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
-----------------------------------------------
Sim-it
Version 1.3.6
Author: Nicolas Dierckxsens, (c) 2020-2023
-----------------------------------------------
---------------------------------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.
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!