Remove the remaining low hanging regexes

[Peter-J-Freeman]

These were missed in the previous clean up

[Peter-J-Freeman]

This is the remaining regex list

(vvenv) e05374pc@B-LOSX4LHQF variantValidator % grep -RhoE "re\.(search|match|fullmatch|findall|finditer|sub|subn)\(r?['\"][^'\"]+['\"]" VariantValidator \
    | sort | uniq -c | sort -nr
   4 re.findall(r'\(([GATC]+)\)'
   3 re.findall(r"href=[\"
   2 re.search(r'^\w'
   2 re.search(r'\d:\d'
   2 re.match(r'\d+'
   2 re.findall(r'\d+'
   1 re.sub(r'\(.+?\)'
   1 re.sub(r'[()]'
   1 re.sub(r'::+'
   1 re.sub(r"(del|dup)[A-Z]+"
   1 re.search(r'ins\d+$'
   1 re.search(r'ins\[\(\d+_\d+\)\]$'
   1 re.search(r'ins\(\d+_\d+\)$'
   1 re.search(r'ins\(\d+\)$'
   1 re.search(r'ins\(\d+(?:_\d+)?\)$'
   1 re.search(r'del[GATC]+ins[GATC]+$'
   1 re.search(r'\w+:[gcnmrp]\.'
   1 re.search(r'\w+:[gcnmrp],'
   1 re.search(r'\w+:[gcnmrp]'
   1 re.search(r'\d_\d'
   1 re.search(r'\d+_'
   1 re.search(r'\d+\+'
   1 re.search(r'\d+-'
   1 re.search(r'\d+$'
   1 re.search(r'\[\d+\]'
   1 re.search(r'\*\d+\+'
   1 re.search(r'\*\d+-'
   1 re.search(r'\(LOC\d+\)'
   1 re.search(r'[gcrnpmo]\.'
   1 re.search(r'[gcnmrp]\.'
   1 re.search(r'[gcn]\.\d+\['
   1 re.search(r':[gcrnpmo]\.'
   1 re.search(r':[GCNMR].'
   1 re.search(r'::+[cgpnr]\.'
   1 re.search(r'-\d+-[GATC]+-[GATC]+'
   1 re.search(r'-\d+-[GATC]+-'
   1 re.search(r'(?:delins|del|ins)'
   1 re.search(r"\s+\d+\s+"
   1 re.search(r"\d+_"
   1 re.search(r"[gcrnmo]\."
   1 re.search(r"[GATC]+\[\d+\]$"
   1 re.search(r"(ENST|NM_|NR_)\d+\.\d+"
   1 re.search('inv[GATC]+$'
   1 re.search('del[GATC]+$'
   1 re.search("[^ACTGUMRYKSWHBVDN]"
   1 re.search("[AaCcTtGgUuMmNnRrYyKkSsWwHhBbVvDd]+"
   1 re.search("[A-Z][a-z][a-z]1[A-Z][a-z][a-z]"
   1 re.match(r"^\d+\.\d+\.\d+$"
   1 re.match(r"(?:chr)?\d+[-:]"
   1 re.fullmatch(r'[\w+]+'
   1 re.fullmatch(r'[\d\s.,:;\-+]+'
   1 re.fullmatch(r"LRG_\d+"
   1 re.findall(r'[pcrgn]\.'
   1 re.findall(r':\w+:[crnpg]\.'

And since its ~50, the regex cache should more than handle it, so once compiled it will live in memory, meaning only the first run for any worker will be slowed.

I cant see any others that would easily be handled by string methods

[codecov]

Codecov Report

❌ Patch coverage is 64.28571% with 5 lines in your changes missing coverage. Please review.
✅ Project coverage is 84.84%. Comparing base (cb7e9c5) to head (650b73a).
⚠️ Report is 2 commits behind head on regex_removal.

Files with missing lines	Patch %	Lines
VariantValidator/modules/vvMixinInit.py	0.00%	5 Missing ⚠️

Additional details and impacted files

@@                Coverage Diff                @@
##           regex_removal     #875      +/-   ##
=================================================
- Coverage          84.86%   84.84%   -0.02%     
=================================================
  Files                 48       48              
  Lines              14558    14554       -4     
=================================================
- Hits               12354    12348       -6     
- Misses              2204     2206       +2     

☔ View full report in Codecov by Harness.
📢 Have feedback on the report? Share it here.

🚀 New features to boost your workflow:

• ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.