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nservant / HiC-Pro

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
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There are typo "LIGATTION_SITE" in bowtie_combine.sh script #579

Closed khsjh closed 5 months ago

khsjh commented 1 year ago

I found typo in bowtie_combine.sh.

elif [[ ${LIGATTION_SITE} == "" ]]; then

    cmd="ln -f -s ../../bwt2_global/${prefix}.bwt2glob.bam ${BOWTIE2_FINAL_OUTPUT_DIR}/${prefix}.bwt2merged.bam "
    exec_cmd $cmd 2>&1

There are LIGATTION_SITE in combine.sh script but in config file, it use LIGATION_SITE for parameter. When I checked, other script is fine.