Hi,
Thanks for this great tool on pleiotropic selection. I ran J-PALM with
python ~/palm/palm.py --traitDir palmdir/ --metadata ~/ldsc/all_gwas/CDmeta --maxp 1 --B 1000 --traits ID602,ID21,ID58,ID285,JIA,ID630
and got the following error
Loading likelihoods...
/lustre/home/acct-bmelgn/bmelgn-3/palm/palm.py:104: RuntimeWarning: divide by zero encountered in true_divide ] 0%
if np.logical_not(np.any(stats.chi2.sf((np.array(loc_betas)/np.array(loc_ses))**2,df=1) < args.maxp)):
[=======================================================================================================================================================] 100%
Analyzing 324 loci...
Traceback (most recent call last):
File "/lustre/home/acct-bmelgn/bmelgn-3/palm/palm.py", line 279, in
_main(args)
File "/lustre/home/acct-bmelgn/bmelgn-3/palm/palm.py", line 256, in _main
omega,ses,margOmega,Mses,D,Dses = _T_inference(statistics,args)
File "/lustre/home/acct-bmelgn/bmelgn-3/palm/palm.py", line 239, in _T_inference
mstats = mcoeffs,mbetas,mses,mx0,mmults,mpvals,mtraitNames
NameError: name 'mses' is not defined
Could you have a look at this issue? Thanks for your help.
Hi,
Thanks for this great tool on pleiotropic selection. I ran J-PALM with
python ~/palm/palm.py --traitDir palmdir/ --metadata ~/ldsc/all_gwas/CDmeta --maxp 1 --B 1000 --traits ID602,ID21,ID58,ID285,JIA,ID630and got the following error
Could you have a look at this issue? Thanks for your help.