Bpipe Error: No signature of method: java.lang.StringBuilder.setLength() is applicable for argument types: (java.lang.Integer) values: [0]

[yossawat-suw]

Hello everybody,
I try to use Methpanel for the first time and I try to follow step in the readme.md and also detail in https://github.com/thinhong/MethPanel/wiki but still have no luck with launching the software. The steps i did and output is as below:

I organize file directory like:
-clock (name of my project)
--config
---sample.clock.pre.config
---system.clock.pre.config
---amplicons.tsv
--raw
---sample1
---A1_R2.fastq.gz
---A1_R1.fastq.gz

in "sample.clock.pre.config" file is a code like this:

[ clock ]
	[[ sample1 ]]

in "system.clock.pre.config" file is a code like this

// Paramenters for indexing the amplicon sequences
// Project
project="clock"
// where to place the project
projectp="/home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point"
// the coordinates in the tsv file in which reference genome version
build_name="hg38"
// Name of the panel
panel_name="amplicons"
// the length of extension in both direction to amplicon sequences
add=200
// The path to amplicon sequecence coordinate in hg18/hg19/hg38
inAmp="/home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point/clock/config/amplicons.tsv"
// where to place the index of amplicons sequences
REF="home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point/clock/ref"

//////////////////////////////////////////////////
// Paramenters for alignment, DNA methylation and pattern calling
// Single or paired End
isSingleEnd="1"
// Remove unconverted CpG
REMOVE_UNCONVERTED="1"
// remove read if the read has at least 3 unconverted C
NUMBER_C="3"
// filter mapped reads
BASE_QUALITY="30"
READ_LENGTH="20"
// remove CpG with least then coverage
COVERAGE="100"
// Temp directory for Picardtools
TMP_DIR="/home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point/clock/working_temp"

then I run in the bash shell like this

python3 /path/to/MethPanel/pipe/run_Bpipe.py /path/to/sample.clock.pre.config /path/to/system.clock.pre.config

and i got output like this

Sample config file is at  /home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point/clock/config/sample.clock.pre.config
System config file is at  /home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point/clock/config/system.clock.pre.config
The BASEDIR is at  /home/point/Applications/MethPanel

=================================================== SAMPLE INFORMATION ====================================================
+++++ Sample is sample1
================================================ END OF SAMPLE INFORMATION =================================================


======================================================= MethPanel Pipeline ===================================================

cd /home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point/clock; grep open /proc/self/limits; ulimit -n 4096; grep open /proc/self/limits; bpipe run -p SYSTEM_CONFIG=/home/point/Documents/work/research/pmayp/Project/fibroblast_clock/point/methpanel/point/clock/config/system.clock.pre.config.post /home/point/Applications/MethPanel/pipe/main.MethPanel.bpipe  raw/*/*_R*.fastq.gz

Max open files            1024                 1048576              files     
Max open files            4096                 4096                 files     
OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release.
====================================================================================================
|                              Starting Pipeline at 2023-05-09 16:23                               |
====================================================================================================
=========================================== Bpipe Error ============================================

An error occurred executing your pipeline:

No signature of method: java.lang.StringBuilder.setLength() is applicable for argument types: (java.lang.Integer) values: [0]


Please see the details below for more information.

========================================== Error Details ===========================================

groovy.lang.MissingMethodException: No signature of method: java.lang.StringBuilder.setLength() is applicable for argument types: (java.lang.Integer) values: [0]
	at bpipe.OutputLog.flush(OutputLog.groovy:101)
	at bpipe.OutputLog$flush$1.callCurrent(Unknown Source)
	at bpipe.OutputLog.flush(OutputLog.groovy:116)
	at bpipe.OutputLog$flush$0.call(Unknown Source)
	at bpipe.Pipeline.printStartMessage(Pipeline.groovy:1019)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at bpipe.Pipeline.initializeRunLogs(Pipeline.groovy:1005)
	at bpipe.Pipeline$initializeRunLogs$0.callCurrent(Unknown Source)
	at bpipe.Pipeline.execute(Pipeline.groovy:733)
	at bpipe.Pipeline.execute(Pipeline.groovy)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at bpipe.Pipeline.run(Pipeline.groovy:569)
	at bpipe.Pipeline$run.callStatic(Unknown Source)
	at bpipe.Pipeline.run(Pipeline.groovy:512)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at main.MethPanel.bpipe.run(main.MethPanel.bpipe:15)
	at main.MethPanel.bpipe$run.call(Unknown Source)
	at bpipe.Runner.main(Runner.groovy:472)
	at bpipe.Runner9.main(Runner9.java:47)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)


====================================================================================================

More details about why this error occurred may be available in the full log file .bpipe/bpipe.log

I try to do research the way to fix this by myself but I found none. I also have no basic in Java and groovy. Any help, please?