wget -q https://public.gi.ucsc.edu/~hickey/debug/gfaffix2-crash/chr11.vg.gfa.gz
gzip -d chr11.vg.gfa.gz
RUST_BACKTRACE=1 GFAffix-0.2.0_linux_x86_64/gfaffix  chr11.vg.gfa --output_refined chr11.vg.old-gfaffixed.gfa --check_transformation --dont_collapse 'CHM13#[.]*'
[2025-01-20T15:52:24Z INFO  gfaffix] running gfaffix on 1 threads
[2025-01-20T15:52:24Z INFO  gfaffix] loading graph from chr11.vg.gfa
[2025-01-20T15:52:58Z INFO  gfaffix] constructing handle graph
[2025-01-20T15:53:04Z INFO  gfaffix] handlegraph has 3539979 nodes and 4885244 edges
[2025-01-20T15:53:04Z INFO  gfaffix] storing length of original nodes for bookkeeping
[2025-01-20T15:53:07Z INFO  gfaffix] flagging nodes of path CHM13#0#chr11:0-135127769$gfaffix as non-collapsing, total number is now at 2238554
[2025-01-20T15:53:07Z INFO  gfaffix] identifying walk-preserving shared affixes
[2025-01-20T15:53:33Z INFO  gfaffix] found and collapsed 9887 shared prefixes, 1287 of which are overlapping, and 4862 of which are bubbles
[2025-01-20T15:53:33Z INFO  gfaffix] de-collapse no-collapse handles and update transformation table
thread 'main' panicked at src/collapse_event_tracker.rs:330:9:
get_collapsed_nodes produced either too many decollapses or to few: 
>97790:1 = 2
stack backtrace:
   0: rust_begin_unwind
             at /rustc/90b35a6239c3d8bdabc530a6a0816f7ff89a0aaf/library/std/src/panicking.rs:665:5
   1: core::panicking::panic_fmt
             at /rustc/90b35a6239c3d8bdabc530a6a0816f7ff89a0aaf/library/core/src/panicking.rs:74:14
   2: gfaffix::collapse_event_tracker::CollapseEventTracker::get_collapsed_nodes
             at /Users/ddoerr/Documents/CoDia/projects/gfaffix/src/collapse_event_tracker.rs:330:9
   3: gfaffix::collapse_event_tracker::CollapseEventTracker::decollapse
             at /Users/ddoerr/Documents/CoDia/projects/gfaffix/src/collapse_event_tracker.rs:353:25
   4: gfaffix::main
             at /Users/ddoerr/Documents/CoDia/projects/gfaffix/src/main.rs:1245:9
   5: core::ops::function::FnOnce::call_once
             at /rustc/90b35a6239c3d8bdabc530a6a0816f7ff89a0aaf/library/core/src/ops/function.rs:250:5