How could I know the Process State of Hic-pro?

[jiangpuxuan]

Here are some problems in one of my sample fastq data , so the mergeBAM.py stopped. And the /hicproout/logs/ directory seemed to have no change any more. I am not sure that the whole program have jumped to the next 'mapped_2hic_fragments.py' step. So, how could I know the Process State of Hic-pro? I ran ps -u but it did not work. I am very appreciated for your help!

[nservant]

Not sure to really understand your question. The processes are written in the stdin when the program is running ... and all logs are avaiable in the logs folder. If your sample crashes, you should go into the logs folder and look at the log file corresponding to the step it crashed to have more details. Does it answer your question ?

[jiangpuxuan]

Thank you very much. I decided to look into the logs folder.