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revision 1.16, Mon Dec 5 18:56:37 2005 UTC revision 1.20, Tue Feb 5 03:54:42 2008 UTC
# Line 185  Line 185 
185    
186  use strict;  use strict;
187  use Tracer;  use Tracer;
 use DocUtils;  
188  use Cwd;  use Cwd;
189  use File::Copy;  use File::Copy;
190  use File::Path;  use File::Path;
# Line 197  Line 196 
196  use FudgeTransactions;  use FudgeTransactions;
197    
198  # Get the command-line options.  # Get the command-line options.
199  my ($options, @parameters) = Tracer::ParseCommand({ trace => 3, sql => 0, safe => 0, noAlias => 0,  my ($options, @parameters) = StandardSetup(["FIG"],
200                                                      start => ' ', tblFiles => 0},                      { safe => [0, "use database transactions"],
201                          trace => [2, "trace level"],
202                          noAlias => [0, "do not expect aliases in CHANGE transactions"],
203                          start => [' ', "start with this genome"],
204                          tblFiles => [0, "output TBL files containing the corrected IDs"] },
205                        "command transactionDirectory IDfile",
206                                                    @ARGV);                                                    @ARGV);
207  # Get the command.  # Get the command.
208  my $mainCommand = lc shift @parameters;  my $mainCommand = lc shift @parameters;
 # Set up tracing.  
 my $traceLevel = $options->{trace};  
 my $tracing = "$traceLevel Tracer DocUtils FIG";  
 if ($options->{sql}) {  
     $tracing .= " SQL";  
 }  
 TSetup($tracing, "TEXT");  
209  # Get the FIG object.  # Get the FIG object.
210  my $fig = FIG->new();  my $fig = FIG->new();
211  # Create the transaction object.  # Create the transaction object.

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