#***********************************************************************************
#
PIPELINE= Report HTML da Bactéria do curso
#
#***********************************************************************************
#===================================================================================
PHASE= Upload XML
program = upload_xml.pl
xml_file = bacteria.xml
#===================================================================================
# _||_ #
# \ / #
# \/ #
#===================================================================================
PHASE= Report HTML
program = report_html.pl
#===================================================================================
organism_name = Bacteria do curso
index_file = index.html
background_image_file =
component_name_list = annotation_trf.pl;annotation_trna.pl;annotation_alienhunter.pl;annotation_infernal.pl;annotation_rnammer.pl;annotation_transterm.pl;annotation_rbsfinder.pl;annotation_tcdb.pl;annotation_phobius.pl;annotation_tmhmm.pl;annotation_signalP.pl;annotation_blast.pl;annotation_rpsblast.pl;annotation_interpro.pl;annotation_orthology.pl;annotation_pathways.pl
FT_artemis_dir = artemis_report
FT_submission_dir = genbank_report
#FT_artemis_selected_dir = artemis_dir_selected
#FT_submission_selected_dir = genbank_dir_selected
#GFF_dir = gff_dir
#GFF_selected_dir = gff_dir_selected
fasta_dir = seq
aa_fasta_dir = orfs_aa
nt_fasta_dir = orfs_nt
fasta_file = bacteria.fasta
aa_orf_file = glimmer3_dir/genes_aa.fasta
nt_orf_file = glimmer3_dir/genes_nt.fasta
trf_dir = trf_dir
trna_dir = trna_dir
alienhunter_dir = alienhunter_dir
alienhunter_output_file = alienhunter.txt
infernal_dir = infernal_dir
infernal_output_file = infernal.txt
rnammer_dir = rnammer_dir
transterm_dir = transterm_dir
rbs_dir = rbsfinder_dir
tcdb_dir = tcdb_dir
phobius_dir = phobius_dir
tmhmm_dir = tmhmm_dir
signalp_dir = signalp_dir
blast_dir = blastp_dir
rpsblast_dir = rpsblast_dir
interpro_dir = interpro_dir
orthology_dir = eggnog_dir
report_pathways_dir = kegg_report
pathways_dir = kegg_dir
report_go_dir=go_report
go_file=go_mapping.html
report_eggnog_dir= eggnog_report
eggnog_dir=eggnog_dir
blast_dir_list=blastp_dir
database_code_list=INSD
#===================================================================================