-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_9/scaffold_9_3044192-3237356 -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_21822-T1 Valid prediction for GlimmerHMM_glimmerT_21814-T1 Valid prediction for Augustus_model.g14521.t1 Valid prediction for GlimmerHMM_glimmerT_21817-T1 Valid prediction for snap_scaffold_9-snap.648-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for GlimmerHMM_glimmerT_21834-T1 Couldn't classify 88123, 88880 Couldn't classify 89125, 89215 Sorry, prediction pasa_asmbl_53877.p1 fails validation. (GAG) CG 88123-88880 GT AGG (CAG) AG 89125-89215 GT AGG -recovered pasa_asmbl_53877.p1, internal, 89125, 89215 Valid prediction for GlimmerHMM_glimmerT_21824-T1 Valid prediction for snap_scaffold_9-snap.640-T1 Valid prediction for CodingQuarry_transcript_62130-T1 Valid prediction for snap_scaffold_9-snap.643-T1 Valid prediction for snap_scaffold_9-snap.661-T1 Valid prediction for Augustus_model.g14509.t1 Valid prediction for Augustus_model.g14510.t1 Valid prediction for snap_scaffold_9-snap.651-T1 Valid prediction for snap_scaffold_9-snap.660-T1 Valid prediction for snap_scaffold_9-snap.670-T1 Valid prediction for GlimmerHMM_glimmerT_21833-T1 Valid prediction for GlimmerHMM_glimmerT_21816-T1 Valid prediction for snap_scaffold_9-snap.645-T1 Valid prediction for snap_scaffold_9-snap.653-T1 Valid prediction for GlimmerHMM_glimmerT_21828-T1 Valid prediction for snap_scaffold_9-snap.637-T1 Valid prediction for snap_scaffold_9-snap.674-T1 Valid prediction for HiQ_model.g14511.t1 Valid prediction for GlimmerHMM_glimmerT_21811-T1 Valid prediction for CodingQuarry_transcript_62129-T1 Valid prediction for GlimmerHMM_glimmerT_21809-T1 Valid prediction for snap_scaffold_9-snap.664-T1 Valid prediction for GlimmerHMM_glimmerT_21815-T1 Valid prediction for Augustus_model.g14518.t1 Couldn't classify 84073, 84102 Sorry, prediction pasa_asmbl_53876.p1 fails validation. (ATG) CC 81454-81472 GT CGG (AGG) AG 81798-82011 GT AGG (CCT) AG 82150-82297 GT AGG (GTG) AG 84073-84102 CA GGC -recovered pasa_asmbl_53876.p1, initial, 81454, 81472 -recovered pasa_asmbl_53876.p1, internal, 81798, 82011 -recovered pasa_asmbl_53876.p1, internal, 82150, 82297 Valid prediction for snap_scaffold_9-snap.629-T1 Valid prediction for GlimmerHMM_glimmerT_21826-T1 Valid prediction for snap_scaffold_9-snap.662-T1 Valid prediction for Augustus_model.g14512.t1 Couldn't classify 105039, 105298 Sorry, prediction pasa_asmbl_53879.p1 fails validation. (GGT) GT 105039-105298 GT AGG (CAG) AG 105451-105631 GT AGG (GCC) AG 105984-106118 TA GAT -recovered pasa_asmbl_53879.p1, terminal, 105984, 106118 -recovered pasa_asmbl_53879.p1, internal, 105451, 105631 Valid prediction for snap_scaffold_9-snap.647-T1 Valid prediction for snap_scaffold_9-snap.634-T1 Valid prediction for snap_scaffold_9-snap.656-T1 Valid prediction for pasa_asmbl_53882.p1 Valid prediction for GlimmerHMM_glimmerT_21810-T1 Valid prediction for Augustus_model.g14506.t1 Valid prediction for snap_scaffold_9-snap.636-T1 Valid prediction for GlimmerHMM_glimmerT_21808-T1 Valid prediction for snap_scaffold_9-snap.658-T1 Valid prediction for snap_scaffold_9-snap.667-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_21830-T1 Valid prediction for snap_scaffold_9-snap.663-T1 Valid prediction for snap_scaffold_9-snap.641-T1 Valid prediction for snap_scaffold_9-snap.671-T1 Valid prediction for GlimmerHMM_glimmerT_21820-T1 Valid prediction for snap_scaffold_9-snap.649-T1 Valid prediction for snap_scaffold_9-snap.644-T1 Valid prediction for snap_scaffold_9-snap.642-T1 Valid prediction for snap_scaffold_9-snap.673-T1 Valid prediction for Augustus_model.g14508.t1 Valid prediction for snap_scaffold_9-snap.672-T1 Valid prediction for GlimmerHMM_glimmerT_21831-T1 Valid prediction for GlimmerHMM_glimmerT_21818-T1 Valid prediction for GlimmerHMM_glimmerT_21813-T1 Valid prediction for snap_scaffold_9-snap.666-T1 Valid prediction for snap_scaffold_9-snap.665-T1 Valid prediction for GlimmerHMM_glimmerT_21827-T1 Valid prediction for Augustus_model.g14515.t1 Valid prediction for GlimmerHMM_glimmerT_21832-T1 Valid prediction for snap_scaffold_9-snap.654-T1 Valid prediction for Augustus_model.g14504.t1 Valid prediction for snap_scaffold_9-snap.655-T1 Valid prediction for Augustus_model.g14519.t1 Valid prediction for snap_scaffold_9-snap.646-T1 Valid prediction for Augustus_model.g14505.t1 Valid prediction for Augustus_model.g14514.t1 Valid prediction for snap_scaffold_9-snap.638-T1 Valid prediction for Augustus_model.g14520.t1 Valid prediction for snap_scaffold_9-snap.652-T1 Valid prediction for snap_scaffold_9-snap.631-T1 Valid prediction for Augustus_model.g14517.t1 Valid prediction for Augustus_model.g14507.t1 Valid prediction for GlimmerHMM_glimmerT_21812-T1 Valid prediction for GlimmerHMM_glimmerT_21829-T1 Valid prediction for snap_scaffold_9-snap.639-T1 Valid prediction for GlimmerHMM_glimmerT_21821-T1 Valid prediction for Augustus_model.g14516.t1 Valid prediction for snap_scaffold_9-snap.669-T1 Valid prediction for GlimmerHMM_glimmerT_21819-T1 Valid prediction for Augustus_model.g14513.t1 Valid prediction for snap_scaffold_9-snap.659-T1 Valid prediction for snap_scaffold_9-snap.632-T1 Valid prediction for snap_scaffold_9-snap.633-T1 Valid prediction for snap_scaffold_9-snap.635-T1 Valid prediction for snap_scaffold_9-snap.657-T1 Couldn't classify 73845, 73953 Couldn't classify 74812, 74912 Sorry, prediction pasa_asmbl_55795.p1 fails validation. (GGC) AT 73845-73953 GT AGG (CTT) AG 74429-74557 GT CCG (AGT) AG 74812-74912 GG CTG -recovered pasa_asmbl_55795.p1, internal, 74429, 74557 Valid prediction for snap_scaffold_9-snap.668-T1 Valid prediction for GlimmerHMM_glimmerT_21825-T1 Valid prediction for GlimmerHMM_glimmerT_21836-T1 Valid prediction for snap_scaffold_9-snap.650-T1 Valid prediction for GlimmerHMM_glimmerT_21835-T1 Valid prediction for snap_scaffold_9-snap.630-T1 Valid prediction for GlimmerHMM_glimmerT_21823-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10548, rend_intergenic: 4247 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 14924, rend_intergenic: 11783 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 23989, rend_intergenic: 15362 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 37601, rend_intergenic: 24335 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 41722, rend_intergenic: 38048 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57127, rend_intergenic: 41905 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 58682, rend_intergenic: 57224 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 67684, rend_intergenic: 59862 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 77302, rend_intergenic: 77094 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 82107, rend_intergenic: 78718 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 89794, rend_intergenic: 82125 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 97641, rend_intergenic: 90783 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 97993, rend_intergenic: 97641 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 103516, rend_intergenic: 98216 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 122655, rend_intergenic: 107761 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 123044, rend_intergenic: 122956 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 127140, rend_intergenic: 124542 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134436, rend_intergenic: 129339 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 139161, rend_intergenic: 134464 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 164049, rend_intergenic: 161962 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 174326, rend_intergenic: 164806 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 189397, rend_intergenic: 175577 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 191348, rend_intergenic: 190065 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 193165 -exon list size: 432 building trellis 0.2 0.5 0.7 0.9 1.2 1.4 1.6 1.8 2.1 2.3 2.5 2.8 3.0 3.2 3.5 3.7 3.9 4.1 4.4 4.6 4.8 5.1 5.3 5.5 5.8 6.0 6.2 6.5 6.7 6.9 7.1 7.4 7.6 7.8 8.1 8.3 8.5 8.8 9.0 9.2 9.4 9.7 9.9 10.1 10.4 10.6 10.8 11.1 11.3 11.5 11.8 12.0 12.2 12.4 12.7 12.9 13.1 13.4 13.6 13.8 14.1 14.3 14.5 14.7 15.0 15.2 15.4 15.7 15.9 16.1 16.4 16.6 16.8 17.1 17.3 17.5 17.7 18.0 18.2 18.4 18.7 18.9 19.1 19.4 19.6 19.8 20.0 20.3 20.5 20.7 21.0 21.2 21.4 21.7 21.9 22.1 22.4 22.6 22.8 23.0 23.3 23.5 23.7 24.0 24.2 24.4 24.7 24.9 25.1 25.3 25.6 25.8 26.0 26.3 26.5 26.7 27.0 27.2 27.4 27.6 27.9 28.1 28.3 28.6 28.8 29.0 29.3 29.5 29.7 30.0 30.2 30.4 30.6 30.9 31.1 31.3 31.6 31.8 32.0 32.3 32.5 32.7 32.9 33.2 33.4 33.6 33.9 34.1 34.3 34.6 34.8 35.0 35.3 35.5 35.7 35.9 36.2 36.4 36.6 36.9 37.1 37.3 37.6 37.8 38.0 38.2 38.5 38.7 38.9 39.2 39.4 39.6 39.9 40.1 40.3 40.6 40.8 41.0 41.2 41.5 41.7 41.9 42.2 42.4 42.6 42.9 43.1 43.3 43.5 43.8 44.0 44.2 44.5 44.7 44.9 45.2 45.4 45.6 45.9 46.1 46.3 46.5 46.8 47.0 47.2 47.5 47.7 47.9 48.2 48.4 48.6 48.8 49.1 49.3 49.5 49.8 50.0 50.2 50.5 50.7 50.9 51.2 51.4 51.6 51.8 52.1 52.3 52.5 52.8 53.0 53.2 53.5 53.7 53.9 54.1 54.4 54.6 54.8 55.1 55.3 55.5 55.8 56.0 56.2 56.5 56.7 56.9 57.1 57.4 57.6 57.8 58.1 58.3 58.5 58.8 59.0 59.2 59.4 59.7 59.9 60.1 60.4 60.6 60.8 61.1 61.3 61.5 61.8 62.0 62.2 62.4 62.7 62.9 63.1 63.4 63.6 63.8 64.1 64.3 64.5 64.7 65.0 65.2 65.4 65.7 65.9 66.1 66.4 66.6 66.8 67.1 67.3 67.5 67.7 68.0 68.2 68.4 68.7 68.9 69.1 69.4 69.6 69.8 70.0 70.3 70.5 70.7 71.0 71.2 71.4 71.7 71.9 72.1 72.4 72.6 72.8 73.0 73.3 73.5 73.7 74.0 74.2 74.4 74.7 74.9 75.1 75.3 75.6 75.8 76.0 76.3 76.5 76.7 77.0 77.2 77.4 77.6 77.9 78.1 78.3 78.6 78.8 79.0 79.3 79.5 79.7 80.0 80.2 80.4 80.6 80.9 81.1 81.3 81.6 81.8 82.0 82.3 82.5 82.7 82.9 83.2 83.4 83.6 83.9 84.1 84.3 84.6 84.8 85.0 85.3 85.5 85.7 85.9 86.2 86.4 86.6 86.9 87.1 87.3 87.6 87.8 88.0 88.2 88.5 88.7 88.9 89.2 89.4 89.6 89.9 90.1 90.3 90.6 90.8 91.0 91.2 91.5 91.7 91.9 92.2 92.4 92.6 92.9 93.1 93.3 93.5 93.8 94.0 94.2 94.5 94.7 94.9 95.2 95.4 95.6 95.9 96.1 96.3 96.5 96.8 97.0 97.2 97.5 97.7 97.9 98.2 98.4 98.6 98.8 99.1 99.3 99.5 99.8 -found 33 predictions from path traversal Error with prediction: snap lend_intergenic: 10548, rend_intergenic: 4247 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 14924, rend_intergenic: 11783 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 23989, rend_intergenic: 15362 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 37601, rend_intergenic: 24335 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 41722, rend_intergenic: 38048 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57127, rend_intergenic: 41905 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 58682, rend_intergenic: 57224 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 67684, rend_intergenic: 59862 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 77302, rend_intergenic: 77094 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 82107, rend_intergenic: 78718 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 89794, rend_intergenic: 82125 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 97641, rend_intergenic: 90783 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 97993, rend_intergenic: 97641 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 103516, rend_intergenic: 98216 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 122655, rend_intergenic: 107761 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 123044, rend_intergenic: 122956 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 127140, rend_intergenic: 124542 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134436, rend_intergenic: 129339 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 139161, rend_intergenic: 134464 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 164049, rend_intergenic: 161962 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 174326, rend_intergenic: 164806 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 189397, rend_intergenic: 175577 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 191348, rend_intergenic: 190065 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