Package misha version 5.6.6
Package built using 89670/R 4.6.0; x86_64-pc-linux-gnu; 2026-03-24 00:13:23 UTC; unix   
Checked with rchk version 35618ebbccf3cd0b45a3530e6303970a22a9056b LLVM version 14.0.6
More information at https://github.com/kalibera/cran-checks/blob/master/rchk/PROTECT.md
For rchk in docker image see https://github.com/kalibera/rchk/blob/master/doc/DOCKER.md

Function C_grandom_genome
  [UP] unprotected variable chrom_levels while calling allocating function Rf_isFactor misha/src/GenomeUtilsR.cpp:151
  [UP] unprotected variable filter_chrom_levels while calling allocating function Rf_isFactor misha/src/GenomeUtilsR.cpp:185

Function C_gsynth_replace_kmer
  [PB] has possible protection stack imbalance misha/src/GenomeSynthReplace.cpp:295

Function ChainIntervalConverter::convert_rchain_intervs(SEXPREC*, rdb::ChainIntervals&, std::__1::vector<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >, std::__1::allocator<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > > >&)
  [UP] unprotected variable src_chrom_levels while calling allocating function Rf_isInteger misha/src/ChainIntervalConverter.cpp:51
  [UP] unprotected variable src_chrom_levels while calling allocating function Rf_isFactor misha/src/ChainIntervalConverter.cpp:57
  [UP] unprotected variable src_chrom_levels while calling allocating function Rf_isInteger misha/src/ChainIntervalConverter.cpp:84
  [UP] unprotected variable src_chrom_levels while calling allocating function Rf_isInteger misha/src/ChainIntervalConverter.cpp:91

Function GIntervalsMeta2D::init(char const*, SEXPREC*, GenomeChromKey const&)
  [UP] unprotected variable chrom_levels1 while calling allocating function Rf_getAttrib(?,S:levels) misha/src/GIntervalsMeta2D.cpp:39

Function TrackExprScanner::create_expr_iterator(SEXPREC*, TrackExpressionVars const&, std::__1::vector<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >, std::__1::allocator<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > > > const&, GIntervalsFetcher1D*, GIntervalsFetcher2D*, GIntervals&, GIntervals2D&, DiagonalBand const&, bool)
  [UP] unprotected variable class_name while calling allocating function Rf_isInteger misha/src/TrackExpressionScanner.cpp:468
  [UP] unprotected variable class_name while calling allocating function Rf_isInteger misha/src/TrackExpressionScanner.cpp:473

Function gbigintervs_2d_indexed_create
  [PB] has possible protection stack imbalance misha/src/IntervalsIndexedFormat.cpp:874

Function gbigintervs_indexed_create
  [PB] has possible protection stack imbalance misha/src/IntervalsIndexedFormat.cpp:644

Function gbigintervs_indexed_write_chrom
  [PB] has possible protection stack imbalance misha/src/IntervalsIndexedFormat.cpp:704

Function gbigintervs_load_chrom
  [PB] has possible protection stack imbalance misha/src/GenomeIntervalUtils.cpp:959

Function gbigintervs_load_chrom2d
  [UP] unprotected variable chrom1_levels while calling allocating function Rf_getAttrib(?,S:levels) misha/src/GenomeIntervalUtils.cpp:980
  [PB] has possible protection stack imbalance misha/src/GenomeIntervalUtils.cpp:1069

Function gseq_multifasta_import
  [PB] has possible protection stack imbalance misha/src/GenomeSeqMultiImport.cpp:493

Function gtrack_intervals_load
  [UP] unprotected variable chrom_levels1 while calling allocating function Rf_getAttrib(?,S:levels) misha/src/GenomeIntervalUtils.cpp:826

Function rdb::rprotect(SEXPREC*&)
  [PB] has possible protection stack imbalance misha/src/rdbutils.cpp:728

Function rdb::rprotect_ptr(SEXPREC*)
  [PB] has possible protection stack imbalance misha/src/./rdbutils.h:520

Function rdb::runprotect(SEXPREC*&)
  [PB] has negative depth misha/src/rdbutils.cpp:743
  [PB] has possible protection stack imbalance misha/src/rdbutils.cpp:747