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IndexError: list index out of range

Open sim3023 opened this issue 11 months ago • 2 comments

Could someone please help with the error? snakemake --snakefile /home/snp/odp/scripts/odp -c1 Building DAG of jobs... InputFunctionException in rule hmm_1_against_prots in file /home/snp/odp/scripts/odp, line 2133: Error: IndexError: list index out of range Wildcards: coloredby=BCnS_LGs sample=mab Traceback: File "/home/snp/odp/scripts/odp", line 2161, in

snakemake --version is 7.32.4

config_file ignore_autobreaks: True # Skip steps to find breaks in synteny blocks diamond_or_blastp: "blastp" # "diamond" or "blastp" duplicate_proteins: "pass" # currently only "fail" or "pass". plot_LGs: True # Plot the ALGs based on the installed databases plot_sp_sp: True # Plot the synteny between two species, if False just generates .rbh files

species: mabref: proteins: /home/snp/odp/scripts/ref.faa chrom: /home/snp/odp/scripts/ref.chrom genome: /home/snp/odp/scripts/ref.fna minscafsize: 10 # Only plots scaffolds that are 10 bp or longer mab: proteins: /home/snp/odp/scripts/1046.faa chrom: /home/snp/odp/scripts/1046.chrom genome: /home/snp/odp/scripts/1046.fna minscafsize: 10 # Only plots scaffolds that are 10 bp or larger

Also, I am providing bacterial genomes as input. Can that be the reason for this error?

sim3023 avatar Mar 05 '24 09:03 sim3023