The bam2bedgraph from atpoint

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[Error] Tools missing in PATH, see missing_tools.txt

Hi @ATpoint ,

I was trying to run your script with the following parameters:
./bam2bedgraph.sh --bams "*.bam" --atacseq --mode paired --extend 50 --mode paired --normalize --average --njobs 5

However, I got the following error:

[Info] --atacseq is set, setting --mode to single to use cutsites rather than reads

---------------------------------------------------------------------------------------------
[Version] ::: 1.1

[Info] Running with these parameters:
       --bams          = *.bam
       --mode          = single
       --extend        = 50
       --njobs         = 5
       --atacseq       = TRUE
       --normalize     = TRUE
       --sortthreads   = 1
       --sortmem       = 1G
       --nobigwig      = FALSE
       --average       = TRUE
---------------------------------------------------------------------------------------------

[Error] Tools missing in PATH, see missing_tools.txt

I cloned this repo using git clone. Am I missing something?

Thank you in advance,
Sergio

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