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churchill-lab / emase

Expectation-Maximization algorithm for Allele-Specific Expression
http://churchill-lab.github.io/emase/
GNU General Public License v3.0
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Installation issue #13

Closed Lila14 closed 4 years ago

Lila14 commented 4 years ago

I installed GBRS using the instructions here: https://gbrs.readthedocs.io/en/latest/installation.html

Then I ran conda activate gbrs

For testing purposes, I ran gbrs

I got the following error:

 Traceback (most recent call last):
  File "/home/lila.rieber/.conda/envs/gbrs/bin/gbrs", line 4, in <module>
    __import__('pkg_resources').run_script('gbrs==0.1.5', 'gbrs')
  File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/__init__.py", line 3251, in <module>
    @_call_aside
  File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/__init__.py", line 3235, in _call_aside
    f(*args, **kwargs)
  File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/__init__.py", line 3264, in _initialize_master_working_set
    working_set = WorkingSet._build_master()
  File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/__init__.py", line 585, in _build_master
    return cls._build_from_requirements(__requires__)
  File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/__init__.py", line 598, in _build_from_requirements
    dists = ws.resolve(reqs, Environment())
  File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/__init__.py", line 791, in resolve
    raise VersionConflict(dist, req).with_context(dependent_req)
pkg_resources.ContextualVersionConflict: (numpy 1.8.2 (/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages), Requirement.parse('numpy>=1.14'), set(['g2gtools']))
kbchoi-jax commented 4 years ago

Hi,

Are you trying to use gbrs or emase? I recommend trying out my docker image available here.

https://hub.docker.com/r/kbchoi/gbrs

KB

On Mar 21, 2020, at 7:44 PM, Lila Rieber notifications@github.com wrote:



I installed GBRS using the instructions here: https://gbrs.readthedocs.io/en/latest/installation.html

Then I ran conda activate gbrs

For testing purposes, I ran gbrs

I got the following error:

Traceback (most recent call last): File "/home/lila.rieber/.conda/envs/gbrs/bin/gbrs", line 4, in import('pkg_resources').run_script('gbrs==0.1.5', 'gbrs') File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/init.py", line 3251, in @_call_aside File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/init.py", line 3235, in _call_aside f(*args, **kwargs) File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/init.py", line 3264, in _initialize_master_working_set working_set = WorkingSet._build_master() File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/init.py", line 585, in _build_master return cls._build_from_requirements(requires) File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/init.py", line 598, in _build_from_requirements dists = ws.resolve(reqs, Environment()) File "/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages/pkg_resources/init.py", line 791, in resolve raise VersionConflict(dist, req).with_context(dependent_req) pkg_resources.ContextualVersionConflict: (numpy 1.8.2 (/home/lila.rieber/.conda/envs/gbrs/lib/python2.7/site-packages), Requirement.parse('numpy>=1.14'), set(['g2gtools']))

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