Refactored function names in R/cleanup.R

[teddyCodex]

Description

Refactored specified function names in R/cleanup.R based on issue #7

Original	Modified	User Facing
clean_string	cleanString	✅
string2accnum	extractAccNum	✅
make_accnums_unique	ensureUniqAccNum	✅
cleanup_fasta_header	cleanFAHeaders	✅
remove_empty	removeEmptyRows	✅
repeat2s	condenseRepeatedDomains	✅
replaceQMs	replaceQuestionMarks	✅
remove_astrk	removeAsterisks	✅
remove_tails	removeTails	✅
cleanup_species	cleanSpecies	✅
cleanup_clust	cleanClusters	✅
cleanup_domarch	cleanDomainArchitecture	✅
cleanup_gencontext	cleanGenomicContext	✅
cleanup_GeneDesc	cleanGeneDescription	✅
pick_longer_duplicate	selectLongestDuplicate	✅
cleanup_lineage	cleanLineage	✅

Fixes issue #38

What kind of change(s) are included?

• [ ] Feature (adds or updates new capabilities)
• [x] Bug fix (fixes an issue).
• [ ] Enhancement (adds functionality).
• [ ] Breaking change (these changes would cause existing functionality to not work as expected).

Checklist

Please ensure that all boxes are checked before indicating that this pull request is ready for review.

• [x] I have read and followed the CONTRIBUTING.md guidelines.
• [x] I have searched for existing content to ensure this is not a duplicate.
• [x] I have performed a self-review of these additions (including spelling, grammar, and related).
• [x] I have added comments to my code to help provide understanding.
• [x] I have added a test which covers the code changes found within this PR.
• [x] I have deleted all non-relevant text in this pull request template.
• [x] Reviewer assignment: Tag a relevant team member to review and approve the changes.

[teddyCodex]

@jananiravi @the-mayer File containing other occurrences of the functions.

function_occurrences #38.txt

[the-mayer]

Resolved NAMESPACE conflict, updated cleanString() refs. Merging!