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revision 1.1, Fri Nov 3 18:02:32 2006 UTC revision 1.2, Wed Nov 8 23:14:00 2006 UTC
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111  As a side-effect, this routine creates three files in the skeleton OrgDir:  As a side-effect, this routine creates three files in the skeleton OrgDir:
112    
113    =over 4
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115  =item * C<quality.report>, which is a tab-seperated three-column file  =item * C<quality.report>, which is a tab-seperated three-column file
116  output by the command-line tool C<assess_gene_call_quality>,  output by the command-line tool C<assess_gene_call_quality>,
117  with entry format C<< KEY_TYPE\tKEY_NAME\tVALUE\n >>. The report is  with entry format C<< KEY_TYPE\tKEY_NAME\tVALUE\n >>. The report is
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129  =item * C<overlap.summary>, which is a short human-readbale summary  =item * C<overlap.summary>, which is a short human-readbale summary
130  of the number of problematic features found by C<make_overlap_report>.  of the number of problematic features found by C<make_overlap_report>.
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132    =back
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134  B<TODO:> C<assess_gene_call_quality> does not yet catch all the errors  B<TODO:> C<assess_gene_call_quality> does not yet catch all the errors
135  that will be flagged as "FATAL" by the command-line tool C<verify_genome_directory>.  that will be flagged as "FATAL" by the command-line tool C<verify_genome_directory>.
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