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Higashi_vis set up about higashi HOT 2 CLOSED

ma-compbio avatar ma-compbio commented on August 16, 2024
Higashi_vis set up

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Comments (2)

BMDSKJ avatar BMDSKJ commented on August 16, 2024

By coping the higashi folder to the project folder, the ERROR message above was fixed
However, with bokeh connection, there was a new error message.

image

When checking main.py under Higashi_vis folder, command line from 80 ~82 pasted below:

def get_config(config_path = "./config.jSON"):
        c = open(config_path,"r")
        return json.load(c)

I was not able to find config.jSON file anywhere in the Higashi folder. Is it normal ?

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BMDSKJ avatar BMDSKJ commented on August 16, 2024

With Ruochi's quick and great help, the issue has been fixed. Thanks a lot, Ruochi!
Below is the correct format for visual_config.JSON file: which without the 2nd pair {} mentioned in the document https://github.com/ma-compbio/Higashi/wiki/Higashi-vis-Usage#configure-the-higashi-vis

{
"config_list": [
"path:/scHiC/Higashi/Ramani"
]
}

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