[Friday November 25 22:45:07 2011] [Notice] Using the settings file ./sample_projects/test_tblastn/project_settings.conf.
[Friday November 25 22:45:07 2011] [Notice] Extracting ORF translations from reference genome sequence in ./sample_projects/test_tblastn/reference_genome for BLAST searches.
[Friday November 25 22:45:08 2011] [Notice] Reference genome ORF translations have been written to ./sample_projects/test_tblastn/reference_genome/orfs.
[Friday November 25 22:45:08 2011] [Notice] Splitting the comparison genome sequences in ./sample_projects/test_tblastn/comparison_genomes for BLAST searches.
[Friday November 25 22:45:09 2011] [Notice] Comparison genome sequences have been split and written to ./sample_projects/test_tblastn/comparison_genomes/split.
[Friday November 25 22:45:09 2011] [Notice] Creating BLAST databases using the files in ./sample_projects/test_tblastn/comparison_genomes/split.
[Friday November 25 22:45:09 2011] [Notice] The BLAST databases have been created in ./sample_projects/test_tblastn/blast/blast_db.
[Friday November 25 22:45:09 2011] [Notice] Performing BLAST comparisons between sequences in ./sample_projects/test_tblastn/reference_genome/orfs and databases in ./sample_projects/test_tblastn/blast/blast_db.
[Friday November 25 22:45:24 2011] [Notice] The BLAST results have been written to ./sample_projects/test_tblastn/blast/blast_results_local.
[Friday November 25 22:45:24 2011] [Notice] Assigning COG categories to CDS translations from reference genome sequence in ./sample_projects/test_tblastn/reference_genome.
[Friday November 25 22:45:24 2011] [Notice] COG categories have been written to ./sample_projects/test_tblastn/features.
[Friday November 25 22:45:24 2011] [Notice] Creating CGView XML files.
[Friday November 25 22:45:24 2011] [Notice] The following BLAST results will be drawn, from outside to center:
[Friday November 25 22:45:24 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_end_of_orf.fasta_split_DNA_tblastn
[Friday November 25 22:45:24 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_end_of_orf_rev_comp.fasta_split_DNA_tblastn
[Friday November 25 22:45:24 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_start_of_orf.fasta_split_DNA_tblastn
[Friday November 25 22:45:24 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_start_of_orf_rev_comp.fasta_split_DNA_tblastn
[Friday November 25 22:45:26 2011] [Notice] CGView XML files have been created in ./sample_projects/test_tblastn/maps/cgview_xml.
[Friday November 25 22:45:26 2011] [Notice] Creating CGView maps.
[Friday November 25 22:45:33 2011] [Notice] CGView maps have been created in ./sample_projects/test_tblastn/maps.
[Friday November 25 22:51:11 2011] [Notice] Using the settings file ./sample_projects/test_tblastn/project_settings.conf.
[Friday November 25 22:51:11 2011] [Notice] Extracting ORF translations from reference genome sequence in ./sample_projects/test_tblastn/reference_genome for BLAST searches.
[Friday November 25 22:51:11 2011] [Notice] Reference genome ORF translations have been written to ./sample_projects/test_tblastn/reference_genome/orfs.
[Friday November 25 22:51:11 2011] [Notice] Splitting the comparison genome sequences in ./sample_projects/test_tblastn/comparison_genomes for BLAST searches.
[Friday November 25 22:51:12 2011] [Notice] Comparison genome sequences have been split and written to ./sample_projects/test_tblastn/comparison_genomes/split.
[Friday November 25 22:51:12 2011] [Notice] Creating BLAST databases using the files in ./sample_projects/test_tblastn/comparison_genomes/split.
[Friday November 25 22:51:12 2011] [Notice] The BLAST databases have been created in ./sample_projects/test_tblastn/blast/blast_db.
[Friday November 25 22:51:12 2011] [Notice] Performing BLAST comparisons between sequences in ./sample_projects/test_tblastn/reference_genome/orfs and databases in ./sample_projects/test_tblastn/blast/blast_db.
[Friday November 25 22:51:28 2011] [Notice] The BLAST results have been written to ./sample_projects/test_tblastn/blast/blast_results_local.
[Friday November 25 22:51:28 2011] [Notice] Assigning COG categories to CDS translations from reference genome sequence in ./sample_projects/test_tblastn/reference_genome.
[Friday November 25 22:51:28 2011] [Notice] COG categories have been written to ./sample_projects/test_tblastn/features.
[Friday November 25 22:51:28 2011] [Notice] Creating CGView XML files.
[Friday November 25 22:51:28 2011] [Notice] The following BLAST results will be drawn, from outside to center:
[Friday November 25 22:51:28 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_end_of_orf.fasta_split_DNA_tblastn
[Friday November 25 22:51:28 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_end_of_orf_rev_comp.fasta_split_DNA_tblastn
[Friday November 25 22:51:28 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_start_of_orf.fasta_split_DNA_tblastn
[Friday November 25 22:51:28 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_start_of_orf_rev_comp.fasta_split_DNA_tblastn
[Friday November 25 22:51:29 2011] [Notice] CGView XML files have been created in ./sample_projects/test_tblastn/maps/cgview_xml.
[Friday November 25 22:51:29 2011] [Notice] Creating CGView maps.
[Friday November 25 22:51:36 2011] [Notice] CGView maps have been created in ./sample_projects/test_tblastn/maps.
[Saturday November 26 13:51:10 2011] [Notice] Using the settings file ./sample_projects/test_tblastn/project_settings.conf.
[Saturday November 26 13:51:10 2011] [Notice] Extracting ORF translations from reference genome sequence in ./sample_projects/test_tblastn/reference_genome for BLAST searches.
[Saturday November 26 13:51:11 2011] [Notice] Reference genome ORF translations have been written to ./sample_projects/test_tblastn/reference_genome/orfs.
[Saturday November 26 13:51:11 2011] [Notice] Splitting the comparison genome sequences in ./sample_projects/test_tblastn/comparison_genomes for BLAST searches.
[Saturday November 26 13:51:11 2011] [Notice] Comparison genome sequences have been split and written to ./sample_projects/test_tblastn/comparison_genomes/split.
[Saturday November 26 13:51:11 2011] [Notice] Creating BLAST databases using the files in ./sample_projects/test_tblastn/comparison_genomes/split.
[Saturday November 26 13:51:11 2011] [Notice] The BLAST databases have been created in ./sample_projects/test_tblastn/blast/blast_db.
[Saturday November 26 13:51:11 2011] [Notice] Performing BLAST comparisons between sequences in ./sample_projects/test_tblastn/reference_genome/orfs and databases in ./sample_projects/test_tblastn/blast/blast_db.
[Saturday November 26 13:51:27 2011] [Notice] The BLAST results have been written to ./sample_projects/test_tblastn/blast/blast_results_local.
[Saturday November 26 13:51:27 2011] [Notice] Assigning COG categories to CDS translations from reference genome sequence in ./sample_projects/test_tblastn/reference_genome.
[Saturday November 26 13:51:27 2011] [Notice] COG categories have been written to ./sample_projects/test_tblastn/features.
[Saturday November 26 13:51:27 2011] [Notice] Creating CGView XML files.
[Saturday November 26 13:51:27 2011] [Notice] The following BLAST results will be drawn, from outside to center:
[Saturday November 26 13:51:27 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_end_of_orf.fasta_split_DNA_tblastn
[Saturday November 26 13:51:27 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_end_of_orf_rev_comp.fasta_split_DNA_tblastn
[Saturday November 26 13:51:27 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_start_of_orf.fasta_split_DNA_tblastn
[Saturday November 26 13:51:27 2011] [Notice] two_copies_of_long_ORF_opposite_directions_ORFS_vs_match_start_of_orf_rev_comp.fasta_split_DNA_tblastn
[Saturday November 26 13:51:29 2011] [Notice] CGView XML files have been created in ./sample_projects/test_tblastn/maps/cgview_xml.
[Saturday November 26 13:51:29 2011] [Notice] Creating CGView maps.
[Saturday November 26 13:51:36 2011] [Notice] CGView maps have been created in ./sample_projects/test_tblastn/maps.
