### docs/plans/20260605T000000Z_hyb_only_mounted_fastq_kitchensink_logs/ont_config/20260606T053415Z_13973636_samples.tsv
SAMPLEID	SAMPLESOURCE	SAMPLECLASS	BIOLOGICAL_SEX	CONCORDANCE_CONTROL_PATH	IS_POSITIVE_CONTROL	IS_NEGATIVE_CONTROL	SAMPLE_TYPE	TUM_NRM_SAMPLEID_MATCH	EXTERNAL_SAMPLE_ID	N_X	N_Y	TRUTH_DATA_DIR
NA00232	gdna	research	male	na	false	false	gdna	na	NA00232	1	1	na
NA03986	gdna	research	male	na	false	false	gdna	na	NA03986	1	1	na
NA05164	gdna	research	male	na	false	false	gdna	na	NA05164	1	1	na
NA09677	gdna	research	male	na	false	false	gdna	na	NA09677	1	1	na
### docs/plans/20260605T000000Z_hyb_only_mounted_fastq_kitchensink_logs/ont_config/20260606T053415Z_13973636_units.tsv
RUNID	SAMPLEID	EXPERIMENTID	LANEID	BARCODEID	LIBPREP	SEQ_VENDOR	SEQ_PLATFORM	ILMN_R1_PATH	ILMN_R2_PATH	PACBIO_R1_PATH	PACBIO_R2_PATH	ONT_R1_PATH	ONT_R2_PATH	UG_R1_PATH	UG_R2_PATH	SUBSAMPLE_PCT	ILMN_TRIM_READ_LENGTH	SAMPLEUSE	BWA_KMER	DEEP_MODEL	ULTIMA_CRAM	ULTIMA_CRAM_ALIGNER	ULTIMA_CRAM_SNV_CALLER	ONT_CRAM	ONT_CRAM_ALIGNER	ONT_CRAM_SNV_CALLER	PB_BAM	PB_BAM_ALIGNER	PB_BAM_SNV_CALLER	ROCHE_BAM	ROCHE_BAM_ALIGNER	ROCHE_BAM_SNV_CALLER	ROCHE_DOWNSAMPLE_RATIO	LONGREADTRIM_READ_LENGTH	LONGREADTRIM_MODE	ULTIMA_SUBSAMPLE_PCT	ONT_SUBSAMPLE_PCT	ONT_BAM	ONT_BAM_ALIGNER	ONT_BAM_SNV_CALLER
ONT-4Coriells-chip1	NA00232	SMN	chip1	barcode18-chip1-0000	PF	ONT	PROMETHION					/fsx/run_dir_mounts/ont-4coriells-chip1/fastq_pass/barcode18/PBM13545_pass_barcode18_f3392d36_eb9b0a06_0.fastq.gz	na			na		sample	19	ONT_R104																				
ONT-4Coriells-chip1	NA00232	SMN	chip1	barcode18-chip1-0001	PF	ONT	PROMETHION					/fsx/run_dir_mounts/ont-4coriells-chip1/fastq_pass/barcode18/PBM13545_pass_barcode18_f3392d36_eb9b0a06_1.fastq.gz	na			na		sample	19	ONT_R104																				
ONT-4Coriells-chip1	NA00232	SMN	chip1	barcode18-chip1-0002	PF	ONT	PROMETHION					/fsx/run_dir_mounts/ont-4coriells-chip1/fastq_pass/barcode18/PBM13545_pass_barcode18_f3392d36_eb9b0a06_10.fastq.gz	na			na		sample	19	ONT_R104																				
ONT-4Coriells-chip1	NA00232	SMN	chip1	barcode18-chip1-0003	PF	ONT	PROMETHION					/fsx/run_dir_mounts/ont-4coriells-chip1/fastq_pass/barcode18/PBM13545_pass_barcode18_f3392d36_eb9b0a06_11.fastq.gz	na			na		sample	19	ONT_R104																				
### docs/plans/20260605T000000Z_hyb_only_mounted_fastq_kitchensink_logs/ilmn_config/20260606T053415Z_2cb106be_samples.tsv
SAMPLEID	SAMPLESOURCE	SAMPLECLASS	BIOLOGICAL_SEX	CONCORDANCE_CONTROL_PATH	IS_POSITIVE_CONTROL	IS_NEGATIVE_CONTROL	SAMPLE_TYPE	TUM_NRM_SAMPLEID_MATCH	EXTERNAL_SAMPLE_ID	N_X	N_Y	TRUTH_DATA_DIR
HG003-a	gdna	research	male	/fsx/references/genomic_data/organism_annotations/H_sapiens/hg38/controls/giab/snv/v4.2.1/HG003/	true	false	gdna	na	HG003	1	1	/fsx/references/genomic_data/organism_annotations/H_sapiens/hg38/controls/giab/snv/v4.2.1/HG003/
HG003-b	gdna	research	male	/fsx/references/genomic_data/organism_annotations/H_sapiens/hg38/controls/giab/snv/v4.2.1/HG003/	true	false	gdna	na	HG003	1	1	/fsx/references/genomic_data/organism_annotations/H_sapiens/hg38/controls/giab/snv/v4.2.1/HG003/
HG003-c	gdna	research	male	/fsx/references/genomic_data/organism_annotations/H_sapiens/hg38/controls/giab/snv/v4.2.1/HG003/	true	false	gdna	na	HG003	1	1	/fsx/references/genomic_data/organism_annotations/H_sapiens/hg38/controls/giab/snv/v4.2.1/HG003/
NA00232	gdna	research	male	na	false	false	gdna	na	NA00232	1	1	na
### docs/plans/20260605T000000Z_hyb_only_mounted_fastq_kitchensink_logs/ilmn_config/20260606T053415Z_2cb106be_units.tsv
RUNID	SAMPLEID	EXPERIMENTID	LANEID	BARCODEID	LIBPREP	SEQ_VENDOR	SEQ_PLATFORM	ILMN_R1_PATH	ILMN_R2_PATH	PACBIO_R1_PATH	PACBIO_R2_PATH	ONT_R1_PATH	ONT_R2_PATH	UG_R1_PATH	UG_R2_PATH	SUBSAMPLE_PCT	ILMN_TRIM_READ_LENGTH	SAMPLEUSE	BWA_KMER	DEEP_MODEL	ULTIMA_CRAM	ULTIMA_CRAM_ALIGNER	ULTIMA_CRAM_SNV_CALLER	ONT_CRAM	ONT_CRAM_ALIGNER	ONT_CRAM_SNV_CALLER	PB_BAM	PB_BAM_ALIGNER	PB_BAM_SNV_CALLER	ROCHE_BAM	ROCHE_BAM_ALIGNER	ROCHE_BAM_SNV_CALLER	ROCHE_DOWNSAMPLE_RATIO	LONGREADTRIM_READ_LENGTH	LONGREADTRIM_MODE	ULTIMA_SUBSAMPLE_PCT	ONT_SUBSAMPLE_PCT	ONT_BAM	ONT_BAM_ALIGNER	ONT_BAM_SNV_CALLER
20260526-LH01121-0004-B23WW2NLT4	HG003-a	GIAB	all	S7	PF	ILMN	NOVASEQ	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/Altair-HG003-a_S7_R1_001.fastq.gz	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/Altair-HG003-a_S7_R2_001.fastq.gz							na		posControl	19	WGS																				
20260526-LH01121-0004-B23WW2NLT4	HG003-b	GIAB	all	S8	PF	ILMN	NOVASEQ	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/Altair-HG003-b_S8_R1_001.fastq.gz	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/Altair-HG003-b_S8_R2_001.fastq.gz							na		posControl	19	WGS																				
20260526-LH01121-0004-B23WW2NLT4	HG003-c	GIAB	all	S9	PF	ILMN	NOVASEQ	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/Altair-HG003-c_S9_R1_001.fastq.gz	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/Altair-HG003-c_S9_R2_001.fastq.gz							na		posControl	19	WGS																				
20260526-LH01121-0004-B23WW2NLT4	NA00232	SMN	all	S46	PF	ILMN	NOVASEQ	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/NA00232-SMN_S46_R1_001.fastq.gz	/fsx/run_dir_mounts/ilmn-lh01121-b23ww2nlt4-fastq/NA00232-SMN_S46_R2_001.fastq.gz							na		sample	19	WGS																				
