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nservant / HiC-Pro

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
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HiC-Pro --help #611

Closed ryao-mdanderson closed 6 months ago

ryao-mdanderson commented 6 months ago

Dear author,

I installed HiC-Pro 3.1.0 as a conda environment on our institution HPC cluster, it does not report an error.

However, I git clone the source code and use the following command seeing a message: $ ./bin/HiC-Pro --help usage : HiC-Pro -i INPUT -o OUTPUT -c CONFIG [-s ANALYSIS_STEP] [-p] [-h] [-v] Use option -h|--help for more information Error - Installation - config system not detected. Please (re) install HiC-Pro !

HiC-Pro script looks for file config-system.txt, but this file seems not to exist. Did I overlook anything?

Thank you for your help.

nservant commented 6 months ago

Hi, You need to activate your conda env, and then install HiC-Pro from the git clone.

## Edit config-install.txt file if necessary
make configure
make install

You can not use it as is.

ryao-mdanderson commented 6 months ago

Dear Nicolas, @nservant

Thank you for your reply. I did the make steps and it works.