-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_2990506-3228694

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Valid prediction for GlimmerHMM_glimmerT_45692-T1
Valid prediction for GlimmerHMM_glimmerT_45679-T1
Valid prediction for snap_scaffold_20-snap.653-T1
Valid prediction for HiQ_model.g30348.t1
Valid prediction for Augustus_model.g30346.t1
Valid prediction for snap_scaffold_20-snap.638-T1
Valid prediction for snap_scaffold_20-snap.646-T1
Valid prediction for snap_scaffold_20-snap.659-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g30357.t1
Valid prediction for snap_scaffold_20-snap.645-T1
Valid prediction for GlimmerHMM_glimmerT_45695-T1
Valid prediction for GlimmerHMM_glimmerT_45693-T1
Valid prediction for Augustus_model.g30355.t1
Valid prediction for snap_scaffold_20-snap.658-T1
Valid prediction for GlimmerHMM_glimmerT_45685-T1
Couldn't classify 74036, 74133
Couldn't classify 75721, 75806
Sorry, prediction pasa_asmbl_27200.p2 fails validation.
(AAC)	 AC	74036-74133	GT	AGG
(AGA)	 AG	74412-74492	GT	AGG
(ACA)	 AG	75112-75224	GT	AGG
(ACA)	 AG	75721-75806	CG	AAC
-recovered pasa_asmbl_27200.p2, internal, 74412, 74492
-recovered pasa_asmbl_27200.p2, internal, 75112, 75224
Valid prediction for GlimmerHMM_glimmerT_45697-T1
Valid prediction for snap_scaffold_20-snap.643-T1
Valid prediction for snap_scaffold_20-snap.651-T1
Valid prediction for snap_scaffold_20-snap.639-T1
Valid prediction for Augustus_model.g30350.t1
Valid prediction for GlimmerHMM_glimmerT_45680-T1
Valid prediction for Augustus_model.g30356.t1
Valid prediction for snap_scaffold_20-snap.649-T1
Valid prediction for GlimmerHMM_glimmerT_45696-T1
Valid prediction for GlimmerHMM_glimmerT_45677-T1
Valid prediction for GlimmerHMM_glimmerT_45691-T1
Valid prediction for GlimmerHMM_glimmerT_45683-T1
Valid prediction for snap_scaffold_20-snap.675-T1
Valid prediction for Augustus_model.g30358.t1
Valid prediction for Augustus_model.g30354.t1
Valid prediction for snap_scaffold_20-snap.647-T1
Valid prediction for GlimmerHMM_glimmerT_45690-T1
Valid prediction for Augustus_model.g30351.t1
Valid prediction for snap_scaffold_20-snap.636-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.665-T1
Valid prediction for snap_scaffold_20-snap.655-T1
Valid prediction for GlimmerHMM_glimmerT_45687-T1
Valid prediction for snap_scaffold_20-snap.662-T1

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)Valid prediction for GlimmerHMM_glimmerT_45678-T1
Valid prediction for GlimmerHMM_glimmerT_45686-T1
Valid prediction for snap_scaffold_20-snap.674-T1
Valid prediction for snap_scaffold_20-snap.640-T1
Valid prediction for snap_scaffold_20-snap.642-T1
Valid prediction for GlimmerHMM_glimmerT_45694-T1
Valid prediction for snap_scaffold_20-snap.669-T1
Valid prediction for GlimmerHMM_glimmerT_45682-T1
Valid prediction for snap_scaffold_20-snap.664-T1
Valid prediction for snap_scaffold_20-snap.648-T1
Valid prediction for GlimmerHMM_glimmerT_45674-T1
Valid prediction for Augustus_model.g30349.t1
Valid prediction for snap_scaffold_20-snap.656-T1
Valid prediction for snap_scaffold_20-snap.672-T1
Couldn't classify 149004, 149150
Couldn't classify 149489, 149653
Sorry, prediction pasa_asmbl_26270.p1 fails validation.
(GTA)	 CA	149004-149150	GT	AGG
(CCC)	 AG	149489-149653	AA	CCA
Valid prediction for GlimmerHMM_glimmerT_45688-T1
Valid prediction for GlimmerHMM_glimmerT_45676-T1
Valid prediction for GlimmerHMM_glimmerT_45675-T1
Valid prediction for Augustus_model.g30345.t1
Valid prediction for snap_scaffold_20-snap.673-T1
Valid prediction for snap_scaffold_20-snap.667-T1
Valid prediction for snap_scaffold_20-snap.661-T1
Valid prediction for snap_scaffold_20-snap.660-T1
Valid prediction for snap_scaffold_20-snap.666-T1
Valid prediction for Augustus_model.g30344.t1
Valid prediction for snap_scaffold_20-snap.650-T1
Valid prediction for Augustus_model.g30347.t1
Valid prediction for snap_scaffold_20-snap.637-T1
Valid prediction for snap_scaffold_20-snap.652-T1
Valid prediction for snap_scaffold_20-snap.654-T1
Valid prediction for snap_scaffold_20-snap.668-T1
Valid prediction for Augustus_model.g30352.t1
Valid prediction for GlimmerHMM_glimmerT_45689-T1
Valid prediction for snap_scaffold_20-snap.657-T1
Valid prediction for snap_scaffold_20-snap.671-T1
Valid prediction for GlimmerHMM_glimmerT_45684-T1
Valid prediction for snap_scaffold_20-snap.670-T1
Valid prediction for snap_scaffold_20-snap.644-T1
Valid prediction for snap_scaffold_20-snap.663-T1
Valid prediction for Augustus_model.g30353.t1
Valid prediction for snap_scaffold_20-snap.641-T1
Valid prediction for GlimmerHMM_glimmerT_45681-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9898, rend_intergenic: 5776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17453, rend_intergenic: 10491  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40480, rend_intergenic: 21200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58508, rend_intergenic: 51877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75941, rend_intergenic: 69991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82539, rend_intergenic: 76225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87373, rend_intergenic: 84014  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93310, rend_intergenic: 88266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97194, rend_intergenic: 93713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100438, rend_intergenic: 97692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102569, rend_intergenic: 101266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150125, rend_intergenic: 125534  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180026, rend_intergenic: 151273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186939, rend_intergenic: 181630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188360, rend_intergenic: 187323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220195, rend_intergenic: 188589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 227135, rend_intergenic: 224141  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 238189
-exon list size: 353


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
2.0    
2.3    
2.5    
2.8    
3.1    
3.4    
3.7    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.6    
5.9    
6.2    
6.5    
6.8    
7.0    
7.3    
7.6    
7.9    
8.2    
8.5    
8.7    
9.0    
9.3    
9.6    
9.9    
10.1    
10.4    
10.7    
11.0    
11.3    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.2    
13.5    
13.8    
14.1    
14.4    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.3    
16.6    
16.9    
17.2    
17.5    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.4    
19.7    
20.0    
20.3    
20.6    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.5    
22.8    
23.1    
23.4    
23.7    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.6    
25.9    
26.2    
26.5    
26.8    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.7    
29.0    
29.3    
29.6    
29.9    
30.1    
30.4    
30.7    
31.0    
31.3    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.4    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.3    
36.6    
36.9    
37.2    
37.5    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.4    
39.7    
40.0    
40.3    
40.6    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.5    
42.8    
43.1    
43.4    
43.7    
43.9    
44.2    
44.5    
44.8    
45.1    
45.4    
45.6    
45.9    
46.2    
46.5    
46.8    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.2    
53.5    
53.8    
54.1    
54.4    
54.6    
54.9    
55.2    
55.5    
55.8    
56.1    
56.3    
56.6    
56.9    
57.2    
57.5    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.4    
59.7    
60.0    
60.3    
60.6    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.5    
62.8    
63.1    
63.4    
63.7    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.6    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.7    
69.0    
69.3    
69.6    
69.9    
70.1    
70.4    
70.7    
71.0    
71.3    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.2    
73.5    
73.8    
74.1    
74.4    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.3    
76.6    
76.9    
77.2    
77.5    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.4    
79.7    
80.0    
80.3    
80.6    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.5    
82.8    
83.1    
83.4    
83.7    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.6    
85.9    
86.2    
86.5    
86.8    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.7    
89.0    
89.3    
89.6    
89.9    
90.1    
90.4    
90.7    
91.0    
91.3    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.2    
93.5    
93.8    
94.1    
94.4    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.3    
96.6    
96.9    
97.2    
97.5    
97.7    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 9898, rend_intergenic: 5776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17453, rend_intergenic: 10491  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40480, rend_intergenic: 21200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58508, rend_intergenic: 51877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75941, rend_intergenic: 69991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82539, rend_intergenic: 76225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87373, rend_intergenic: 84014  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93310, rend_intergenic: 88266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97194, rend_intergenic: 93713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100438, rend_intergenic: 97692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102569, rend_intergenic: 101266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150125, rend_intergenic: 125534  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180026, rend_intergenic: 151273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186939, rend_intergenic: 181630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188360, rend_intergenic: 187323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220195, rend_intergenic: 188589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 227135, rend_intergenic: 224141  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support