AGP file ENA submission error
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14 months ago
rob234king ▴ 600

I am trying to submit a chromsome level genome using AGP file which passes validation externally but when use the ENA webin jar it complains. I think I am missing something obvious? The 6th column is just made up names by a script is that wrong?

ERROR: The component does not exist: "contig1_0". [ line: 1]
ERROR: The component does not exist: "contig1_1". [ line: 3]
ERROR: The component does not exist: "contig1_2". [ line: 5]

chr1    1   2635192 1   W   contig1_0   1   2635192 +
chr1    2635193 2635692 2   N   500 scaffold    yes paired-ends
chr1    2635693 3190876 3   W   contig1_1   1   555184  +
chr1    3190877 3190901 4   N   25  scaffold    yes paired-ends
chr1    3190902 4309107 5   W   contig1_2   1   1118206 +
chr1    4309108 4309132 6   N   25  scaffold    yes paired-ends
chr1    4309133 4568877 7   W   contig1_3   1   259745  +
ENA • 283 views
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