Memory wrap

[kdc10]

Thanks for making this simulator! This is exactly what I was looking for. However, I am getting a memory wrap at line 3121 of the perl script. I've tried updating Perl, but I am still getting this issue. Do you know what could be happening?

Thanks!

kdc10@gho:~/NSF_ont/RHEA_tests/zymo$ perl /home/Users/kdc10/git_repos/Sim-it/Sim-it1.3.6.pl -c config_Sim-it-Bacillus.txt -o ./bacillus
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Sim-it                                                                                                                                                                                                             
Version 1.3.6                                                                                                                                                                                                      
Author: Nicolas Dierckxsens, (c) 2020-2023                                                                                                                                                                         
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---------------------------------CONFIG INPUT-----------------------------------                                                                                                                                   
                                                                                                                                                                                                                   
                                                                                                                                                                                                                   
Input parameters from the configuration file:   *** Verify if everything is correct ***                                                                                                                            
                                                                                                                                                                                                                   
                                                                                                                                                                                                                   
Project:                                                                                                                                                                                                           
-----------------------                                                                                                                                                                                            
Project name             = Bacillus                                                                                                                                                                                
Reference sequence       = /home/Users/kdc10/NSF_ont/RHEA_tests/zymo/references/Bacillus_subtilis_complete_genome.clean.fna                                                                                        
Replace ambiguous nts(N) =                                                                                                                                                                                         
Max threads              = 16                                                                                                                                                                                      
                                                                                                                                                                                                                   
                                                                                                                                                                                                                   
Structural variation:                                                                                                                                                                                              
-----------------------                                                                                                                                                                                            
VCF input                =                                                                                                                                                                                         
Foreign sequences        =                                                                                                                                                                                         
                                                                                                                                                                                                                   
Deletions                = 10                                                                                                                                                                                      
Length (bp)              = 1000-10000                                                                                                                                                                              
                                                                                                                                                                                                                   
Insertions               = 10                                                                                                                                                                                      
Length (bp)              = 1000-10000                                                                                                                                                                              
                                                                                                                                                                                                                   
Tandem duplications      = 10                       
Length (bp)              = 500-2000                 
Copies                   = 1-5                      

Inversions               = 0                        
Length (bp)              = 150-1300000              

Complex substitutions    = 10                       
Length (bp)              = 1000-10000               

Inverted duplications    = 0                        
Length (bp)              = 150-350000               

Heterozygosity           = 0.25                     


Long Read simulation:                               
-----------------------                             
Sequencing depth         = 12                       
Median length            = 25000                    
Length range             = 500-150000               
Accuracy                 = 92                       
Error profile            = /home/Users/kdc10/git_repos/Sim-it/error_profile_ONT.txt                      


--------------------------------------------------------------------------------                         


Scan reference sequence......OK                     


Reference sequence                                  
-------------------                                 
Contigs          : 1                                
Reference Length : 4215689 bp                       



Start SV Simulation...     panic: memory wrap at /home/Users/kdc10/git_repos/Sim-it/Sim-it1.3.6.pl line 3121, <$FILE_REF> line 34316.