File: create_so_bridge_command

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libchado-perl 1.31-6
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./create-so-bridge.pl  -d 'dbi:Pg:dbname=chado' --Custom "5_methylcytosine=five_methylcytosine,5_prime_UTR_variant=five_prime_utr_variant,5KB_downstream_variant=fivekb_downstream_variant,500B_downstream_variant=fivehundred_b_downstream_variant,5KB_upstream_variant=fivekb_upstream_variant,2KB_upstream_variant=twokb_upstream_variant,3D_polypeptide_structure_variant=threed_polypeptide_structure_variant,3_prime_UTR_variant=three_prime_utr_variant,genotype=so_genotype,heptamer_of_recombination_feature_of_vertebrate_immune_system_gene=heptamer_of_recombination_feature_of_vertebrate_im_sys_gene,nonamer_of_recombination_feature_of_vertebrate_immune_system_gene=nonamer_of_recombination_feature_of_vertebrate_im_sys_gene,one_methyl_three_three_amino_three_carboxypropyl_pseudouridine=one_methyl_3_3_amino_three_carboxypropyl_pseudouridine,sequence_variant_causing_initiator_codon_change_in_transcript=sequence_variant_causing_initiator_codon_change_in_trans,sequence_variant_causing_amino_acid_coding_codon_change_in_transcript=seq_variant_causing_amino_acid_coding_codon_change_in_trans,sequence_variant_causing_synonymous_codon_change_in_transcript=seq_variant_causing_synonymous_codon_change_in_trans,sequence_variant_causing_non_synonymous_codon_change_in_transcript=seq_variant_causing_non_synonymous_codon_change_in_trans,sequence_variant_causing_conservative_missense_codon_change_in_transcript=seq_var_causing_conservative_missense_codon_change_in_trans,sequence_variant_causing_nonconservative_missense_codon_change_in_transcript=seq_var_causing_nonconserv_missense_codon_change_in_trans,sequence_variant_causing_terminator_codon_change_in_transcript=sequence_variant_causing_terminator_codon_change_in_trans,sequence_variant_causing_uncharacterised_change_of_translational_product=sequence_variant_causing_uncharacterised_change_of_product,sequence_variant_causing_partially_characterised_change_of_translational_product=seq_variant_causing_partly_characterised_change_of_product,sequence_variant_causing_complex_change_of_translational_product=sequence_variant_causing_complex_change_of_product,sequence_variant_causing_conservative_amino_acid_substitution=sequence_variant_causing_conservative_amino_acid_sub,sequence_variant_causing_nonconservative_amino_acid_substitution=sequence_variant_causing_nonconservative_amino_acid_sub,mutation_causing_out_of_frame_polypeptide_N_terminal_elongation=mutation_causing_out_of_frame_polypeptide_n_terminal_elong,mutation_causing_out_of_frame_polypeptide_C_terminal_elongation=mutation_causing_out_of_frame_polypeptide_c_terminal_elong,sequence_variant_causing_uncharacterised_3D_structural_change=seq_variant_causing_uncharacterised_3d_structural_change,sequence_variant_causing_partially_characterised_3D_structural_change=seq_var_causing_partly_characterised_3d_structural_change,sequence_variant_causing_polypeptide_post_translational_processing_change=seq_variant_causing_polypeptide_post_trans_processing_change,sequence_variant_causing_partial_loss_of_function_of_polypeptide=seq_variant_causing_part_loss_of_function_of_polypeptide,sequence_variant_causing_compensatory_transcript_secondary_structure_mutation=seq_variant_caus_compensatory_trans_secondary_structure_mut,sequence_variant_causing_uncharacterised_change_in_transcript=seq_variant_causing_uncharacterised_change_in_transcript,sequence_variant_causing_partially_characterised_change_in_transcript=seq_variant_causing_partly_characterised_change_in_trans,vertebrate_immunoglobulin_T_cell_receptor_rearranged_gene_cluster=vertebrate_ig_t_cell_receptor_rearranged_gene_cluster" > so_bridge.sql