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kylessmith / SomVarIUS

Somatic variant identification from unpaired samples
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ImportError:undefined symbol: bgzf_read #7

Open pamonlan opened 4 years ago

pamonlan commented 4 years ago

I've installed the SomVarIUS. But when I ran "SomVarIUS -h", I got the error likes followings. Could you let me know how to fix that?

(base) pamonlan@omen:~$ SomVarIUS -h Traceback (most recent call last): File "/usr/local/bin/SomVarIUS", line 4, in import('pkg_resources').run_script('SomVarIUS==1.2', 'SomVarIUS') File "/usr/lib/python2.7/dist-packages/pkg_resources/init.py", line 658, in run_script self.require(requires)[0].run_script(script_name, ns) File "/usr/lib/python2.7/dist-packages/pkg_resources/init.py", line 1445, in run_script exec(script_code, namespace, namespace) File "/usr/local/lib/python2.7/dist-packages/SomVarIUS-1.2-py2.7-linux-x86_64.egg/EGG-INFO/scripts/SomVarIUS", line 3, in requires = 'SomVarIUS==1.2' File "build/bdist.linux-x86_64/egg/SomVarIUS_calling.py", line 7, in File "build/bdist.linux-x86_64/egg/SomVarIUS_calling.py", line 6, in bootstrap ImportError: /home/pamonlan/.cache/Python-Eggs/SomVarIUS-1.2-py2.7-linux-x86_64.egg-tmp/SomVarIUS_calling.so: undefined symbol: bgzf_read

fmazzarotto commented 4 years ago

Hi, I am also experiencing the same issue. When I run "SomVarIUS -h" I obtain the following:

Traceback (most recent call last): File "/home/francesco_mazzarotto/.local/bin/SomVarIUS", line 4, in import('pkg_resources').run_script('SomVarIUS==1.2', 'SomVarIUS') File "/usr/lib/python2.7/dist-packages/pkg_resources/init.py", line 658, in run_script self.require(requires)[0].run_script(script_name, ns) File "/usr/lib/python2.7/dist-packages/pkg_resources/init.py", line 1445, in run_script exec(script_code, namespace, namespace) File "/home/francesco_mazzarotto/.local/lib/python2.7/site-packages/SomVarIUS-1.2-py2.7-linux-x86_64.egg/EGG-INFO/scripts/SomVarIUS", line 3, in requires = 'SomVarIUS==1.2' File "build/bdist.linux-x86_64/egg/SomVarIUS_calling.py", line 7, in File "build/bdist.linux-x86_64/egg/SomVarIUS_calling.py", line 6, in bootstrap ImportError: /home/francesco_mazzarotto/.cache/Python-Eggs/SomVarIUS-1.2-py2.7-linux-x86_64.egg-tmp/SomVarIUS_calling.so: undefined symbol: bgzf_read

Is there a way around this? I am not an expert in Python itself, so I fear I may need some help here. Thanks very much