Open lecorguille opened 3 years ago
@casteljade reportes that there is a naming issue within the Fasta generated by CDS Search that make issue with CodeML. The dN/dS aren't calculated.
https://github.com/abims-sbr/adaptsearch/blob/dev/scripts/05_CDS_search/S03_remove_site_with_not_enough_species_represented.py#L173-L183
Still under investigation, I'm trying a dummy fasta_name[0:3]
fasta_name[0:3]
# nuc if filtered_bash_nuc != {} and new_leng_nuc >= MIN_LENGTH_FINAL_ALIGNMENT_NUC: good+=1 OUTnuc=open("%s/%s" %(path_OUT2, new_name), "w") for fasta_name in filtered_bash_nuc.keys(): seq_nuc = filtered_bash_nuc[fasta_name] OUTnuc.write("%s\n" %fasta_name[0:3]) OUTnuc.write("%s\n" %seq_nuc)
W&S
@casteljade reportes that there is a naming issue within the Fasta generated by CDS Search that make issue with CodeML. The dN/dS aren't calculated.
https://github.com/abims-sbr/adaptsearch/blob/dev/scripts/05_CDS_search/S03_remove_site_with_not_enough_species_represented.py#L173-L183
Still under investigation, I'm trying a dummy
fasta_name[0:3]
W&S