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sub simulate_nf shadows $t_end, so model Time is always left undef after a network-free simulation

Status: Open.

#317 In RuleWorld/bionetgen;

· wshlavacek opened on May 18, 2026

Sat rate law: incorrect/stale formula comment in RateLaw.pm and missing user documentation

Status: Open.

#316 In RuleWorld/bionetgen;

· wshlavacek opened on May 18, 2026

tfun wrapper-form: run_network silently drops trailing math; loud error on leading-paren wrap

Status: Open.

#314 In RuleWorld/bionetgen;

· wshlavacek opened on May 12, 2026

{MatchOnce} on Molecules-type observables is silently dropped or rejected depending on whitespace

Status: Open.

#312 In RuleWorld/bionetgen;

· wshlavacek opened on Apr 24, 2026

Bug: sprintf with fixed 1000-byte buffer and unbounded prefix string in network.cpp

Status: Open.

#304 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026

Bug: Variable-length arrays (VLAs) in C++ code — non-portable and risk stack overflow for large networks

Status: Open.

#303 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026

Bug: open() call without error check in writeMfile_QueryNames

Status: Open.

#302 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026

More typos

Status: Open.

#301 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026

BNGUtils.pm has # TODO use strict; — foundational module runs without strict checking

Status: Open.

#299 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026

Bug: calloc-allocated memory freed with delete[] (undefined behavior) in network.cpp

Status: Open.

#298 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026

Bug: SBML writers unconditionally append suffix to filename (conditional is commented out)

Status: Open.

#297 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026

Bug: Error message for .rab file open failure references wrong variable ($netfile instead of $rabfile)

Status: Open.

#296 In RuleWorld/bionetgen;

· akutuva21 opened on Mar 27, 2026