Grafpop and graf2.4 implementation

[kliao12]

1. Implemented grafpop which uses more (10x) SNPs than previous version when estimating ancestry

• Created conda package for grafpop in NCI CGR conda channel
• Created src/cgr_gwas_qc/workflow/modules/grafpop.smk in modules directory which contains rules for estimating ancestry and creating table
• Updated src/cgr_gwas_qc/workflow/sub_workflows/{sample_qc,delivery}.smk sub workflows to incorporate grafpop
• Updated src/cgr_gwas_qc/workflow/scripts/subject_qc_table.py to handle hyphen in grafpop ancestry name "Asian-Pacific_Islander"
• Updated src/cgr_gwas_qc/workflow/scripts/qc_report_table.py to handle new grafpop output format

2. Updated graf functions to graf2.4

• Created conda package for graf_v2.4 in NCI CGR conda channel
• Updated sub workflows to use new graf2.4 functions

3. Ran updated grafpop and graf2.4 on n=500 testing data and PLCO_Batch5 and presented consistency to group on 1/25/24. Showed relatedness output from graf2.4 and graf is the same.

4. Updated src/cgr_gwas_qc/reporting/templates/qc_report.md.j2 description about graf to reflect the new grafpop population groupings