-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_451837-719031

-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_8-snap.107-T1
Valid prediction for snap_scaffold_8-snap.87-T1
Valid prediction for GlimmerHMM_glimmerT_19160-T1
Valid prediction for GlimmerHMM_glimmerT_19144-T1
Valid prediction for GlimmerHMM_glimmerT_19153-T1
Valid prediction for GlimmerHMM_glimmerT_19171-T1
Valid prediction for GlimmerHMM_glimmerT_19158-T1
Valid prediction for GlimmerHMM_glimmerT_19161-T1
Valid prediction for GlimmerHMM_glimmerT_19150-T1
Valid prediction for snap_scaffold_8-snap.98-T1
Valid prediction for pasa_asmbl_53578.p1
Valid prediction for snap_scaffold_8-snap.116-T1
Valid prediction for HiQ_model.g12807.t1
Valid prediction for snap_scaffold_8-snap.119-T1
Valid prediction for snap_scaffold_8-snap.110-T1
Valid prediction for snap_scaffold_8-snap.108-T1
Valid prediction for GlimmerHMM_glimmerT_19149-T1
Valid prediction for GlimmerHMM_glimmerT_19154-T1
Valid prediction for GlimmerHMM_glimmerT_19147-T1
Valid prediction for GlimmerHMM_glimmerT_19157-T1
Valid prediction for CodingQuarry_transcript_59585-T1
Valid prediction for GlimmerHMM_glimmerT_19164-T1
Valid prediction for snap_scaffold_8-snap.113-T1
Valid prediction for CodingQuarry_transcript_59587-T1
Valid prediction for snap_scaffold_8-snap.128-T1
Valid prediction for Augustus_model.g12805.t1
Valid prediction for GlimmerHMM_glimmerT_19170-T1
Valid prediction for GlimmerHMM_glimmerT_19167-T1
Valid prediction for Augustus_model.g12806.t1
Valid prediction for snap_scaffold_8-snap.124-T1
Valid prediction for GlimmerHMM_glimmerT_19169-T1
Valid prediction for snap_scaffold_8-snap.96-T1
Valid prediction for snap_scaffold_8-snap.90-T1
Valid prediction for snap_scaffold_8-snap.114-T1
Valid prediction for snap_scaffold_8-snap.100-T1
Valid prediction for snap_scaffold_8-snap.103-T1
Valid prediction for GlimmerHMM_glimmerT_19168-T1
Valid prediction for CodingQuarry_transcript_59586-T1
Valid prediction for GlimmerHMM_glimmerT_19163-T1
Valid prediction for snap_scaffold_8-snap.102-T1
Valid prediction for GlimmerHMM_glimmerT_19162-T1
Valid prediction for snap_scaffold_8-snap.120-T1
Valid prediction for snap_scaffold_8-snap.105-T1
Valid prediction for GlimmerHMM_glimmerT_19146-T1
Valid prediction for GlimmerHMM_glimmerT_19165-T1
Valid prediction for CodingQuarry_transcript_59588-T1
Valid prediction for snap_scaffold_8-snap.95-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_8-snap.106-T1
Valid prediction for snap_scaffold_8-snap.122-T1
Valid prediction for Augustus_model.g12801.t1
Valid prediction for snap_scaffold_8-snap.86-T1
Valid prediction for snap_scaffold_8-snap.85-T1
Valid prediction for snap_scaffold_8-snap.88-T1
Valid prediction for snap_scaffold_8-snap.94-T1
Valid prediction for GlimmerHMM_glimmerT_19172-T1
Valid prediction for snap_scaffold_8-snap.97-T1
Valid prediction for Augustus_model.g12803.t1
Valid prediction for GlimmerHMM_glimmerT_19166-T1
Valid prediction for GlimmerHMM_glimmerT_19151-T1
Valid prediction for Augustus_model.g12802.t1
Valid prediction for snap_scaffold_8-snap.121-T1
Valid prediction for GlimmerHMM_glimmerT_19143-T1
Valid prediction for snap_scaffold_8-snap.112-T1
Valid prediction for snap_scaffold_8-snap.101-T1
Valid prediction for snap_scaffold_8-snap.125-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.118-T1
Valid prediction for snap_scaffold_8-snap.91-T1
Valid prediction for snap_scaffold_8-snap.129-T1
Valid prediction for snap_scaffold_8-snap.126-T1
Valid prediction for GlimmerHMM_glimmerT_19152-T1
Valid prediction for GlimmerHMM_glimmerT_19156-T1
Valid prediction for GlimmerHMM_glimmerT_19159-T1
Valid prediction for snap_scaffold_8-snap.99-T1
Valid prediction for snap_scaffold_8-snap.111-T1
Valid prediction for snap_scaffold_8-snap.123-T1
Valid prediction for snap_scaffold_8-snap.89-T1
Valid prediction for GlimmerHMM_glimmerT_19145-T1
Valid prediction for GlimmerHMM_glimmerT_19148-T1
Valid prediction for snap_scaffold_8-snap.104-T1
Valid prediction for snap_scaffold_8-snap.93-T1
Valid prediction for GlimmerHMM_glimmerT_19155-T1
Valid prediction for Augustus_model.g12804.t1
Valid prediction for snap_scaffold_8-snap.117-T1
Valid prediction for snap_scaffold_8-snap.109-T1
Valid prediction for snap_scaffold_8-snap.92-T1
Valid prediction for snap_scaffold_8-snap.127-T1
Valid prediction for Augustus_model.g12800.t1
Valid prediction for snap_scaffold_8-snap.115-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 243970, rend_intergenic: 243967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19203, rend_intergenic: 13428  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32978, rend_intergenic: 27304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52570, rend_intergenic: 34788  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67710, rend_intergenic: 56789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72295, rend_intergenic: 67953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74282, rend_intergenic: 74042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85682, rend_intergenic: 74448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88714, rend_intergenic: 86506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89460, rend_intergenic: 89223  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106471, rend_intergenic: 91606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118081, rend_intergenic: 110936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121131, rend_intergenic: 118374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125933, rend_intergenic: 122508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133935, rend_intergenic: 126215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149181, rend_intergenic: 139696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177736, rend_intergenic: 150596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187983, rend_intergenic: 183037  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215203, rend_intergenic: 190098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 216305, rend_intergenic: 215239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234196, rend_intergenic: 219102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237845, rend_intergenic: 234226  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 243970, rend_intergenic: 237972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 261440, rend_intergenic: 251804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 267195
-exon list size: 320


building trellis

0.3    
0.6    
0.9    
1.2    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.4    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
86.6    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.8    
99.1    
99.4    
99.7    
-found 34 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 243970, rend_intergenic: 243967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19203, rend_intergenic: 13428  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32978, rend_intergenic: 27304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52570, rend_intergenic: 34788  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67710, rend_intergenic: 56789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72295, rend_intergenic: 67953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74282, rend_intergenic: 74042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85682, rend_intergenic: 74448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88714, rend_intergenic: 86506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89460, rend_intergenic: 89223  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106471, rend_intergenic: 91606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118081, rend_intergenic: 110936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121131, rend_intergenic: 118374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125933, rend_intergenic: 122508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133935, rend_intergenic: 126215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149181, rend_intergenic: 139696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177736, rend_intergenic: 150596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187983, rend_intergenic: 183037  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215203, rend_intergenic: 190098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 216305, rend_intergenic: 215239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234196, rend_intergenic: 219102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237845, rend_intergenic: 234226  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 243970, rend_intergenic: 237972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 261440, rend_intergenic: 251804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 14754
-exon list size: 11


building trellis

7.7    
15.4    
23.1    
30.8    
38.5    
46.2    
53.8    
61.5    
69.2    
76.9    
84.6    
92.3    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 12691
-exon list size: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 10455
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
80.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 251824 - 267195
-exon list size: 10


building trellis

8.3    
16.7    
25.0    
33.3    
41.7    
50.0    
58.3    
66.7    
75.0    
83.3    
91.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 252850 - 267195
-exon list size: 9


building trellis

9.1    
18.2    
27.3    
36.4    
45.5    
54.5    
63.6    
72.7    
81.8    
90.9    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support