ofrei
commented
5 years ago Could you please check if ./MyResults/UM1_MiXeR_Uni/ADD.fit.log file exists?
Closed JulongWei closed 4 years ago
ofrei
commented
5 years ago Could you please check if ./MyResults/UM1_MiXeR_Uni/ADD.fit.log file exists?
Hi Alex,
Before I have successfully run one Chromosome. But when I ram 22 chromosomes it reported the error. The following is log file. Could you help me figure it out? I also try to solve this problem myself. Thank you very much!
Best, Julong
INFO:root:init(lib_name=/net/mulan/home/julongw/mixer/src/build/lib/libbgmg.so, context_id=0) INFO:root:init_log(./MyResults/UM1_MiXeR_Uni/ADD.fit.log) INFO:root:log_message(***
Call: ./mixer.py fit \ --lib /net/mulan/home/julongw/mixer/src/build/lib/libbgmg.so \ --extract /net/mulan/home/julongw/Project1_human_imap/MyData/UM1/zzz_snplist \ --threads 20 \ --bim-file /net/mulan/home/julongw/Project1_human_imap/MyData/UM1/zzz_chr.@.bim \ --ci-alpha 0.05 \ --trait1-file /net/mulan/home/julongw/Project1_human_imap/MyData/UM1_summ/ADD.summ.gz \ --frq-file /net/mulan/home/julongw/Project1_human_imap/MyData/UM1/zzz_chr.@.frq \ --out ./MyResults/UM1_MiXeR_Uni/ADD.fit \ --plink-ld-bin0 /net/mulan/home/julongw/Project1_human_imap/MyData/UM1/zzz_chr.@.p05_SNPwin50k.ld.bin ) INFO:root:init(lib_name=/net/mulan/home/julongw/mixer/src/build/lib/libbgmg.so, context_id=0) Traceback (most recent call last): File "/net/mulan/home/julongw/mixer/precimed/mixer.py", line 23, in
args.func(args)
File "/net/mulan/home/julongw/mixer/precimed/mixer/cli.py", line 605, in execute_fit_parser
libbgmg.set_weights_randprune(args.randprune_n, args.randprune_r2)
File "/net/mulan/home/julongw/mixer/precimed/mixer/libbgmg.py", line 122, in set_weights_randprune
return self._check_error(self.cdll.bgmg_set_weights_randprune(self._context_id, n, r2))
File "/net/mulan/home/julongw/mixer/precimed/mixer/libbgmg.py", line 383, in _check_error
raise RuntimeError(self.get_last_error())
RuntimeError: runtime_error: can't call set_weights_randprune before set_ld_r2_csr