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deeptools / HiCExplorer

HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
https://hicexplorer.readthedocs.org
GNU General Public License v3.0
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hicDetectLoops attribute error #503

Closed rachadele closed 4 years ago

rachadele commented 4 years ago

When I try to run hicDetectLoops on a cooler I get the following error, which repeats until I cancel the command:

Process Process-1: Traceback (most recent call last): File "/usr/lib/python3.6/multiprocessing/process.py", line 258, in _bootstrap self.run() File "/usr/lib/python3.6/multiprocessing/process.py", line 93, in run self._target(*self._args, **self._kwargs) File "/usr/local/lib/python3.6/dist-packages/hicexplorer/hicDetectLoops.py", line 653, in compute_loops max_loop_distance) File "/usr/local/lib/python3.6/dist-packages/hicexplorer/hicDetectLoops.py", line 164, in compute_long_range_contacts nbinom_parameters = fit_nbinom.fit( AttributeError: module 'fit_nbinom' has no attribute 'fit'

looks like there's something missing in the code for the binomial fitting module. any idea how to fix this?

joachimwolff commented 4 years ago

Hi,

that sounds really strange. How have you installed HiCExplorer and which version do you use? This sound for me a dependency is missing, please explain in detail what you have done and if you use conda environments.

Best,

Joachim