-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_4/scaffold_4_2793630-2952363

-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 Augustus_model.g5766.t1
Valid prediction for GlimmerHMM_glimmerT_8989-T1
Valid prediction for GlimmerHMM_glimmerT_8970-T1
Valid prediction for Augustus_model.g5761.t1
Valid prediction for snap_scaffold_4-snap.643-T1
Valid prediction for snap_scaffold_4-snap.631-T1
Valid prediction for GlimmerHMM_glimmerT_8982-T1
Valid prediction for GlimmerHMM_glimmerT_8986-T1
Valid prediction for GlimmerHMM_glimmerT_8985-T1
Valid prediction for GlimmerHMM_glimmerT_8976-T1
Valid prediction for snap_scaffold_4-snap.627-T1
Valid prediction for snap_scaffold_4-snap.620-T1
Valid prediction for snap_scaffold_4-snap.646-T1
Valid prediction for Augustus_model.g5765.t1
Valid prediction for GlimmerHMM_glimmerT_8969-T1
Valid prediction for snap_scaffold_4-snap.622-T1
Valid prediction for snap_scaffold_4-snap.635-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_4-snap.652-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_4-snap.626-T1
Valid prediction for Augustus_model.g5762.t1
Valid prediction for GlimmerHMM_glimmerT_8966-T1
Valid prediction for snap_scaffold_4-snap.632-T1
Valid prediction for snap_scaffold_4-snap.628-T1
Valid prediction for snap_scaffold_4-snap.641-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g5759.t1
Valid prediction for snap_scaffold_4-snap.647-T1
Valid prediction for snap_scaffold_4-snap.629-T1
Valid prediction for snap_scaffold_4-snap.655-T1
Valid prediction for snap_scaffold_4-snap.640-T1
Valid prediction for Augustus_model.g5767.t1
Valid prediction for snap_scaffold_4-snap.642-T1
Valid prediction for snap_scaffold_4-snap.650-T1
Valid prediction for snap_scaffold_4-snap.645-T1
Valid prediction for snap_scaffold_4-snap.637-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_8979-T1
Valid prediction for snap_scaffold_4-snap.638-T1
Couldn't classify 139954, 140154
Couldn't classify 141317, 141430
Sorry, prediction pasa_asmbl_43600.p2 fails validation.
(ATC)	 AG	139954-140154	GT	AGG
(ATA)	 AG	141317-141430	AC	TGA
-recovered pasa_asmbl_43600.p2, internal, 139954, 140154
Valid prediction for GlimmerHMM_glimmerT_8975-T1
Couldn't classify 128488, 128670
Couldn't classify 129615, 129740
Sorry, prediction pasa_asmbl_43638.p2 fails validation.
(GTG)	 GT	128488-128670	GT	AGG
(ATG)	 AG	129615-129740	GT	AGG
-recovered pasa_asmbl_43638.p2, initial, 129615, 129740
-recovered pasa_asmbl_43638.p2, internal, 129615, 129740
Valid prediction for GlimmerHMM_glimmerT_8977-T1
Valid prediction for GlimmerHMM_glimmerT_8987-T1
Valid prediction for GlimmerHMM_glimmerT_8984-T1
Valid prediction for snap_scaffold_4-snap.649-T1
Valid prediction for GlimmerHMM_glimmerT_8978-T1
Valid prediction for snap_scaffold_4-snap.630-T1
Valid prediction for snap_scaffold_4-snap.624-T1
Valid prediction for Augustus_model.g5760.t1
Valid prediction for GlimmerHMM_glimmerT_8981-T1
Valid prediction for snap_scaffold_4-snap.639-T1
Valid prediction for snap_scaffold_4-snap.648-T1
Valid prediction for GlimmerHMM_glimmerT_8980-T1
Valid prediction for GlimmerHMM_glimmerT_8988-T1
Valid prediction for snap_scaffold_4-snap.644-T1
Valid prediction for GlimmerHMM_glimmerT_8973-T1
Valid prediction for GlimmerHMM_glimmerT_8972-T1
Valid prediction for snap_scaffold_4-snap.653-T1
Valid prediction for Augustus_model.g5768.t1
Valid prediction for snap_scaffold_4-snap.623-T1
Couldn't classify 110783, 111208
Sorry, prediction pasa_asmbl_42408.p2 fails validation.
(ATG)	 GG	110783-111208	AG	GCA
Valid prediction for GlimmerHMM_glimmerT_8971-T1
Valid prediction for GlimmerHMM_glimmerT_8967-T1
Valid prediction for snap_scaffold_4-snap.621-T1
Valid prediction for GlimmerHMM_glimmerT_8968-T1
Valid prediction for Augustus_model.g5758.t1
Valid prediction for GlimmerHMM_glimmerT_8983-T1
Valid prediction for snap_scaffold_4-snap.651-T1
Valid prediction for Augustus_model.g5763.t1
Valid prediction for snap_scaffold_4-snap.634-T1
Valid prediction for Augustus_model.g5764.t1
Valid prediction for GlimmerHMM_glimmerT_8974-T1
Valid prediction for snap_scaffold_4-snap.633-T1
Valid prediction for snap_scaffold_4-snap.656-T1
Valid prediction for Augustus_model.g5757.t1
Valid prediction for snap_scaffold_4-snap.654-T1
Valid prediction for GlimmerHMM_glimmerT_8965-T1
Valid prediction for Augustus_model.g5756.t1
Valid prediction for snap_scaffold_4-snap.625-T1
Valid prediction for Augustus_model.g5769.t1
Valid prediction for snap_scaffold_4-snap.636-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15842, rend_intergenic: 12750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20863, rend_intergenic: 16511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36014, rend_intergenic: 21575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52568, rend_intergenic: 37448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56584, rend_intergenic: 53262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83276, rend_intergenic: 81389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88393, rend_intergenic: 83433  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96075, rend_intergenic: 88465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109658, rend_intergenic: 96488  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121590, rend_intergenic: 115144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130659, rend_intergenic: 121636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134733, rend_intergenic: 130772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139122, rend_intergenic: 134865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141401, rend_intergenic: 139122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148381, rend_intergenic: 143779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152534, rend_intergenic: 148967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 158734
-exon list size: 283


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.8    
3.2    
3.5    
3.9    
4.2    
4.6    
4.9    
5.3    
5.6    
6.0    
6.3    
6.7    
7.0    
7.4    
7.7    
8.1    
8.4    
8.8    
9.1    
9.5    
9.8    
10.2    
10.5    
10.9    
11.2    
11.6    
11.9    
12.3    
12.6    
13.0    
13.3    
13.7    
14.0    
14.4    
14.7    
15.1    
15.4    
15.8    
16.1    
16.5    
16.8    
17.2    
17.5    
17.9    
18.2    
18.6    
18.9    
19.3    
19.6    
20.0    
20.4    
20.7    
21.1    
21.4    
21.8    
22.1    
22.5    
22.8    
23.2    
23.5    
23.9    
24.2    
24.6    
24.9    
25.3    
25.6    
26.0    
26.3    
26.7    
27.0    
27.4    
27.7    
28.1    
28.4    
28.8    
29.1    
29.5    
29.8    
30.2    
30.5    
30.9    
31.2    
31.6    
31.9    
32.3    
32.6    
33.0    
33.3    
33.7    
34.0    
34.4    
34.7    
35.1    
35.4    
35.8    
36.1    
36.5    
36.8    
37.2    
37.5    
37.9    
38.2    
38.6    
38.9    
39.3    
39.6    
40.0    
40.4    
40.7    
41.1    
41.4    
41.8    
42.1    
42.5    
42.8    
43.2    
43.5    
43.9    
44.2    
44.6    
44.9    
45.3    
45.6    
46.0    
46.3    
46.7    
47.0    
47.4    
47.7    
48.1    
48.4    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.6    
51.9    
52.3    
52.6    
53.0    
53.3    
53.7    
54.0    
54.4    
54.7    
55.1    
55.4    
55.8    
56.1    
56.5    
56.8    
57.2    
57.5    
57.9    
58.2    
58.6    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.4    
61.8    
62.1    
62.5    
62.8    
63.2    
63.5    
63.9    
64.2    
64.6    
64.9    
65.3    
65.6    
66.0    
66.3    
66.7    
67.0    
67.4    
67.7    
68.1    
68.4    
68.8    
69.1    
69.5    
69.8    
70.2    
70.5    
70.9    
71.2    
71.6    
71.9    
72.3    
72.6    
73.0    
73.3    
73.7    
74.0    
74.4    
74.7    
75.1    
75.4    
75.8    
76.1    
76.5    
76.8    
77.2    
77.5    
77.9    
78.2    
78.6    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.4    
81.8    
82.1    
82.5    
82.8    
83.2    
83.5    
83.9    
84.2    
84.6    
84.9    
85.3    
85.6    
86.0    
86.3    
86.7    
87.0    
87.4    
87.7    
88.1    
88.4    
88.8    
89.1    
89.5    
89.8    
90.2    
90.5    
90.9    
91.2    
91.6    
91.9    
92.3    
92.6    
93.0    
93.3    
93.7    
94.0    
94.4    
94.7    
95.1    
95.4    
95.8    
96.1    
96.5    
96.8    
97.2    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 15842, rend_intergenic: 12750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20863, rend_intergenic: 16511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36014, rend_intergenic: 21575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52568, rend_intergenic: 37448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56584, rend_intergenic: 53262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83276, rend_intergenic: 81389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88393, rend_intergenic: 83433  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96075, rend_intergenic: 88465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109658, rend_intergenic: 96488  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121590, rend_intergenic: 115144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130659, rend_intergenic: 121636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134733, rend_intergenic: 130772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139122, rend_intergenic: 134865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141401, rend_intergenic: 139122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148381, rend_intergenic: 143779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152534, rend_intergenic: 148967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support