pyWGCNA.findModules()—— sys.exit("Error!") about pywgcna HOT 2 CLOSED

Thank you so much for your advice! Apparently, I had a new version of pandas and when I installed version 1.4.4, It worked,

The full traceback was this:

SystemExit Traceback (most recent call last)
Cell In[13], line 1
----> 1 pyWGCNA_NBC.findModules()

File ~\AppData\Local\anaconda3\envs\wgcna\lib\site-packages\PyWGCNA\wgcna.py:300, in WGCNA.findModules(self, **kwargs)
297 self.datExpr.var['dynamicColors'] = WGCNA.labels2colors(labels=dynamicMods)
299 # Calculate eigengenes
--> 300 MEList = WGCNA.moduleEigengenes(expr=self.datExpr.to_df(), colors=self.datExpr.var['dynamicColors'])
302 self.MEs = MEList['eigengenes']
303 if 'MEgrey' in self.MEs.columns:

File ~\AppData\Local\anaconda3\envs\wgcna\lib\site-packages\PyWGCNA\wgcna.py:2009, in WGCNA.moduleEigengenes(expr, colors, impute, nPC, align, excludeGrey, grey, subHubs, softPower, scaleVar, trapErrors)
2007 if not check:
2008 if not trapErrors:
-> 2009 sys.exit("Error!")
2010 print(" ..ME calculation of module", modulename, "failed with the following error:", flush=True)
2011 print(" ", pc, " ..the offending module has been removed.", flush=True)

SystemExit: Error!

from pywgcna.

Hi,

Can you tell me the version of other packages that are required for PyWGCNA? I uploaded mine here.

It might be that the new version of numpy is not compatible with the version of numba you have.

if you can also send me the full traceback of your error that would be great as well.

from pywgcna.