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linked issue: #44

@yumisims yumisims requested a review from c-zhou October 23, 2025 13:34
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The segmentation fault was caused by creating links that include excluded fragments which means fragments too small to sort. These excluded fragments have chain_id = -1, which caused the assertion failure.

The fix ensure the following now :
(1) Links are only created between valid fragments
(2) All fragments in links have valid chain_id >= 0

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c-zhou commented Oct 24, 2025

They all look good to me!

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c-zhou commented Oct 24, 2025

My only suggestion is that in PretexView.cpp, we could define global constant strings for "3p_telomere" and "5p_telomere" to improve maintainability. This is however not critical. Chenxi

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They all look good to me!

thank you Chenxi

@yumisims yumisims merged commit bb9ca70 into master Oct 24, 2025
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3 participants