-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1/scaffold_1_22312304-22408856

-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_1-snap.4225-T1
Valid prediction for snap_scaffold_1-snap.4221-T1
Valid prediction for snap_scaffold_1-snap.4227-T1
Valid prediction for snap_scaffold_1-snap.4234-T1
Couldn't classify 92376, 92542
Sorry, prediction snap_scaffold_1-snap.4237-T1 fails validation.
(ATG)	 GA	88929-89364	GT	AGG
(AGA)	 AG	92376-92542	GT	GGG
-recovered snap_scaffold_1-snap.4237-T1, initial, 88929, 89364
-recovered snap_scaffold_1-snap.4237-T1, internal, 92376, 92542
Valid prediction for snap_scaffold_1-snap.4233-T1
Valid prediction for GlimmerHMM_glimmerT_2979-T1
Valid prediction for GlimmerHMM_glimmerT_2986-T1
Valid prediction for GlimmerHMM_glimmerT_2987-T1
Valid prediction for GlimmerHMM_glimmerT_2984-T1
Valid prediction for GlimmerHMM_glimmerT_2985-T1
Valid prediction for snap_scaffold_1-snap.4229-T1
Couldn't classify 59535, 59611
Sorry, prediction pasa_asmbl_2692.p2 fails validation.
(GGT)	 TG	59535-59611	GT	CAG
(TGC)	 AG	59953-60004	GT	GGG
(GGG)	 AG	60135-60272	GT	AGG
(ATT)	 AG	61274-61372	AG	GAA
-recovered pasa_asmbl_2692.p2, terminal, 61274, 61372
-recovered pasa_asmbl_2692.p2, internal, 59953, 60004
-recovered pasa_asmbl_2692.p2, internal, 60135, 60272
Valid prediction for snap_scaffold_1-snap.4219-T1
Valid prediction for GlimmerHMM_glimmerT_2977-T1
Valid prediction for GlimmerHMM_glimmerT_2988-T1
Valid prediction for snap_scaffold_1-snap.4232-T1
Valid prediction for snap_scaffold_1-snap.4217-T1
Valid prediction for GlimmerHMM_glimmerT_2980-T1
Valid prediction for snap_scaffold_1-snap.4224-T1
Valid prediction for snap_scaffold_1-snap.4222-T1
Valid prediction for snap_scaffold_1-snap.4218-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_1-snap.4223-T1
Valid prediction for GlimmerHMM_glimmerT_2990-T1
Valid prediction for snap_scaffold_1-snap.4231-T1
Valid prediction for GlimmerHMM_glimmerT_2982-T1
Valid prediction for GlimmerHMM_glimmerT_2981-T1
Valid prediction for snap_scaffold_1-snap.4226-T1
Valid prediction for snap_scaffold_1-snap.4228-T1
Valid prediction for snap_scaffold_1-snap.4220-T1
Valid prediction for GlimmerHMM_glimmerT_2978-T1
Valid prediction for snap_scaffold_1-snap.4236-T1
Valid prediction for GlimmerHMM_glimmerT_2989-T1
Valid prediction for snap_scaffold_1-snap.4235-T1
Valid prediction for snap_scaffold_1-snap.4238-T1
Valid prediction for GlimmerHMM_glimmerT_2983-T1
Valid prediction for snap_scaffold_1-snap.4230-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17721, rend_intergenic: 14691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21734, rend_intergenic: 18225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33437, rend_intergenic: 28103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42125, rend_intergenic: 37650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61372, rend_intergenic: 53136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77592, rend_intergenic: 62390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85190, rend_intergenic: 77935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92542, rend_intergenic: 91951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 96553
-exon list size: 159


building trellis

0.6    
1.2    
1.9    
2.5    
3.1    
3.7    
4.3    
5.0    
5.6    
6.2    
6.8    
7.5    
8.1    
8.7    
9.3    
9.9    
10.6    
11.2    
11.8    
12.4    
13.0    
13.7    
14.3    
14.9    
15.5    
16.1    
16.8    
17.4    
18.0    
18.6    
19.3    
19.9    
20.5    
21.1    
21.7    
22.4    
23.0    
23.6    
24.2    
24.8    
25.5    
26.1    
26.7    
27.3    
28.0    
28.6    
29.2    
29.8    
30.4    
31.1    
31.7    
32.3    
32.9    
33.5    
34.2    
34.8    
35.4    
36.0    
36.6    
37.3    
37.9    
38.5    
39.1    
39.8    
40.4    
41.0    
41.6    
42.2    
42.9    
43.5    
44.1    
44.7    
45.3    
46.0    
46.6    
47.2    
47.8    
48.4    
49.1    
49.7    
50.3    
50.9    
51.6    
52.2    
52.8    
53.4    
54.0    
54.7    
55.3    
55.9    
56.5    
57.1    
57.8    
58.4    
59.0    
59.6    
60.2    
60.9    
61.5    
62.1    
62.7    
63.4    
64.0    
64.6    
65.2    
65.8    
66.5    
67.1    
67.7    
68.3    
68.9    
69.6    
70.2    
70.8    
71.4    
72.0    
72.7    
73.3    
73.9    
74.5    
75.2    
75.8    
76.4    
77.0    
77.6    
78.3    
78.9    
79.5    
80.1    
80.7    
81.4    
82.0    
82.6    
83.2    
83.9    
84.5    
85.1    
85.7    
86.3    
87.0    
87.6    
88.2    
88.8    
89.4    
90.1    
90.7    
91.3    
91.9    
92.5    
93.2    
93.8    
94.4    
95.0    
95.7    
96.3    
96.9    
97.5    
98.1    
98.8    
99.4    
-found 20 predictions from path traversal
Error with prediction: snap lend_intergenic: 17721, rend_intergenic: 14691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21734, rend_intergenic: 18225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33437, rend_intergenic: 28103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42125, rend_intergenic: 37650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61372, rend_intergenic: 53136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77592, rend_intergenic: 62390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85190, rend_intergenic: 77935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92542, rend_intergenic: 91951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support