Greetings,
I tried to use the CLEAR pipeline under a python3 environment, and it worked well until the TopHat, where I got:
TopHat2 is not compable to python3. You can change to a python2 environment or change tophat shebang "#!/usr/bin/env python" to "#!/usr/bin/env python2"
Therefore, I created a python2 environment as suggested. This time I couldn't even got to the TopHat step, getting an error as soon as I launched CLEAR:
File "/opt/miniconda3/envs/TopHat/lib/python2.7/site-packages/pybedtools/contrib/long_range_interaction.py", line 357 print("%d (%.1f%%)\r" % (c, c / float(n) * 100), end="")
What can I do to solve the issue. Thanks in advance
nl
Greetings,
I tried to use the CLEAR pipeline under a python3 environment, and it worked well until the TopHat, where I got:
TopHat2 is not compable to python3. You can change to a python2 environment or change tophat shebang "#!/usr/bin/env python" to "#!/usr/bin/env python2"Therefore, I created a python2 environment as suggested. This time I couldn't even got to the TopHat step, getting an error as soon as I launched CLEAR:
File "/opt/miniconda3/envs/TopHat/lib/python2.7/site-packages/pybedtools/contrib/long_range_interaction.py", line 357 print("%d (%.1f%%)\r" % (c, c / float(n) * 100), end="")What can I do to solve the issue. Thanks in advance
nl