[BUG] qanti3_filter.py :: invalid Rscript detection

[EricDeveaud]

Is there an existing issue for this?

• I have searched the existing issues

Have you loaded the SQANTI3.env conda environment?

• I have loaded the SQANTI3.env conda environment

Problem description

while testing SQANTI3 (commit aaeb907)

installation was done manualy, no conda I noticed that sqanti3_filter.py have an incorect Rscript check.
see:

build :SQANTI3/SQANTI3-5.2.2 > sqanti3_filter.py --help
/opt/gensoft/exe/SQANTI3/5.2.2/bin/sqanti3_filter.py:33: DeprecationWarning: Use shutil.which instead of find_executable
  RSCRIPTPATH = distutils.spawn.find_executable('Rscript')
Traceback (most recent call last):
  File "/opt/gensoft/exe/SQANTI3/5.2.2/bin/sqanti3_filter.py", line 39, in <module>
    if os.system(RSCRIPTPATH + " --version")!=0:
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'

this is due to RSCRIPTPATH = distutils.spawn.find_executable('Rscript') returning None used in os.sytem

It seems more logical to have something like that

RSCRIPTPATH = distutils.spawn.find_executable('Rscript')
if RSCRIPTPATH is None:
    print("Rscript executable not found! Abort!", file=sys.stderr)
    sys.exit(-1)

regards

Eric

Code sample

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Error

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Anything else?

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