RuntimeError: exception: vector::_M_range_check: __n Error

[dxy257]

RuntimeError: exception: vector::_M_range_check: __n (which is 18446744072511363440) >= this->size() (which is 779354)

[dxy257]

Hi there, I have fixed the issue after modifying my GWAS summary stats file. I also had a file path error that I fixed on top of that. You may find this post helpful: #82 Best, Diya

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On Sun, Jun 23, 2024 at 1:08 PM jiexiong22 ***@***.***> wrote: I had the same problem. Did you solve it？ — Reply to this email directly, view it on GitHub <#95 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AWXEWY2DBOREXHA2NEPWSWTZI36IXAVCNFSM6AAAAABIS6KUHWVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDCOBVGE2TSNJSGA> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[XuanxiaoLi]

Hi dxy257,

I am encountering a similar problem with my use of fit1 in mixer.py:

• Software Version: 1.2.0
• Call Command:

  ./mixer.py fit1 \
      --out /hdd/yinquanting/T2d_heart/hypertension.fit.rep1 \
      --lib /hdd/yinquanting/mixer/src/build/lib/libbgmg.so \
      --bim-file /hdd/yinquanting/mixer/1000G_EUR_Phase3_plink/1000G.EUR.QC.1.bim \
      --ld-file /hdd/yinquanting/mixer/1000G_EUR_Phase3_plink/1000G.EUR.QC.1.run4.ld \
      --trait1-file /hdd/yinquanting/T2d_heart/hypertension.txt.gz \
      --extract /hdd/yinquanting/mixer/1000G_EUR_Phase3_plink/1000G.EUR.QC.prune_maf0p05_rand2M_r2p8.rep1.snps

• Error Message:

  INFO:root:__init__(lib_name=/hdd/yinquanting/mixer/src/build/lib/libbgmg.so, context_id=0)
  Traceback (most recent call last):
    File "/hdd/yinquanting/mixer/precimed/mixer.py", line 23, in <module>
      args.func(args)
    File "/hdd/yinquanting/mixer/precimed/mixer/cli.py", line 646, in execute_fit1_or_test1_parser
      libbgmg = initialize_mixer_plugin(args)
                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    File "/hdd/yinquanting/mixer/precimed/mixer/cli.py", line 562, in initialize_mixer_plugin
      libbgmg.set_ld_r2_coo_from_file(chr_label, args.ld_file.replace('@', str(chr_label)))
    File "/hdd/yinquanting/mixer/precimed/mixer/libbgmg.py", line 126, in set_ld_r2_coo_from_file
      return self._check_error(self.cdll.bgmg_set_ld_r2_coo_from_file(self._context_id, chr_label, _p2n(filename)))
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    File "/hdd/yinquanting/mixer/precimed/mixer/libbgmg.py", line 418, in _check_error
      raise RuntimeError(self.get_last_error())
  RuntimeError: exception:  vector::_M_range_check: __n (which is 540606976) >= this->size() (which is 779354)
  

I have followed the suggestion in issue #82 and removed NA and 0 SNPs from my GWAS data, but I am still encountering this error. Could you please help me troubleshoot this issue? Is there any additional step or check I should perform to resolve this?

Thank you!