From ff9a419c4e31301123ddfe35208e0203f249b609 Mon Sep 17 00:00:00 2001 From: Auden Cote-L'Heureux <52716489+AudenCote@users.noreply.github.com> Date: Tue, 16 Jan 2024 14:32:50 -0500 Subject: [PATCH] Updating annotations 2b_Identify_Proks.py --- .../Scripts/2b_Identify_Proks.py | 29 +------------------ 1 file changed, 1 insertion(+), 28 deletions(-) diff --git a/PTL1/Transcriptomes/Scripts/2b_Identify_Proks.py b/PTL1/Transcriptomes/Scripts/2b_Identify_Proks.py index afdad24..bc27048 100644 --- a/PTL1/Transcriptomes/Scripts/2b_Identify_Proks.py +++ b/PTL1/Transcriptomes/Scripts/2b_Identify_Proks.py @@ -328,31 +328,6 @@ def compare_hits(args): return str(len(Euk_Fasta)), str(len(Prok_Fasta)), str(len(Und_Fasta)) - -########################################################################################### -###----------------------- Updates Log of Prok vs Euk Comparisons ----------------------### -########################################################################################### - -def update_log(args, Euk_Contigs, Prok_Contigs, Und_Contigs): - - if os.path.isdir('../PostAssembly_Logs/') != True: - os.system('mkdir ../PostAssembly_Logs/') - else: - pass - - print (color.BOLD +'\n\nThere are '+color.RED+Prok_Contigs+' Strongly Prokaryotic contigs'+color.END\ - +color.BOLD+',\n'+color.ORANGE+Euk_Contigs+' Strongly Eukaryotic contigs'+color.END\ - +color.BOLD+',\nand '+color.PURPLE+Und_Contigs+' Undetermined Contigs\n'+color.END\ - +color.BOLD+'in '+args.input_file.split('/')[-1]+color.END) - - for Logname in os.listdir(os.curdir+'./PostAssembly_Logs/'): - if Logname.startswith(args.input_file.split('/')[-1].split('_No')[0]) and Logname.endswith('Log.txt'): # ACL - ??? - with open('../PostAssembly_Logs/'+Logname,'a') as Logfilename: - Logfilename.write('Prokaryotic Contigs\t'+Prok_Contigs+'\tn/a\tn/a\n') - Logfilename.write('Eukaryotic Contigs\t'+Euk_Contigs+'\tn/a\tn/a\n') - Logfilename.write('Undetermined Contigs\t'+Und_Contigs+'\tn/a\tn/a\n') - - ########################################################################################### ###-------------------------------- Next Script Message --------------------------------### ########################################################################################### @@ -392,9 +367,7 @@ def main(): ublast_BvE(args, usearch_path) Euk_Contigs, Prok_Contigs, Und_Contigs = compare_hits(args) - - #update_log(args, Euk_Contigs, Prok_Contigs, Und_Contigs) - + clean_up(args) next_script(args)