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t/data/Streptococcus_pyogenes_emmST_unknown.fa
t/data/abc.fas
t/data/adk.tfa
t/data/adk_99_percent.tfa
t/data/adk_contamination.tfa
t/data/adk_imperfect.tfa
t/data/adk_imperfect_contamination.tfa
t/data/adk_less_than_95_percent.tfa
t/data/adk_top_hit_low_hit.tfa
t/data/adk_truncation.tfa
t/data/adk_two_imperfect_contamination.tfa
t/data/bbb.fas
t/data/bordetella.txt
t/data/ccc.fas
t/data/contigs.fa
t/data/contigs_check_concat_allele_order.fa
t/data/contigs_missing_locus.fa
t/data/contigs_near_match.fa
t/data/contigs_novel.fa
t/data/contigs_one_unknown.tfa
t/data/contigs_pipe_character_in_seq_name.fa
t/data/databases/Escherichia_coli_1/alleles/adk.tfa
t/data/databases/Escherichia_coli_1/alleles/purA.tfa
t/data/databases/Escherichia_coli_1/alleles/recA.tfa
t/data/databases/Escherichia_coli_1/profiles/escherichia_coli.txt
t/data/databases/Helicobacter_pylori/alleles/atpA.tfa
t/data/databases/Helicobacter_pylori/alleles/efp.tfa
t/data/databases/Helicobacter_pylori/alleles/mutY.tfa
t/data/databases/Helicobacter_pylori/profiles/hpylori.txt
t/data/databases/Streptococcus_pyogenes/profiles/spyogenes.txt
t/data/databases/Streptococcus_pyogenes_emmST/alleles/emmST.tfa
t/data/databases/Streptococcus_pyogenes_emmST/profiles/Streptococcus_pyogenes_emmST.txt
t/data/ddd.fas
t/data/eee.fas
t/data/efg.fas
t/data/expected_Streptococcus_pyogenes_emmST.allele.csv
t/data/expected_Streptococcus_pyogenes_emmST.genomic.csv
t/data/expected_Streptococcus_pyogenes_emmST_alleles.fa
t/data/expected_Streptococcus_pyogenes_emmST_alleles_with_unknown.fa
t/data/expected_concatenated_alleles.fa
t/data/expected_mlst_results.allele.csv
t/data/expected_mlst_results.genomic.csv
t/data/expected_multi_mlst_results.allele.csv
t/data/expected_multi_mlst_results.genomic.csv
t/data/expected_sorted_concatenated_alleles.fa
t/data/expected_sorted_mlst_results.allele.csv
t/data/expected_sorted_mlst_results.genomic.csv
t/data/expected_three_concatenated_alleles.fa
t/data/expected_three_concatenated_alleles.phylip
t/data/expected_three_contigs_one_unknown.unknown_allele.adk-2~.fa
t/data/expected_three_contigs_one_unknown.unknown_allele.recA-1~.fa
t/data/expected_three_mlst_best_results.allele.csv
t/data/expected_three_mlst_best_results.genomic.csv
t/data/expected_three_mlst_results.allele.csv
t/data/expected_three_mlst_results.genomic.csv
t/data/expected_two_concatenated_alleles.fa
t/data/expected_two_mlst_results.allele.csv
t/data/expected_two_mlst_results.genomic.csv
t/data/fake_executables/another_executable.sh
t/data/fake_executables/executable.sh
t/data/fake_executables/not_executable.sh
t/data/gdh_fake_blast_output.sh
t/data/homo_sapiens.txt
t/data/missing_web_database.xml
t/data/overall_databases.xml
t/data/purA.tfa
t/data/recA.tfa
t/requires_external.t
weaver.ini
xt/author/00-compile.t
xt/author/pod-syntax.t