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frankvogt / vcf2gwas

Python API for comprehensive GWAS analysis using GEMMA
GNU General Public License v3.0
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NameError: name 'geno_pca_switch' is not defined #7

Closed vinod1981 closed 2 years ago

vinod1981 commented 2 years ago

Hi, I am having this error after updating vcf2gwas. 

Traceback (most recent call last):
  File "/vol/cluster-data/vkumar/miniconda3/envs/myenv/lib/python3.9/site-packages/vcf2gwas/starter.py", line 139, in <module>
    if geno_pca_switch == True:
NameError: name 'geno_pca_switch' is not defined

vcf2gwas is working fine without pca but once the covariates are added it is giving this error. I have checked the name and they are completely fine and matching with each other in all the file.

And also the -sv option is not responding to the value given in the script. Please have a look into it.

Thanks,

Vinod,

frankvogt commented 2 years ago

Hi Vinod, There was a faulty update on my side, sorry for that. The issues should be fixed now!