dnbc4rna data --cDNAfastq1 /home/liunyw/qhs_data/0.rawdata/H1/6788-1-231129/cDNA-6788-1-231129/DP8480003117TL_L01_38_1.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-1-231129/cDNA-6788-1-231129/DP8480003122TL_L01_38_1.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-2-231129/cDNA-6788-2-231129/DP8480003117TL_L01_39_1.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-2-231129/cDNA-6788-2-231129/DP8480003122TL_L01_39_1.fq.gz --cDNAfastq2 /home/liunyw/qhs_data/0.rawdata/H1/6788-1-231129/cDNA-6788-1-231129/DP8480003117TL_L01_38_2.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-1-231129/cDNA-6788-1-231129/DP8480003122TL_L01_38_2.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-2-231129/cDNA-6788-2-231129/DP8480003117TL_L01_39_2.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-2-231129/cDNA-6788-2-231129/DP8480003122TL_L01_39_2.fq.gz --oligofastq1 /home/liunyw/qhs_data/0.rawdata/H1/6788-1-231129/oligo-6788-1-231129/DP8480003322TL_L01_62_1.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-2-231129/oligo-6788-2-231129/DP8480003322TL_L01_63_1.fq.gz --oligofastq2 /home/liunyw/qhs_data/0.rawdata/H1/6788-1-231129/oligo-6788-1-231129/DP8480003322TL_L01_62_2.fq.gz,/home/liunyw/qhs_data/0.rawdata/H1/6788-2-231129/oligo-6788-2-231129/DP8480003322TL_L01_63_2.fq.gz --threads 60 --name H1 --chemistry auto --darkreaction auto --outdir /home/liunyw/qhs_data/matrix/output --genomeDir /home/liunyw/qhs_data/genome/mm10_hsv
2024-01-13 20:26:40,869 - data - INFO 
mapped_dnbs: 1685770

2024-01-13 22:38:45,382 - data - INFO 
2024-1-13  19:32:54 ..... started STAR run
Jan 13 19:32:54 ..... loading genome
Jan 13 19:33:27 ..... started mapping
mapped_dnbs: 2354089
Jan 13 22:38:20 ..... finished mapping
Jan 13 22:38:35 ..... finished successfully

2024-01-13 22:39:33,942 - data - ERROR 
Command failed with exit code -6
2024-01-13 22:39:33,942 - data - ERROR 
2024-01-13 22:39:32.796 W process: stoi
terminate called after throwing an instance of 'std::runtime_error'
  what():  Failed makeOverlapDetector! Please check annotation file format.

2024-01-13 22:39:34,040 - data - ERROR 
Command failed with exit code 1
2024-01-13 22:39:34,041 - data - ERROR 
[E::hts_open_format] Failed to open file "/home/liunyw/qhs_data/matrix/output/H1/01.data/final.bam" : No such file or directory
samtools sort: can't open "/home/liunyw/qhs_data/matrix/output/H1/01.data/final.bam": No such file or directory

dnbc4rna count --name H1 --calling_method emptydrops --expectcells 3000 --forcecells 0 --minumi 1000 --threads 60 --outdir /home/liunyw/qhs_data/matrix/output
dnbc4rna analysis --name H1  --outdir /home/liunyw/qhs_data/matrix/output --genomeDir /home/liunyw/qhs_data/genome/mm10_hsv
dnbc4rna report --name H1 --genomeDir /home/liunyw/qhs_data/genome/mm10_hsv --outdir /home/liunyw/qhs_data/matrix/output --threads 60