You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
Building SSSOM export
Traceback (most recent call last):
File "/opt/hostedtoolcache/Python/3.9.7/x64/bin/biomappings", line 33, in <module>
sys.exit(load_entry_point('biomappings', 'console_scripts', 'biomappings')())
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 1128, in __call__
return self.main(*args, **kwargs)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 1053, in main
rv = self.invoke(ctx)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 1659, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 1395, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 754, in invoke
return __callback(*args, **kwargs)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/decorators.py", line 26, in new_func
return f(get_current_context(), *args, **kwargs)
File "/home/runner/work/biomappings/biomappings/src/biomappings/cli.py", line 46, in update
ctx.invoke(sssom)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 754, in invoke
return __callback(*args, **kwargs)
File "/home/runner/work/biomappings/biomappings/src/biomappings/export_sssom.py", line 96, in sssom
from sssom.parsers import from_sssom_dataframe
ModuleNotFoundError: No module named 'sssom'
The text was updated successfully, but these errors were encountered:
I added sssom as an extra dependency on #70 but now I get
Traceback (most recent call last):
File "/opt/hostedtoolcache/Python/3.9.7/x64/bin/biomappings", line 33, in <module>
sys.exit(load_entry_point('biomappings', 'console_scripts', 'biomappings')())
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 829, in __call__
return self.main(*args, **kwargs)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 782, in main
rv = self.invoke(ctx)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 1259, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 1066, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 610, in invoke
return callback(*args, **kwargs)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/decorators.py", line 21, in new_func
return f(get_current_context(), *args, **kwargs)
File "/home/runner/work/biomappings/biomappings/src/biomappings/cli.py", line 46, in update
ctx.invoke(sssom)
File "/opt/hostedtoolcache/Python/3.9.7/x64/lib/python3.9/site-packages/click/core.py", line 610, in invoke
return callback(*args, **kwargs)
File "/home/runner/work/biomappings/biomappings/src/biomappings/export_sssom.py", line 99, in sssom
msdf = from_sssom_dataframe(df, prefix_map=prefix_map, meta=META)
TypeError: from_sssom_dataframe() got an unexpected keyword argument 'prefix_map'
See e.g., https://github.com/biopragmatics/biomappings/runs/3954820246?check_suite_focus=true
The text was updated successfully, but these errors were encountered: