Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe /Draw.Comparative /in <meta.Xml> /PTT <PTT_DIR> [/out <outDIR>]
  Example:      GCModeller /Draw.Comparative 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe /Export.Basys /in <in.DIR> [/out <out.DIR>]
  Example:      GCModeller /Export.Basys 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe /init.manuals
  Example:      GCModeller /init.manuals 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe /Install.genbank /imports <all_genbanks.DIR> [/refresh]
  Example:      GCModeller /Install.genbank 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe 
  Example:      GCModeller /Located.AppData 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe /Visual.BBH /in <bbh.Xml> /PTT <genome.PTT> /density <genomes.density.DIR> [/limits <sp-list.txt> /out <image.png>]
  Example:      GCModeller /Visual.BBH 

    /PTT
    Description:  A directory which contains all of the information data files for the reference genome, 
                   this directory would includes *.gb, *.ptt, *.gff, *.fna, *.faa, etc.

    Example:      /PTT ""

  Information:  Drawing the chromosomes map from the PTT object as the basically genome information source.
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --Drawing.ChromosomeMap /ptt <genome.ptt> [/conf <config.inf> /out <dir.export> /COG <cog.csv>]
  Example:      GCModeller --Drawing.ChromosomeMap 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --Drawing.ClustalW /in <align.fasta> [/out <out.png> /dot.Size 10]
  Example:      GCModeller --Drawing.ClustalW 

  Information:  Export the calculation data from a specific data table in the mysql database server.
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe export -mysql <mysql_connection_string> [-o <output_save_file/dir> -t <table_name>]
  Example:      GCModeller export export -t all -o ~/Desktop/ -mysql "http://localhost:8080/client?user=username%password=password%database=database"

    -mysql
    Description:  The mysql connection string for gc program connect to a specific mysql database server.

    Example:      -mysql "http://localhost:8080/client?user=username%password=password%database=database"

   [-t]
    Description:  Optional, The target table name for export the data set, there is a option value for this switch: all.
 <name> - export the data in the specific name of the table;
 all - Default, export all of the table in the database, and at the mean time the -o switch value will be stand for the output directory of the exported csv files.

    Example:      -t "all"

   [-o]
    Description:  Optional, The path of the export csv file save, it can be a directory or a file path, depend on the value of the -t switch value.
Default is desktop directory and table name combination

    Example:      -o "~/Desktop/"

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --Gendist.From.Self.Overviews /blast_out <blast_out.txt>
  Example:      GCModeller --Gendist.From.Self.Overviews 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --Gendist.From.SelfMPAlignment /aln <mpalignment.csv>
  Example:      GCModeller --Gendist.From.SelfMPAlignment 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --Get.Subset.lstID /subset <lstID.txt> /lstID <lstID.csv>
  Example:      GCModeller --Get.Subset.lstID 

  Information:  Show help information about this program.
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe gc help
  Example:      GCModeller help gc help

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe -imports <genbank_file/genbank_directory>
  Example:      GCModeller -imports 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --install.MYSQL /user <userName> /pass <password> /repository <host_ipAddress> [/port 3306 /database <GCModeller>]
  Example:      GCModeller --install.MYSQL 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --install-CDD /cdd <cdd.DIR>
  Example:      GCModeller --install-CDD 

  Information:  Install the COGs database into the GCModeller database.
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --install-COGs /COGs <Dir.COGs>
  Example:      GCModeller --install-COGs 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe --Interpro.Build /xml <interpro.xml>
  Example:      GCModeller --Interpro.Build 

  Information:  Listing all of the available GCModeller CLI tools commands.
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe 
  Example:      GCModeller --ls 

  Information:  
  Usage:        G:\GCModeller\manual\bin\GCModeller.exe 
  Example:      GCModeller --user.create