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precimed / mixer

Causal Mixture Model for GWAS summary statistics
GNU General Public License v3.0
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fitting without constraining to LDSR/w_hm3.justrs #13

Closed gnarw closed 5 years ago

gnarw commented 5 years ago

I am using the mixer.py fit commands as in the readme file but using my own summary statistics. Fitting the model and constraining on the w_hm3.justrs seems to run fine. When fitting the model without constraining on the w_hm3 and loading the parameters from the previous fit there is an error. Also the ...test.json files are not being made.

Here are mixer.py commands and output:

mixer_fit_univariate_test.txt

Any ideas what is causing this error.

ofrei commented 5 years ago

@gnarw This should be fixed now, could you please pull an update and re-run? Sorry for the hassle - it's on my list to implement better unit tests and travis continuous integration (i.e. running tests automatically for each commit to mixer repository), but I haven't got time for this yet

gnarw commented 5 years ago

@ofrei Thanks for this. I pulled the update and ran the commands again. Unfortunately I now got a new error message.

error.txt

ofrei commented 5 years ago

@gnarw this log contains warnings (true, I have to fix those), but no errors - did you check if output files are successfully created?

gnarw commented 5 years ago

@ofrei Sorry, I was a bit hasty. I can see now that these are only warnings. Yes, the output files (...fit.json and ...test.json) are are being created.