configure_system.txt

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## scATAC-pro - System settings
#######################################################################
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## Required Software - Specified the DIRECTORY name of the executables
## If not specified, the program will try to locate the executable
## using the 'which' command
#######################################################################
INSTALL_PREFIX = /mnt/isilon/tan_lab/yuw1/local_tools/bin
PYTHON_PATH =  /cm/shared/easybuild/software/Python/3.10.4-GCCcore-11.3.0/bin
R_PATH =  /cm/shared/apps_chop/R/4.4.0/lib64/R/bin
SAMTOOLS_PATH = /mnt/isilon/tan_lab/yuw1/local_tools/bin/samtools-1.9
DEEPTOOLS_PATH = /home/yuw1/.local/bin
BEDTOOLS_PATH = /home/yuw1/squire_build/bedtools-2.25.0/bedtools2/bin
TABIX_PATH = /mnt/isilon/tan_lab/yuw1/local_tools/bin/tabix
BWA_PATH = /mnt/isilon/tan_lab/yuw1/local_tools/bin/bwa-0.7.17
MACS2_PATH = /home/yuw1/.local/bin
PERL_PATH = /usr/bin
CUTADAPT_PATH = /home/yuw1/.local/bin
TRIM_GALORE_PATH = /mnt/isilon/tan_lab/yuw1/local_tools/bin
HINT_PATH =  /home/yuw1/.local/bin
TRIMMOMATIC_PATH =  /mnt/isilon/tan_lab/yuw1/local_tools/bin/Trimmomatic-0.39
GEM_PATH =  /mnt/isilon/tan_lab/yuw1/local_tools/bin/gem