Adding options to make HTTPS protocol works

data/resistance/update_database_resistance.sh

@@ -3,8 +3,8 @@
 PATH_DB=$(dirname "$0")
 DATE=$(date "+%Y-%m-%d")
 ## Update Antimicrobial_resistance/AMRFinderPlus
-wget --quiet --recursive --no-host-directories --cut-dirs=6 https://ftp.ncbi.nlm.nih.gov/pathogen/Antimicrobial_resistance/AMRFinderPlus/database/latest/ -P $PATH_DB/$DATE 
 
+wget --quiet --recursive --no-parent --no-host-directories --cut-dirs=6 -e robots=off https://ftp.ncbi.nlm.nih.gov/pathogen/Antimicrobial_resistance/AMRFinderPlus/database/latest/ -P $PATH_DB/$DATE 
 version_DB=$(cat $PATH_DB/$DATE/version.txt)
 echo "Looking up databases at https://ftp.ncbi.nlm.nih.gov/pathogen/Antimicrobial_resistance/AMRFinderPlus/database/"
 echo "Downloading AMRFinder database version $version_DB"
@@ -38,6 +38,4 @@ echo -e "Corynebacterium_diphtheriae\tCorynebacterium_diphtheriae\t0" >> $PATH_D
 PATH_DB="$PATH_DB/$DATE" 
 VERSION="$DATE"
 echo "Database directory: '$PATH_DB'"
-echo "Database version: $DATE.1"
-
-
+echo "Database version: $DATE.1"
\ No newline at end of file

module/updating_database.py

@@ -18,5 +18,4 @@ def update_database(arguments, mlst_database:tuple, tox_database:tuple):
         print("   ... done \n")
         
         os.system('bash ' + arguments.path + '/data/resistance/update_database_resistance.sh')
-        print("   ... done \n\n\n")
-        
\ No newline at end of file
+        print("   ... done \n\n\n")
\ No newline at end of file