Problem with run_and_plot_chromeister.sh

[Zuanira]

Hi,

I am trying to use chrmister for comapring genomes. All these genomes have ~1900 scaffolds. At first for the first pair the run_and_plot_chromeister.sh script worked perfectly well and I got really nice plots at both 1000 and 2000 dims.
Then for the next pair it is giving me the errors. Here is the log:
/apps/chromeister/1.5a/chromeister/bin/run_and_plot_chromeister.sh: line 31: /apps/chromeister/1.5a/chromeister/bin/../chromeisterenv/bin/activate: No such $
Traceback (most recent call last):
File "/apps/chromeister/1.5a/chromeister/bin/detect_events.py", line 15, in
readheader = open(sys.argv[1], "r")
FileNotFoundError: [Errno 2] No such file or directory: 'EW18.fasta-GM1.fasta.mat.raw.txt'
/apps/chromeister/1.5a/chromeister/bin/run_and_plot_chromeister.sh: line 33: deactivate: command not found
Mon Jun 27 03:38:52 EDT 2022

Command in the slurm script is:
module load chromeister/1.5a
module load R/4.2

run_and_plot_chromeister.sh EW18.fasta GM1.fasta 32 1000 4 grid

date