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Describe the bug
I h
5F26
ave successfully constructed the STAR-index that contains the genomeParameters.txt file. but error was “genomeParameters.txt: No such file or directory”。How can I deal with this problem?
Describe the bug
I h 5F26 ave successfully constructed the STAR-index that contains the genomeParameters.txt file. but error was “genomeParameters.txt: No such file or directory”。How can I deal with this problem?
To Reproduce
yaml file
project: SS
sequence_files:
file1:
name: /home/ubuntu/raw/A1_1.fastq.gz
base_definition: cDNA(1-60)
file2:
name: /home/ubuntu/raw/A1_2.fastq.gz
base_definition: cDNA(1-50)
reference:
STAR_index: /home/ubuntu/ref/hg38
GTF_file: /home/ubuntu/ref/genes.gtf
additional_STAR_params: ''
additional_files: ~
out_dir: /home/ubuntu/out
num_threads: 32
mem_limit: 0
filter_cutoffs:
BC_filter:
num_bases: 1
phred: 20
UMI_filter:
num_bases: 1
phred: 20
barcodes:
barcode_num: null
barcode_file: null
barcode_sharing: ''
automatic: yes
BarcodeBinning: 1
nReadsperCell: 100
demultiplex: no
counting_opts:
introns: yes
downsampling: '0'
strand: 0
Ham_Dist: 0
write_ham: no
velocyto: no
primaryHit: yes
twoPass: yes
make_stats: yes
which_Stage: Filtering
Rscript_exec: Rscript
STAR_exec: STAR
pigz_exec: pigz
samtools_exec: samtools
Screenshots
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