nservant / HiC-Pro

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
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Run HiC-Pro 3.1.0 mkdir: missing operand Try 'mkdir --help' for more information. #569

Open lkiko opened 1 year ago

lkiko commented 1 year ago

hello! I encountered the following problems when using HICPRO. I want to ask how I should modify it. Installation steps:

  1. `make configure make -f ./scripts/install/Makefile CONFIG_SYS=./config-install.txt make[1]: Entering directory '/home/lanmeifang/Hic-pro/HiC-Pro' ./scripts/install/install_dependencies.sh -c ./config-install.txt -p /home/lanmeifang/Hic-pro -o /home/lanmeifang/Hic-pro/HiC-Pro_3.1.0 -q Make sure internet connection works for your shell prompt under current user's privilege ... Starting HiC-Pro installation ! export /home/lanmeifang/bowtie2/bowtie2 in PATH export /home/lanmeifang/samtools/bin/samtools in PATH export /home/lanmeifang/anaconda3/envs/hicpro/bin/R in PATH export /home/lanmeifang/anaconda3/envs/hicpro/bin/python in PATH Checking dependencies

    • Python libraries ...OK
    • R installation ...OK
    • Bowtie2 installation ...OK
    • Samtools installation ...OK Checking HiC-Pro configuration
    • Configuration for TORQUE/PBS system ...OK done ! make[1]: Leaving directory '/home/lanmeifang/Hic-pro/HiC-Pro'`
  2. make install (g++ -Wall -O2 -std=c++0x -o build_matrix /home/lanmeifang/Hic-pro/HiC-Pro/scripts/src/build_matrix.cpp; mv build_matrix /home/lanmeifang/Hic-pro/HiC-Pro/scripts) (g++ -Wall -O2 -std=c++0x -o cutsite_trimming /home/lanmeifang/Hic-pro/HiC-Pro/scripts/src/cutsite_trimming.cpp; mv cutsite_trimming /home/lanmeifang/Hic-pro/HiC-Pro/scripts) cp -Ri /home/lanmeifang/Hic-pro/HiC-Pro /home/lanmeifang/Hic-pro/HiC-Pro_3.1.0 HiC-Pro installed in /home/lanmeifang/Hic-pro/HiC-Pro_3.1.0 !

Software operation

/home/lanmeifang/Hic-pro/HiC-Pro_3.1.0/bin/HiC-Pro -c config-hicpro.txt -o analysis -i /data02/lanmeifang/smo04/hicpro/hic/ Run HiC-Pro 3.1.0 mkdir: missing operand Try 'mkdir --help' for more information. make: *** [/home/lanmeifang/Hic-pro/HiC-Pro_3.1.0/bin/../scripts//Makefile:75: configure] Error 1

Thank you very much.We look forward to your reply!