fix: resolve 3 bugs in common.py - #109
Open
haoyu-haoyu wants to merge 1 commit into
Open
Conversation
1. get_intersected_regions: result = result (no-op) → result = [] in exception handler, preventing NameError on query failure 2. GENOMIC_BUILD_TO_CODE: remove leading space from GRCh38 LOINC code ' LA26806-2' → 'LA26806-2' 3. is_overlaping() → is_overlapping() function name typo fix
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
Summary
Three bugs fixed in
app/common.py:1.
result = resultno-op in exception handler (line ~1046)get_intersected_regions()assignsresult = resultin the except block, which is a no-op. If the database query fails,resultremains undefined, causingNameErrorat the subsequentif result:check.Fix:
result = []2. Leading space in GRCh38 LOINC code (line ~89)
GENOMIC_BUILD_TO_CODE['GRCh38']contains' LA26806-2'with a leading space. This produces malformed FHIR observations.Fix: Remove leading space →
'LA26806-2'3. Function name typo:
is_overlaping→is_overlapping(line ~136)Missing 'p' in 'overlapping'. Fixed in both the definition and all call sites.