-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_17017988-17206994

-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 snap_scaffold_7-snap.3232-T1
Valid prediction for snap_scaffold_7-snap.3258-T1
Valid prediction for Augustus_model.g12654.t1
Valid prediction for snap_scaffold_7-snap.3227-T1
Valid prediction for GlimmerHMM_glimmerT_18814-T1
Valid prediction for Augustus_model.g12656.t1
Valid prediction for GlimmerHMM_glimmerT_18835-T1
Valid prediction for snap_scaffold_7-snap.3238-T1
Valid prediction for snap_scaffold_7-snap.3240-T1
Valid prediction for GlimmerHMM_glimmerT_18829-T1
Valid prediction for GlimmerHMM_glimmerT_18813-T1
Valid prediction for GlimmerHMM_glimmerT_18823-T1
Valid prediction for GlimmerHMM_glimmerT_18834-T1
Valid prediction for snap_scaffold_7-snap.3244-T1
Valid prediction for snap_scaffold_7-snap.3242-T1
Valid prediction for snap_scaffold_7-snap.3261-T1
Valid prediction for snap_scaffold_7-snap.3254-T1
Valid prediction for snap_scaffold_7-snap.3246-T1
Valid prediction for snap_scaffold_7-snap.3229-T1
Valid prediction for GlimmerHMM_glimmerT_18836-T1
Valid prediction for snap_scaffold_7-snap.3233-T1
Valid prediction for snap_scaffold_7-snap.3223-T1
Valid prediction for GlimmerHMM_glimmerT_18818-T1
Valid prediction for Augustus_model.g12657.t1
Valid prediction for snap_scaffold_7-snap.3235-T1
Valid prediction for GlimmerHMM_glimmerT_18820-T1
Valid prediction for GlimmerHMM_glimmerT_18830-T1
Valid prediction for Augustus_model.g12653.t1
Valid prediction for snap_scaffold_7-snap.3259-T1
Valid prediction for snap_scaffold_7-snap.3250-T1
Valid prediction for GlimmerHMM_glimmerT_18833-T1
Valid prediction for Augustus_model.g12655.t1
Valid prediction for snap_scaffold_7-snap.3256-T1
Valid prediction for GlimmerHMM_glimmerT_18831-T1
Valid prediction for snap_scaffold_7-snap.3260-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_18811-T1
Valid prediction for GlimmerHMM_glimmerT_18824-T1
Valid prediction for Augustus_model.g12652.t1
Valid prediction for snap_scaffold_7-snap.3230-T1
Valid prediction for snap_scaffold_7-snap.3249-T1
Valid prediction for snap_scaffold_7-snap.3252-T1
Valid prediction for GlimmerHMM_glimmerT_18828-T1
Valid prediction for snap_scaffold_7-snap.3253-T1
Valid prediction for GlimmerHMM_glimmerT_18816-T1
Couldn't classify 119501, 119557
Couldn't classify 120359, 120443
Sorry, prediction pasa_asmbl_50476.p1 fails validation.
(AAA)	 TA	119501-119557	GT	AGG
(GAA)	 AG	119710-119820	GT	AGG
(GCG)	 AG	120029-120243	GT	AGG
(GAT)	 AG	120359-120443	AG	GAA
-recovered pasa_asmbl_50476.p1, internal, 119710, 119820
-recovered pasa_asmbl_50476.p1, internal, 120029, 120243
Valid prediction for GlimmerHMM_glimmerT_18812-T1
Valid prediction for snap_scaffold_7-snap.3226-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 snap_scaffold_7-snap.3255-T1
Valid prediction for snap_scaffold_7-snap.3228-T1
Valid prediction for GlimmerHMM_glimmerT_18808-T1
Valid prediction for GlimmerHMM_glimmerT_18822-T1
Valid prediction for Augustus_model.g12651.t1
Valid prediction for snap_scaffold_7-snap.3225-T1
Valid prediction for snap_scaffold_7-snap.3251-T1
Valid prediction for GlimmerHMM_glimmerT_18809-T1
Valid prediction for snap_scaffold_7-snap.3262-T1
Valid prediction for snap_scaffold_7-snap.3236-T1
Valid prediction for GlimmerHMM_glimmerT_18821-T1
Valid prediction for GlimmerHMM_glimmerT_18832-T1
Valid prediction for snap_scaffold_7-snap.3245-T1
Valid prediction for snap_scaffold_7-snap.3247-T1
Valid prediction for snap_scaffold_7-snap.3239-T1
Valid prediction for snap_scaffold_7-snap.3234-T1
Valid prediction for GlimmerHMM_glimmerT_18815-T1
Valid prediction for GlimmerHMM_glimmerT_18826-T1
Valid prediction for GlimmerHMM_glimmerT_18810-T1
Valid prediction for GlimmerHMM_glimmerT_18819-T1
Valid prediction for snap_scaffold_7-snap.3231-T1
Valid prediction for GlimmerHMM_glimmerT_18825-T1
Valid prediction for snap_scaffold_7-snap.3257-T1
Valid prediction for GlimmerHMM_glimmerT_18817-T1
Valid prediction for snap_scaffold_7-snap.3243-T1
Valid prediction for snap_scaffold_7-snap.3224-T1
Valid prediction for snap_scaffold_7-snap.3241-T1
Valid prediction for GlimmerHMM_glimmerT_18827-T1
Valid prediction for snap_scaffold_7-snap.3248-T1
Valid prediction for snap_scaffold_7-snap.3237-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 24505, rend_intergenic: 19377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28416, rend_intergenic: 24610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41975, rend_intergenic: 40093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47934, rend_intergenic: 42361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66229, rend_intergenic: 65622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88553, rend_intergenic: 86210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126059, rend_intergenic: 121624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131774, rend_intergenic: 126220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149469, rend_intergenic: 146292  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153468, rend_intergenic: 150442  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154244, rend_intergenic: 153858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178663, rend_intergenic: 158682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 189007
-exon list size: 249


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.8    
3.2    
3.6    
4.0    
4.4    
4.8    
5.2    
5.6    
6.0    
6.4    
6.8    
7.2    
7.6    
8.0    
8.4    
8.8    
9.2    
9.6    
10.0    
10.4    
10.8    
11.2    
11.6    
12.0    
12.4    
12.7    
13.1    
13.5    
13.9    
14.3    
14.7    
15.1    
15.5    
15.9    
16.3    
16.7    
17.1    
17.5    
17.9    
18.3    
18.7    
19.1    
19.5    
19.9    
20.3    
20.7    
21.1    
21.5    
21.9    
22.3    
22.7    
23.1    
23.5    
23.9    
24.3    
24.7    
25.1    
25.5    
25.9    
26.3    
26.7    
27.1    
27.5    
27.9    
28.3    
28.7    
29.1    
29.5    
29.9    
30.3    
30.7    
31.1    
31.5    
31.9    
32.3    
32.7    
33.1    
33.5    
33.9    
34.3    
34.7    
35.1    
35.5    
35.9    
36.3    
36.7    
37.1    
37.5    
37.8    
38.2    
38.6    
39.0    
39.4    
39.8    
40.2    
40.6    
41.0    
41.4    
41.8    
42.2    
42.6    
43.0    
43.4    
43.8    
44.2    
44.6    
45.0    
45.4    
45.8    
46.2    
46.6    
47.0    
47.4    
47.8    
48.2    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.8    
52.2    
52.6    
53.0    
53.4    
53.8    
54.2    
54.6    
55.0    
55.4    
55.8    
56.2    
56.6    
57.0    
57.4    
57.8    
58.2    
58.6    
59.0    
59.4    
59.8    
60.2    
60.6    
61.0    
61.4    
61.8    
62.2    
62.5    
62.9    
63.3    
63.7    
64.1    
64.5    
64.9    
65.3    
65.7    
66.1    
66.5    
66.9    
67.3    
67.7    
68.1    
68.5    
68.9    
69.3    
69.7    
70.1    
70.5    
70.9    
71.3    
71.7    
72.1    
72.5    
72.9    
73.3    
73.7    
74.1    
74.5    
74.9    
75.3    
75.7    
76.1    
76.5    
76.9    
77.3    
77.7    
78.1    
78.5    
78.9    
79.3    
79.7    
80.1    
80.5    
80.9    
81.3    
81.7    
82.1    
82.5    
82.9    
83.3    
83.7    
84.1    
84.5    
84.9    
85.3    
85.7    
86.1    
86.5    
86.9    
87.3    
87.6    
88.0    
88.4    
88.8    
89.2    
89.6    
90.0    
90.4    
90.8    
91.2    
91.6    
92.0    
92.4    
92.8    
93.2    
93.6    
94.0    
94.4    
94.8    
95.2    
95.6    
96.0    
96.4    
96.8    
97.2    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 24505, rend_intergenic: 19377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28416, rend_intergenic: 24610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41975, rend_intergenic: 40093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47934, rend_intergenic: 42361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66229, rend_intergenic: 65622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88553, rend_intergenic: 86210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126059, rend_intergenic: 121624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131774, rend_intergenic: 126220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149469, rend_intergenic: 146292  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153468, rend_intergenic: 150442  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154244, rend_intergenic: 153858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178663, rend_intergenic: 158682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support