-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_18622428-18765656 -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_2502-T1 Valid prediction for Augustus_model.g1823.t1 Valid prediction for snap_scaffold_1-snap.3429-T1 Valid prediction for snap_scaffold_1-snap.3424-T1 Valid prediction for GlimmerHMM_glimmerT_2509-T1 Valid prediction for snap_scaffold_1-snap.3441-T1 Valid prediction for GlimmerHMM_glimmerT_2499-T1 Valid prediction for snap_scaffold_1-snap.3423-T1 Valid prediction for GlimmerHMM_glimmerT_2510-T1 Valid prediction for snap_scaffold_1-snap.3411-T1 Valid prediction for snap_scaffold_1-snap.3438-T1 Valid prediction for snap_scaffold_1-snap.3418-T1 Valid prediction for snap_scaffold_1-snap.3431-T1 Couldn't classify 100232, 100352 Sorry, prediction pasa_asmbl_2836.p1 fails validation. (GTG) AG 100232-100352 GT AGG (AGA) AG 101399-101529 GT AGG (GAG) AG 102636-102809 GG GAG -recovered pasa_asmbl_2836.p1, terminal, 100232, 100352 -recovered pasa_asmbl_2836.p1, terminal, 102636, 102809 -recovered pasa_asmbl_2836.p1, internal, 100232, 100352 -recovered pasa_asmbl_2836.p1, internal, 101399, 101529 Valid prediction for snap_scaffold_1-snap.3416-T1 Valid prediction for GlimmerHMM_glimmerT_2504-T1 Valid prediction for snap_scaffold_1-snap.3444-T1 Couldn't classify 135401, 135418 Sorry, prediction pasa_asmbl_2568.p1 fails validation. (ATT) TA 135401-135418 GT TGG (ATA) AG 135884-136043 GT AGG (AGT) AG 136305-136359 GT AGG (GTA) AG 136638-136753 GT AGG (TGA) AG 139056-139138 GT AGG -recovered pasa_asmbl_2568.p1, terminal, 139056, 139138 -recovered pasa_asmbl_2568.p1, internal, 135884, 136043 -recovered pasa_asmbl_2568.p1, internal, 136305, 136359 -recovered pasa_asmbl_2568.p1, internal, 136638, 136753 -recovered pasa_asmbl_2568.p1, internal, 139056, 139138 Valid prediction for Augustus_model.g1824.t1 Valid prediction for snap_scaffold_1-snap.3414-T1 Valid prediction for snap_scaffold_1-snap.3436-T1 Valid prediction for Augustus_model.g1822.t1 Valid prediction for GlimmerHMM_glimmerT_2503-T1 Valid prediction for Augustus_model.g1820.t1 Valid prediction for GlimmerHMM_glimmerT_2496-T1 Valid prediction for snap_scaffold_1-snap.3434-T1 Valid prediction for snap_scaffold_1-snap.3427-T1 Valid prediction for snap_scaffold_1-snap.3421-T1 Valid prediction for CodingQuarry_transcript_3002-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.3432-T1 Valid prediction for GlimmerHMM_glimmerT_2507-T1 Couldn't classify 22527, 22691 Couldn't classify 26521, 26586 Sorry, prediction pasa_asmbl_1125.p1 fails validation. (AGA) AC 22527-22691 GT AGG (GTG) AG 22942-23093 GT AGG (GAT) AG 24380-24527 GT AGG (GTG) AG 26521-26586 CT TGC -recovered pasa_asmbl_1125.p1, internal, 22942, 23093 -recovered pasa_asmbl_1125.p1, internal, 24380, 24527 Valid prediction for snap_scaffold_1-snap.3420-T1 Valid prediction for GlimmerHMM_glimmerT_2506-T1 Valid prediction for GlimmerHMM_glimmerT_2508-T1 Valid prediction for snap_scaffold_1-snap.3428-T1 Valid prediction for snap_scaffold_1-snap.3419-T1 Couldn't classify 22521, 22691 Couldn't classify 23450, 23516 Sorry, prediction pasa_asmbl_1127.p1 fails validation. (TCC) TG 22521-22691 GT AGG (GTG) AG 22942-23093 GT AGG (ACT) AG 23450-23516 AA TGA -recovered pasa_asmbl_1127.p1, internal, 22942, 23093 Valid prediction for GlimmerHMM_glimmerT_2497-T1 Valid prediction for Augustus_model.g1821.t1 Valid prediction for snap_scaffold_1-snap.3435-T1 Valid prediction for snap_scaffold_1-snap.3413-T1 Valid prediction for snap_scaffold_1-snap.3443-T1 Valid prediction for snap_scaffold_1-snap.3430-T1 Valid prediction for snap_scaffold_1-snap.3412-T1 Valid prediction for GlimmerHMM_glimmerT_2500-T1 Valid prediction for GlimmerHMM_glimmerT_2498-T1 Valid prediction for Augustus_model.g1825.t1 Valid prediction for snap_scaffold_1-snap.3439-T1 Valid prediction for snap_scaffold_1-snap.3422-T1 Valid prediction for snap_scaffold_1-snap.3433-T1 Valid prediction for snap_scaffold_1-snap.3442-T1 Valid prediction for Augustus_model.g1826.t1 Valid prediction for snap_scaffold_1-snap.3415-T1 Valid prediction for snap_scaffold_1-snap.3425-T1 Couldn't classify 28471, 28516 Sorry, prediction pasa_asmbl_1124.p1 fails validation. (GAG) AT 28471-28516 GT AGG (GTC) AG 29431-29529 GT GGG (GCT) AG 31940-32048 GT AGG (GTC) AG 32268-32385 GT AGG (GGC) AG 32655-32846 GT AGG (GTA) AG 32993-33064 GT AGG (GTG) AG 33228-33353 GT AGG (AGG) AG 33627-33715 GT AAG (GTT) AG 33970-34103 GT CTG (GTG) AG 34651-34712 CC AGC -recovered pasa_asmbl_1124.p1, terminal, 34651, 34712 -recovered pasa_asmbl_1124.p1, internal, 29431, 29529 -recovered pasa_asmbl_1124.p1, internal, 31940, 32048 -recovered pasa_asmbl_1124.p1, internal, 32268, 32385 -recovered pasa_asmbl_1124.p1, internal, 32655, 32846 -recovered pasa_asmbl_1124.p1, internal, 32993, 33064 -recovered pasa_asmbl_1124.p1, internal, 33228, 33353 -recovered pasa_asmbl_1124.p1, internal, 33627, 33715 -recovered pasa_asmbl_1124.p1, internal, 33970, 34103 Valid prediction for snap_scaffold_1-snap.3437-T1 Valid prediction for snap_scaffold_1-snap.3440-T1 Valid prediction for snap_scaffold_1-snap.3417-T1 Valid prediction for GlimmerHMM_glimmerT_2501-T1 Couldn't classify 11892, 12098 Sorry, prediction pasa_asmbl_1130.p1 fails validation. (ATT) AG 11892-12098 GT CTG (GTT) AG 12691-12770 GT TGG (GAA) AG 13058-13136 GT AGG (GTG) AG 13669-13740 GT ACG (AAT) AG 13850-13912 GT AGG (ACG) AG 14438-14578 AG AGA -recovered pasa_asmbl_1130.p1, terminal, 14438, 14578 -recovered pasa_asmbl_1130.p1, internal, 11892, 12098 -recovered pasa_asmbl_1130.p1, internal, 12691, 12770 -recovered pasa_asmbl_1130.p1, internal, 13058, 13136 -recovered pasa_asmbl_1130.p1, internal, 13669, 13740 -recovered pasa_asmbl_1130.p1, internal, 13850, 13912 Valid prediction for snap_scaffold_1-snap.3426-T1 Valid prediction for GlimmerHMM_glimmerT_2505-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10851, rend_intergenic: 7744 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 11221, rend_intergenic: 10991 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 13695, rend_intergenic: 11690 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 17735, rend_intergenic: 16051 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 20665, rend_intergenic: 18540 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 22957, rend_intergenic: 20924 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 40866, rend_intergenic: 27114 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 43921, rend_intergenic: 41250 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 51635, rend_intergenic: 48557 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 89013, rend_intergenic: 77313 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 98254, rend_intergenic: 94395 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 102809, rend_intergenic: 100173 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 110599, rend_intergenic: 108518 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 125622, rend_intergenic: 122466 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 140027, rend_intergenic: 135519 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 143229 -exon list size: 230 building trellis 0.4 0.9 1.3 1.7 2.2 2.6 3.0 3.4 3.9 4.3 4.7 5.2 5.6 6.0 6.5 6.9 7.3 7.8 8.2 8.6 9.1 9.5 9.9 10.3 10.8 11.2 11.6 12.1 12.5 12.9 13.4 13.8 14.2 14.7 15.1 15.5 15.9 16.4 16.8 17.2 17.7 18.1 18.5 19.0 19.4 19.8 20.3 20.7 21.1 21.6 22.0 22.4 22.8 23.3 23.7 24.1 24.6 25.0 25.4 25.9 26.3 26.7 27.2 27.6 28.0 28.4 28.9 29.3 29.7 30.2 30.6 31.0 31.5 31.9 32.3 32.8 33.2 33.6 34.1 34.5 34.9 35.3 35.8 36.2 36.6 37.1 37.5 37.9 38.4 38.8 39.2 39.7 40.1 40.5 40.9 41.4 41.8 42.2 42.7 43.1 43.5 44.0 44.4 44.8 45.3 45.7 46.1 46.6 47.0 47.4 47.8 48.3 48.7 49.1 49.6 50.0 50.4 50.9 51.3 51.7 52.2 52.6 53.0 53.4 53.9 54.3 54.7 55.2 55.6 56.0 56.5 56.9 57.3 57.8 58.2 58.6 59.1 59.5 59.9 60.3 60.8 61.2 61.6 62.1 62.5 62.9 63.4 63.8 64.2 64.7 65.1 65.5 65.9 66.4 66.8 67.2 67.7 68.1 68.5 69.0 69.4 69.8 70.3 70.7 71.1 71.6 72.0 72.4 72.8 73.3 73.7 74.1 74.6 75.0 75.4 75.9 76.3 76.7 77.2 77.6 78.0 78.4 78.9 79.3 79.7 80.2 80.6 81.0 81.5 81.9 82.3 82.8 83.2 83.6 84.1 84.5 84.9 85.3 85.8 86.2 86.6 87.1 87.5 87.9 88.4 88.8 89.2 89.7 90.1 90.5 90.9 91.4 91.8 92.2 92.7 93.1 93.5 94.0 94.4 94.8 95.3 95.7 96.1 96.6 97.0 97.4 97.8 98.3 98.7 99.1 99.6 -found 17 predictions from path traversal Error with prediction: snap lend_intergenic: 10851, rend_intergenic: 7744 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 11221, rend_intergenic: 10991 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 13695, rend_intergenic: 11690 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 17735, rend_intergenic: 16051 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 20665, rend_intergenic: 18540 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 22957, rend_intergenic: 20924 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 40866, rend_intergenic: 27114 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 43921, rend_intergenic: 41250 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 51635, rend_intergenic: 48557 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 89013, rend_intergenic: 77313 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 98254, rend_intergenic: 94395 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 102809, rend_intergenic: 100173 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 110599, rend_intergenic: 108518 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 125622, rend_intergenic: 122466 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 140027, rend_intergenic: 135519 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 10 predictions persist after filtering for low support