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feat: restrict mapping to S288C and SK1 strains to speed up test
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ekg committed Nov 5, 2024
1 parent 34ce1c3 commit 94b1c7c
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2 changes: 1 addition & 1 deletion .github/workflows/test_on_push.yml
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Expand Up @@ -49,7 +49,7 @@ jobs:
- name: Test input mapping functionality
run: |
# First generate mappings
ASAN_OPTIONS=detect_leaks=1:symbolize=1 LSAN_OPTIONS=verbosity=0:log_threads=1 build/bin/wfmash data/scerevisiae8.fa.gz -p 95 -n 7 -m -L -Y '#' > mappings.paf
ASAN_OPTIONS=detect_leaks=1:symbolize=1 LSAN_OPTIONS=verbosity=0:log_threads=1 build/bin/wfmash data/scerevisiae8.fa.gz -p 95 -n 7 -m -L -Y '#' -T S288C -Q SK1 > mappings.paf
# Then align using the mappings
ASAN_OPTIONS=detect_leaks=1:symbolize=1 LSAN_OPTIONS=verbosity=0:log_threads=1 build/bin/wfmash data/scerevisiae8.fa.gz -i mappings.paf > aligned.paf
# Verify output has alignments (CIGAR strings)
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