Issue with installation

[smanne07]

Hi , I am using python 3.6.3 and installed snaptools and i am getting the following error

Traceback (most recent call last): File "/home/sasim/my_python-3.6.3/bin/snaptools", line 7, in <module> exec(compile(f.read(), __file__, 'exec')) File "/home/sasim/tools/snaptools/bin/snaptools", line 36, in <module> from snaptools.parser import parse_args File "/home/sasim/tools/snaptools/snaptools/parser.py", line 31, in <module> from snaptools.utilities import str2bool File "/home/sasim/tools/snaptools/snaptools/utilities.py", line 7, in <module> import pybedtools File "/home/sasim/my_python-3.6.3/lib/python3.6/site-packages/pybedtools/__init__.py", line 17, in <module> from .bedtool import BedTool File "/home/sasim/my_python-3.6.3/lib/python3.6/site-packages/pybedtools/bedtool.py", line 388, in <module> class BedTool(object): File "/home/sasim/my_python-3.6.3/lib/python3.6/site-packages/pybedtools/bedtool.py", line 1637, in BedTool @_wraps(prog='bed12ToBed6', implicit='i', bam=None, other=None) File "/home/sasim/my_python-3.6.3/lib/python3.6/site-packages/pybedtools/bedtool.py", line 167, in _wraps p = subprocess.Popen(helpers._version_2_15_plus_names(prog) + ['-h'], File "/home/sasim/my_python-3.6.3/lib/python3.6/site-packages/pybedtools/helpers.py", line 287, in _version_2_15_plus_names _check_for_bedtools() File "/home/sasim/my_python-3.6.3/lib/python3.6/site-packages/pybedtools/helpers.py", line 87, in _check_for_bedtools vv = v.decode().split('v')[1] IndexError: list index out of range

Can you help me in troubleshooting what may be causing this error?

Thank you Sasi

[r3fang]

hi Sasi,

This is an error caused by failure of installing pybedtools. Can you try to pre-install pybedtools? and let me know if this is not working

Best, -R

[smanne07]

Sure i will reinstall pybedtools and see how it goes.

Thank you

[smanne07]

Following this solution here https://github.com/r3fang/SnapATAC/issues/2 worked!

Thanks again!