DAY-EC activated.
DAY-EC activated.
whoami=ubuntu
hostname=ip-10-0-0-225
date_utc=2026-06-01T23:53:27Z
run_dir=/fsx/run_dir_mounts/20260514_LH01106_0009_B23TVLGLT4
sample_sheet=/fsx/run_dir_mounts/20260514_LH01106_0009_B23TVLGLT4/SampleSheet.csv
runinfo=/fsx/run_dir_mounts/20260514_LH01106_0009_B23TVLGLT4/RunInfo.xml
runparameters=/fsx/run_dir_mounts/20260514_LH01106_0009_B23TVLGLT4/RunParameters.xml
basecalls=/fsx/run_dir_mounts/20260514_LH01106_0009_B23TVLGLT4/Data/Intensities/BaseCalls
day_clone_path=/home/ubuntu/.local/bin/day-clone
__DAY_CLONE_LIST_START__
Available repositories:

- daylily-omics-analysis: Daylily Omics Analysis
    Primary whole genome and multiomics workflows.
    Default ref: 2.0.34

- rna-seq-star-deseq2: RNA-seq STAR + DESeq2
    RNA sequencing alignment and differential expression analysis workflows.
    Default ref: main

- daylily-sarek: daylily-sarek
    sarek nf-core analysis workflows.
    Default ref: 0.7.379

__DAY_CLONE_LIST_END__
__FSX_DF_START__
Filesystem                Size  Used Avail Use% Mounted on
10.0.1.248@tcp:/3vbzxb4v  6.6T   76M  6.6T   1% /fsx
__FSX_DF_END__
__FSX_MOUNT_START__
TARGET SOURCE                   FSTYPE OPTIONS
/fsx   10.0.1.248@tcp:/3vbzxb4v lustre rw,noatime,checksum,flock,user_xattr,lruresize,lazystatfs,nouser_fid2path,verbose,encrypt
__FSX_MOUNT_END__
__RUN_ROOT_LS_START__
total 401
drwxr-xr-x   9 root root   25600 Jun  1 19:14 .
drwxr-xr-x   3 root root   33280 Jun  1 18:56 ..
drwxr-xr-x   3 root root   33280 Jun  1 19:14 Analysis
-rwxr-xr-x   1 root root       0 May 18 14:46 CopyComplete.txt
drwxr-xr-x   3 root root   33280 Jun  1 19:14 Data
drwxr-xr-x   2 root root   90624 Jun  1 19:14 InstrumentAnalyticsLogs
drwxr-xr-x 324 root root   90624 Jun  1 19:14 InterOp
drwxr-xr-x   2 root root   33280 Jun  1 19:14 Logs
-rwxr-xr-x   1 root root 4367440 May 18 14:46 Manifest.tsv
-rwxr-xr-x   1 root root     794 May 19 01:13 OOW.done
-rwxr-xr-x   1 root root       1 May 18 14:46 RTAComplete.txt
-rwxr-xr-x   1 root root       2 May 18 14:46 RTAExited.txt
-rwxr-xr-x   1 root root     803 May 18 14:46 RunCompletionStatus.xml
-rwxr-xr-x   1 root root  157676 May 18 14:46 RunInfo.xml
-rwxr-xr-x   1 root root    3559 May 18 14:46 RunParameters.xml
-rwxr-xr-x   1 root root    5742 May 18 14:46 SampleSheet.csv
drwxr-xr-x  10 root root   33280 Jun  1 19:14 Thumbnail_Images
drwxr-xr-x   2 root root   33280 Jun  1 19:15 _lsmc_ingest
__RUN_ROOT_LS_END__
__LANE_DIRS_START__
L001
L002
L003
L004
L005
L006
L007
L008
__LANE_DIRS_END__
lane003_filter_count=784
__RUNINFO_FLOWCELL_START__
		<Flowcell>23TVLGLT4</Flowcell>
		<Instrument>LH01106</Instrument>
			<Read Number="1" NumCycles="151" IsIndexedRead="N" IsReverseComplement="N"/>
			<Read Number="2" NumCycles="10" IsIndexedRead="Y" IsReverseComplement="N"/>
			<Read Number="3" NumCycles="10" IsIndexedRead="Y" IsReverseComplement="Y"/>
			<Read Number="4" NumCycles="151" IsIndexedRead="N" IsReverseComplement="N"/>
__RUNINFO_FLOWCELL_END__
__RUNPARAMETERS_FLOWCELL_START__
  <Side>B</Side>
  <InstrumentType>NovaSeqXPlus</InstrumentType>
  <InstrumentSerialNumber>LH01106</InstrumentSerialNumber>
  <FlowCellName>NovaSeqXSeries B4</FlowCellName>
  <FlowCellType>NovaSeqXSeriesB4</FlowCellType>
      <Type>FlowCell</Type>
__RUNPARAMETERS_FLOWCELL_END__
__BCL_CONVERT_PATH_START__
__BCL_CONVERT_PATH_END__
__BCL_CONVERT_VERSION_START__
bcl-convert not on headnode PATH outside workflow/container
__BCL_CONVERT_VERSION_END__
__SNAKEMAKE_VERSION_START__
snakemake not on bare headnode PATH
__SNAKEMAKE_VERSION_END__
