
 if [ -n "${_mlIFS+x}" ]; then
 IFS=$_mlIFS;
 else
 unset IFS;
 fi;
 unset _mlre _mlv _mlrv _mlIFS;
 if [ -n "${_mlshdbg:-}" ]; then
 set -$_mlshdbg;
 fi;
 unset _mlshdbg;
 return $_mlstatus
}
2023-04-17 16:37:06 [environ] BASH_FUNC_switchml()=() {  typeset swfound=1;
 if [ "${MODULES_USE_COMPAT_VERSION:-0}" = '1' ]; then
 typeset swname='main';
 if [ -e /cm/local/apps/environment-modules/4.4.1/libexec/modulecmd.tcl ]; then
 typeset swfound=0;
 unset MODULES_USE_COMPAT_VERSION;
 fi;
 else
 typeset swname='compatibility';
 if [ -e /cm/local/apps/environment-modules/4.4.1/libexec/modulecmd-compat ]; then
 typeset swfound=0;
 MODULES_USE_COMPAT_VERSION=1;
 export MODULES_USE_COMPAT_VERSION;
 fi;
 fi;
 if [ $swfound -eq 0 ]; then
 echo "Switching to Modules $swname version";
 source /cm/local/apps/environment-modules/4.4.1/init/bash;
 else
 echo "Cannot switch to Modules $swname version, command not found";
 return 1;
 fi
}
2023-04-17 16:37:06 [environ] BASH_FUNC__module_raw()=() {  unset _mlshdbg;
 if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '1' ]; then
 case "$-" in 
 *v*x*)
 set +vx;
 _mlshdbg='vx'
 ;;
 *v*)
 set +v;
 _mlshdbg='v'
 ;;
 *x*)
 set +x;
 _mlshdbg='x'
 ;;
 *)
 _mlshdbg=''
 ;;
 esac;
 fi;
 unset _mlre _mlIFS;
 if [ -n "${IFS+x}" ]; then
 _mlIFS=$IFS;
 fi;
 IFS=' ';
 for _mlv in ${MODULES_RUN_QUARANTINE:-};
 do
 if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then
 if [ -n "`eval 'echo ${'$_mlv'+x}'`" ]; then
 _mlre="${_mlre:-}${_mlv}_modquar='`eval 'echo ${'$_mlv'}'`' ";
 fi;
 _mlrv="MODULES_RUNENV_${_mlv}";
 _mlre="${_mlre:-}${_mlv}='`eval 'echo ${'$_mlrv':-}'`' ";
 fi;
 done;
 if [ -n "${_mlre:-}" ]; then
 eval `eval ${_mlre}/usr/bin/tclsh /cm/local/apps/environment-modules/4.4.1/libexec/modulecmd.tcl bash '"$@"'`;
 else
 eval `/usr/bin/tclsh /cm/local/apps/environment-modules/4.4.1/libexec/modulecmd.tcl bash "$@"`;
 fi;
 _mlstatus=$?;
 if [ -n "${_mlIFS+x}" ]; then
 IFS=$_mlIFS;
 else
 unset IFS;
 fi;
 unset _mlre _mlv _mlrv _mlIFS;
 if [ -n "${_mlshdbg:-}" ]; then
 set -$_mlshdbg;
 fi;
 unset _mlshdbg;
 return $_mlstatus
}
2023-04-17 16:37:06 [environ] _=/gpfs/share/apps/spaceranger/1.2.1/spaceranger
2023-04-17 16:37:06 [environ] LC_CTYPE=en_US.UTF-8
2023-04-17 16:37:06 [environ] PYTHONNOUSERSITE=1
2023-04-17 16:37:06 [environ] PYTHONPATH=/gpfs/share/apps/spaceranger/1.2.1/external/martian/adapters/python:/gpfs/share/apps/spaceranger/1.2.1/lib/python
2023-04-17 16:37:06 [environ] TENX_PRODUCT=spaceranger
2023-04-17 16:37:06 [environ] TENX_VERSION=spaceranger-1.2.1
2023-04-17 16:37:06 [environ] TENX_COPYRIGHT=Copyright (c) 2020 10x Genomics, Inc.  All rights reserved.
2023-04-17 16:37:06 [options] --localcores=20
2023-04-17 16:37:06 [options] --localmem=128
2023-04-17 16:37:06 [environ] MROPATH=/gpfs/share/apps/spaceranger/1.2.1/mro
2023-04-17 16:37:06 [version] MRO Version=spaceranger-1.2.1
2023-04-17 16:37:06 [options] --jobmode=local
2023-04-17 16:37:06 [options] --vdrmode=rolling
2023-04-17 16:37:06 [options] --profile=disable
2023-04-17 16:37:06 [options] --stackvars=false
2023-04-17 16:37:06 [options] --zip=false
2023-04-17 16:37:06 [options] --limit-loadavg=false
2023-04-17 16:37:06 [options] --noexit=false
2023-04-17 16:37:06 [options] --nopreflight=false
2023-04-17 16:37:06 [jobmngr] Job config = /gpfs/share/apps/spaceranger/1.2.1/external/martian/jobmanagers/config.json
2023-04-17 16:37:06 [jobmngr] Using 20 cores, per --localcores option.
2023-04-17 16:37:06 [jobmngr] Using 128 GB, per --localmem option.
2023-04-17 16:37:06 [sysinfo] linux amd64
2023-04-17 16:37:06 [sysinfo] Linux kernel release version: 3.10.0-1160.31.1.el7.x86_64
2023-04-17 16:37:06 [sysinfo] glibc version: 2.17
2023-04-17 16:37:06 [filesys] Pipestance path /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1
2023-04-17 16:37:06 [filesys] Pipestance filesystem type gpfs
2023-04-17 16:37:06 [filesys] 2.9 PB and 10,110,334,071 inodes available.
2023-04-17 16:37:06 [filesys] Pipestance filesystem gpfs mount options: rw,relatime,rw
2023-04-17 16:37:06 [filesys] Bin path /gpfs/share/apps/spaceranger/1.2.1/external/martian/bin
2023-04-17 16:37:06 [filesys] Bin filesystem type gpfs
2023-04-17 16:37:06 [filesys] Bin filesystem gpfs mount options: rw,relatime,rw
Serving UI at http://cn-0036:37035?auth=609_W-Ku6VouTDm895qdu9ptV8P8lNbMw7nsTXBI3so

Running preflight checks (please wait)...
2023-04-17 16:37:06 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT
2023-04-17 16:37:06 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT.fork0.split
2023-04-17 16:37:06 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT_LOCAL
2023-04-17 16:37:06 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT_LOCAL.fork0.chnk0.main
2023-04-17 16:37:15 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT
2023-04-17 16:37:15 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT.fork0.join
2023-04-17 16:37:17 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT_LOCAL
2023-04-17 16:37:18 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPACERANGER_PREFLIGHT
2023-04-17 16:37:18 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_TILE_IMAGES
2023-04-17 16:37:18 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_TILE_IMAGES.fork0.split
2023-04-17 16:37:18 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION
2023-04-17 16:37:18 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION.fork0.chnk0.main
2023-04-17 16:37:18 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER_PREP.CHEMISTRY_DETECTOR
2023-04-17 16:37:18 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER_PREP.CHEMISTRY_DETECTOR.fork0.chnk0.main
2023-04-17 16:37:18 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.STANDARDIZE_IMAGES
2023-04-17 16:37:18 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.STANDARDIZE_IMAGES.fork0.split
2023-04-17 16:37:18 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.WRITE_GENE_INDEX
2023-04-17 16:37:18 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.WRITE_GENE_INDEX.fork0.chnk0.main
2023-04-17 16:37:18 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION
2023-04-17 16:37:18 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_TILE_IMAGES
2023-04-17 16:37:18 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_TILE_IMAGES.fork0.join
2023-04-17 16:37:19 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.STANDARDIZE_IMAGES
2023-04-17 16:37:19 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.STANDARDIZE_IMAGES.fork0.join
2023-04-17 16:37:20 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER_PREP.CHEMISTRY_DETECTOR
2023-04-17 16:37:20 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER_PREP.MULTI_SETUP_CHUNKS
2023-04-17 16:37:20 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER_PREP.MULTI_SETUP_CHUNKS.fork0.chnk0.main
2023-04-17 16:37:20 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER_PREP.MULTI_SETUP_CHUNKS
2023-04-17 16:37:20 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.GPR_READER
2023-04-17 16:37:20 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.GPR_READER.fork0.chnk0.main
2023-04-17 16:37:21 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.GPR_READER
2023-04-17 16:37:35 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.STANDARDIZE_IMAGES
2023-04-17 16:37:35 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.ALIGN_FIDUCIALS
2023-04-17 16:37:35 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.ALIGN_FIDUCIALS.fork0.chnk0.main
2023-04-17 16:37:35 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.WRITE_GENE_INDEX
2023-04-17 16:37:35 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.PARSE_TARGET_FEATURES
2023-04-17 16:37:35 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.PARSE_TARGET_FEATURES.fork0.chnk0.main
2023-04-17 16:37:39 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.ALIGN_FIDUCIALS
2023-04-17 16:37:39 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.DETECT_TISSUE
2023-04-17 16:37:39 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.DETECT_TISSUE.fork0.chnk0.main
2023-04-17 16:37:39 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.PARSE_TARGET_FEATURES
2023-04-17 16:37:39 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MAKE_SHARD
2023-04-17 16:37:39 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MAKE_SHARD.fork0.split
2023-04-17 16:37:45 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MAKE_SHARD
2023-04-17 16:37:45 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MAKE_SHARD.fork0.chnk0.main
2023-04-17 16:37:48 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_IMAGING_CS.DETECT_TISSUE
2023-04-17 16:39:37 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_TILE_IMAGES
2023-04-17 16:42:42 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MAKE_SHARD
2023-04-17 16:42:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MAKE_SHARD.fork0.join
2023-04-17 16:42:42 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MAKE_SHARD
2023-04-17 16:42:42 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION
2023-04-17 16:42:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION.fork0.split
2023-04-17 16:42:42 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION
2023-04-17 16:42:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION.fork0.chnk0.main
2023-04-17 16:42:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION.fork0.chnk1.main
2023-04-17 16:42:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION.fork0.chnk2.main
2023-04-17 16:42:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION.fork0.chnk3.main
2023-04-17 16:42:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION.fork0.chnk4.main
2023-04-17 16:42:47 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION
2023-04-17 16:42:47 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION.fork0.join
2023-04-17 16:42:47 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.BARCODE_CORRECTION
2023-04-17 16:42:47 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER._SLFE_PARTIAL_FIRST_PASS.SUBSAMPLE_BARCODES
2023-04-17 16:42:47 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER._SLFE_PARTIAL_FIRST_PASS.SUBSAMPLE_BARCODES
2023-04-17 16:42:47 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.SET_ALIGNER_SUBSAMPLE_RATE
2023-04-17 16:42:47 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.SET_ALIGNER_SUBSAMPLE_RATE.fork0.chnk0.main
2023-04-17 16:42:47 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER._SLFE_PARTIAL_FIRST_PASS.INITIAL_ALIGN_AND_COUNT
2023-04-17 16:42:47 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER._SLFE_PARTIAL_FIRST_PASS.INITIAL_ALIGN_AND_COUNT
2023-04-17 16:42:47 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER._SLFE_PARTIAL_FIRST_PASS.SET_TARGETED_UMI_FILTER
2023-04-17 16:42:47 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER._SLFE_PARTIAL_FIRST_PASS.SET_TARGETED_UMI_FILTER
2023-04-17 16:42:47 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER._SLFE_PARTIAL_FIRST_PASS
2023-04-17 16:42:47 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.SET_ALIGNER_SUBSAMPLE_RATE
2023-04-17 16:42:47 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT
2023-04-17 16:42:47 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0.split
2023-04-17 16:42:48 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT
2023-04-17 16:42:48 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0.chnk0.main
2023-04-17 16:42:48 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0.chnk1.main
2023-04-17 16:42:48 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0.chnk2.main
2023-04-17 16:42:48 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0.chnk3.main
2023-04-17 16:42:48 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0.chnk4.main
2023-04-17 16:48:49 [runtime] (update)          ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0 chunks running (0/5 completed)
2023-04-17 16:54:13 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT
2023-04-17 16:54:13 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT.fork0.join
2023-04-17 16:54:13 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.ALIGN_AND_COUNT
2023-04-17 16:54:13 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM
2023-04-17 16:54:13 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.split
2023-04-17 16:54:13 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_H5_MATRIX
2023-04-17 16:54:13 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_H5_MATRIX.fork0.chnk0.main
2023-04-17 16:54:13 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.COLLATE_METRICS
2023-04-17 16:54:13 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.COLLATE_METRICS.fork0.chnk0.main
2023-04-17 16:54:13 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_BARCODE_SUMMARY
2023-04-17 16:54:13 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_BARCODE_SUMMARY.fork0.chnk0.main
2023-04-17 16:54:13 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_MATRIX_MARKET
2023-04-17 16:54:13 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_MATRIX_MARKET.fork0.chnk0.main
2023-04-17 16:54:14 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.COLLATE_METRICS
2023-04-17 16:54:14 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MERGE_METRICS
2023-04-17 16:54:14 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MERGE_METRICS.fork0.chnk0.main
2023-04-17 16:54:14 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.MERGE_METRICS
2023-04-17 16:54:14 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM
2023-04-17 16:54:14 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.chnk0.main
2023-04-17 16:54:14 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.chnk1.main
2023-04-17 16:54:14 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.chnk2.main
2023-04-17 16:54:14 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.chnk3.main
2023-04-17 16:54:14 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.chnk4.main
2023-04-17 16:54:14 [jobmngr] Need 400 centi-threads to start the next job (100 available).  Waiting for jobs to complete.
2023-04-17 16:54:19 [jobmngr] Need 400 centi-threads to start the next job (200 available). Waiting for jobs to complete.
2023-04-17 16:54:19 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_H5_MATRIX
2023-04-17 16:54:19 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.FILTER_BARCODES
2023-04-17 16:54:19 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.FILTER_BARCODES.fork0.split
2023-04-17 16:54:20 [jobmngr] Need 400 centi-threads to start the next job (300 available). Waiting for jobs to complete.
2023-04-17 16:54:20 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_MATRIX_MARKET
2023-04-17 16:54:25 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._MATRIX_COMPUTER.WRITE_BARCODE_SUMMARY
2023-04-17 16:55:42 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.FILTER_BARCODES
2023-04-17 16:55:42 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.FILTER_BARCODES.fork0.join
2023-04-17 16:55:49 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM
2023-04-17 16:55:49 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.join
2023-04-17 16:56:03 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM
2023-04-17 16:56:05 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.FILTER_BARCODES
2023-04-17 16:56:05 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.ANALYZER_PREFLIGHT
2023-04-17 16:56:05 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.ANALYZER_PREFLIGHT.fork0.chnk0.main
2023-04-17 16:56:05 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.WRITE_MOLECULE_INFO
2023-04-17 16:56:05 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.WRITE_MOLECULE_INFO.fork0.chnk0.main
2023-04-17 16:56:07 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.ANALYZER_PREFLIGHT
2023-04-17 16:56:07 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.PREPROCESS_MATRIX
2023-04-17 16:56:07 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.PREPROCESS_MATRIX.fork0.split
2023-04-17 16:56:09 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.PREPROCESS_MATRIX
2023-04-17 16:56:09 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.PREPROCESS_MATRIX.fork0.join
2023-04-17 16:56:15 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.PREPROCESS_MATRIX
2023-04-17 16:56:15 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_FBPCA
2023-04-17 16:56:15 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_FBPCA
2023-04-17 16:56:15 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_PCA
2023-04-17 16:56:15 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_PCA.fork0.split
2023-04-17 16:56:15 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS
2023-04-17 16:56:15 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS
2023-04-17 16:56:15 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH
2023-04-17 16:56:15 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH
2023-04-17 16:56:16 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_PCA
2023-04-17 16:56:16 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_PCA.fork0.chnk0.main
2023-04-17 16:56:24 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.WRITE_MOLECULE_INFO
2023-04-17 16:56:24 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS
2023-04-17 16:56:24 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS.fork0.split
2023-04-17 16:56:24 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.SUBSAMPLE_ON_TARGET_READS
2023-04-17 16:56:24 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.SUBSAMPLE_ON_TARGET_READS
2023-04-17 16:56:24 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_PCA
2023-04-17 16:56:24 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_PCA.fork0.join
2023-04-17 16:56:24 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.SUBSAMPLE_OFF_TARGET_READS
2023-04-17 16:56:24 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.SUBSAMPLE_OFF_TARGET_READS
2023-04-17 16:56:25 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_PCA
2023-04-17 16:56:25 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT
2023-04-17 16:56:25 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT.fork0.chnk0.main
2023-04-17 16:56:25 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT
2023-04-17 16:56:25 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_UMAP
2023-04-17 16:56:25 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_UMAP.fork0.split
2023-04-17 16:56:25 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS
2023-04-17 16:56:25 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.split
2023-04-17 16:56:25 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2023-04-17 16:56:25 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.split
2023-04-17 16:56:25 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_TSNE
2023-04-17 16:56:25 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_TSNE.fork0.split
2023-04-17 16:56:27 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk0.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk1.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk2.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk3.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk4.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk5.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk6.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk7.main
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.chnk8.main
2023-04-17 16:56:27 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.chnk0.main
2023-04-17 16:56:27 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_TSNE
2023-04-17 16:56:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_TSNE.fork0.chnk0.main
2023-04-17 16:56:29 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2023-04-17 16:56:29 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.join
2023-04-17 16:56:30 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS
2023-04-17 16:56:30 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS.fork0.join
2023-04-17 16:56:30 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_UMAP
2023-04-17 16:56:30 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_UMAP.fork0.chnk0.main
2023-04-17 16:56:30 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS
2023-04-17 16:56:30 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS.fork0.chnk0.main
2023-04-17 16:56:30 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS.fork0.chnk1.main
2023-04-17 16:56:30 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS.fork0.chnk2.main
2023-04-17 16:56:31 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_KMEANS
2023-04-17 16:56:32 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_TSNE
2023-04-17 16:56:32 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_TSNE.fork0.join
2023-04-17 16:56:33 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_TSNE
2023-04-17 16:56:34 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2023-04-17 16:56:34 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.MERGE_CLUSTERS
2023-04-17 16:56:34 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.MERGE_CLUSTERS.fork0.split
2023-04-17 16:56:36 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.MERGE_CLUSTERS
2023-04-17 16:56:36 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.MERGE_CLUSTERS.fork0.chnk0.main
2023-04-17 16:56:37 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.MERGE_CLUSTERS
2023-04-17 16:56:37 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.MERGE_CLUSTERS.fork0.join
2023-04-17 16:56:43 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.MERGE_CLUSTERS
2023-04-17 16:56:43 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.COMBINE_CLUSTERING
2023-04-17 16:56:43 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.COMBINE_CLUSTERING.fork0.chnk0.main
2023-04-17 16:56:43 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_UMAP
2023-04-17 16:56:43 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_UMAP.fork0.join
2023-04-17 16:56:44 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.COMBINE_CLUSTERING
2023-04-17 16:56:44 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2023-04-17 16:56:44 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.split
2023-04-17 16:56:46 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk00.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk01.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk02.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk03.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk04.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk05.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk06.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk07.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk08.main
2023-04-17 16:56:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk09.main
2023-04-17 16:56:47 [jobmngr] Need 400 centi-threads to start the next job (100 available). Waiting for jobs to complete.
2023-04-17 16:56:47 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_UMAP
2023-04-17 16:56:56 [jobmngr] Need 400 centi-threads to start the next job (100 available). Waiting for jobs to complete.
2023-04-17 16:57:04 [jobmngr] Need 400 centi-threads to start the next job (100 available). Waiting for jobs to complete.
2023-04-17 16:57:05 [jobmngr] Need 400 centi-threads to start the next job (100 available). Waiting for jobs to complete.
2023-04-17 16:57:05 [jobmngr] Need 400 centi-threads to start the next job (200 available). Waiting for jobs to complete.
2023-04-17 16:57:14 [jobmngr] Need 400 centi-threads to start the next job (200 available). Waiting for jobs to complete.
2023-04-17 16:57:26 [jobmngr] Need 400 centi-threads to start the next job (200 available). Waiting for jobs to complete.
2023-04-17 16:57:44 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS
2023-04-17 16:57:44 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS.fork0.join
2023-04-17 16:57:46 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUBSAMPLE_READS
2023-04-17 16:57:46 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUMMARIZE_BASIC_REPORTS
2023-04-17 16:57:46 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUMMARIZE_BASIC_REPORTS.fork0.split
2023-04-17 16:57:47 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUMMARIZE_BASIC_REPORTS
2023-04-17 16:57:47 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUMMARIZE_BASIC_REPORTS.fork0.join
2023-04-17 16:57:52 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER._CELLS_REPORTER.SUMMARIZE_BASIC_REPORTS
2023-04-17 16:57:52 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.CALCULATE_TARGETED_METRICS
2023-04-17 16:57:52 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.CALCULATE_TARGETED_METRICS
2023-04-17 16:57:52 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.SUMMARIZE_TARGETED_ANALYSIS
2023-04-17 16:57:52 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER.SUMMARIZE_TARGETED_ANALYSIS
2023-04-17 16:57:52 [runtime] (disabled)        ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._TARGETED_ANALYZER
2023-04-17 16:58:16 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2023-04-17 16:58:16 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.join
2023-04-17 16:58:19 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2023-04-17 16:58:19 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2023-04-17 16:58:19 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.split
2023-04-17 16:58:20 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2023-04-17 16:58:20 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.chnk0.main
2023-04-17 16:58:22 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2023-04-17 16:58:22 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.join
2023-04-17 16:58:23 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2023-04-17 16:58:23 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_REPORTER
2023-04-17 16:58:23 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_REPORTER.fork0.chnk0.main
2023-04-17 16:58:27 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER.SPATIAL_REPORTER
2023-04-17 16:58:27 [runtime] (ready)           ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2023-04-17 16:58:27 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.split
2023-04-17 16:58:28 [runtime] (split_complete)  ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2023-04-17 16:58:28 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.chnk0.main
2023-04-17 16:58:58 [runtime] (chunks_complete) ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2023-04-17 16:58:58 [runtime] (run:local)       ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.join
2023-04-17 16:59:01 [runtime] (join_complete)   ID.399-A1.SPATIAL_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2023-04-17 16:59:02 [runtime] VDR killed 1617 files, 29 GB.

Outputs:
- Run summary HTML:                         /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/web_summary.html
- Outputs of spatial pipeline:              /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/spatial
- Run summary CSV:                          /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/metrics_summary.csv
- BAM:                                      /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/possorted_genome_bam.bam
- BAM index:                                /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/possorted_genome_bam.bam.bai
- Filtered feature-barcode matrices MEX:    /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/filtered_feature_bc_matrix
- Filtered feature-barcode matrices HDF5:   /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/filtered_feature_bc_matrix.h5
- Unfiltered feature-barcode matrices MEX:  /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/raw_feature_bc_matrix
- Unfiltered feature-barcode matrices HDF5: /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/raw_feature_bc_matrix.h5
- Secondary analysis output CSV:            /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/analysis
- Per-molecule read information:            /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/molecule_info.h5
- Loupe Browser file:                       /gpfs/data/yanailab/projects/jw7078/processed_data/399-A1/outs/cloupe.cloupe
- Target Panel File:                        null

2023-04-17 16:59:02 [perform] Serializing pipestance performance data.
Waiting 6 seconds for UI to do final refresh.
Pipestance completed successfully!

2023-04-17 16:59:08 Shutting down.
2023-04-17 16:59:08 [jobmngr] Highest memory usage observed: {
  "rss": 67527712768,
  "shared": 398233600,
  "vmem": 7001469616128,
  "text": 159817728,
  "stack": 6995620368384,
  "proc_count": 281
}
