-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_11111167-11208736 -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_18-snap.2371-T1 Valid prediction for snap_scaffold_18-snap.2380-T1 Valid prediction for Augustus_model.g28726.t1 Valid prediction for GlimmerHMM_glimmerT_43112-T1 Valid prediction for GlimmerHMM_glimmerT_43114-T1 Valid prediction for snap_scaffold_18-snap.2376-T1 Valid prediction for snap_scaffold_18-snap.2361-T1 Couldn't classify 36938, 37040 Sorry, prediction pasa_asmbl_20935.p1 fails validation. (CAG) CA 36938-37040 GT GGG (AAC) AG 37677-37858 GT AGG (GTG) AG 38474-38603 GT CGG (TGT) AG 38820-38917 GT TGG (CTT) AG 39233-39371 GT TGG (AGG) AG 39457-39555 GT TGG (GTG) AG 39825-39955 GG AGG -recovered pasa_asmbl_20935.p1, terminal, 39825, 39955 -recovered pasa_asmbl_20935.p1, internal, 37677, 37858 -recovered pasa_asmbl_20935.p1, internal, 38474, 38603 -recovered pasa_asmbl_20935.p1, internal, 38820, 38917 -recovered pasa_asmbl_20935.p1, internal, 39233, 39371 -recovered pasa_asmbl_20935.p1, internal, 39457, 39555 Valid prediction for GlimmerHMM_glimmerT_43109-T1 Couldn't classify 33779, 33991 Sorry, prediction pasa_asmbl_20933.p1 fails validation. (ATG) CA 29539-29575 GT TGG (GGA) AG 29997-30049 GT AGG (GCT) AG 30241-30321 GT AGG (GGG) AG 30405-30476 GT ACG (CAA) AG 30680-30759 GT AGG (CCT) AG 30855-30930 GT ATG (ACC) AG 31376-31468 GT TGG (CAC) AG 31565-31651 GT AGG (TAC) AG 32138-32295 GT GGG (GCA) AG 32729-32862 GT TGG (TCC) AG 33233-33300 GT AGG (GTG) AG 33779-33991 GC GGG -recovered pasa_asmbl_20933.p1, initial, 29539, 29575 -recovered pasa_asmbl_20933.p1, internal, 29997, 30049 -recovered pasa_asmbl_20933.p1, internal, 30241, 30321 -recovered pasa_asmbl_20933.p1, internal, 30405, 30476 -recovered pasa_asmbl_20933.p1, internal, 30680, 30759 -recovered pasa_asmbl_20933.p1, internal, 30855, 30930 -recovered pasa_asmbl_20933.p1, internal, 31376, 31468 -recovered pasa_asmbl_20933.p1, internal, 31565, 31651 -recovered pasa_asmbl_20933.p1, internal, 32138, 32295 -recovered pasa_asmbl_20933.p1, internal, 32729, 32862 -recovered pasa_asmbl_20933.p1, internal, 33233, 33300 -recovered pasa_asmbl_20933.p1, internal, 33779, 33991 Valid prediction for GlimmerHMM_glimmerT_43104-T1 Valid prediction for snap_scaffold_18-snap.2377-T1 Valid prediction for Augustus_model.g28725.t1 Valid prediction for snap_scaffold_18-snap.2358-T1 Valid prediction for GlimmerHMM_glimmerT_43111-T1 Valid prediction for snap_scaffold_18-snap.2366-T1 Valid prediction for snap_scaffold_18-snap.2368-T1 Valid prediction for snap_scaffold_18-snap.2374-T1 Valid prediction for snap_scaffold_18-snap.2378-T1 Valid prediction for snap_scaffold_18-snap.2365-T1 Valid prediction for snap_scaffold_18-snap.2359-T1 Valid prediction for snap_scaffold_18-snap.2354-T1 Valid prediction for snap_scaffold_18-snap.2375-T1 Valid prediction for snap_scaffold_18-snap.2370-T1 Valid prediction for GlimmerHMM_glimmerT_43107-T1 Valid prediction for HiQ_model.g28727.t1 Valid prediction for snap_scaffold_18-snap.2356-T1 Valid prediction for snap_scaffold_18-snap.2362-T1 Valid prediction for GlimmerHMM_glimmerT_43103-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: -)Couldn't classify 38157, 38336 Sorry, prediction pasa_asmbl_20124.p1 fails validation. (GTG) AG 38157-38336 GT AGG (ATC) AG 38667-38754 GT AGG (GCA) AG 38848-38954 GT TGG (GGT) AG 39323-39514 GT AGG (GAC) AG 40178-40391 GT GGG (GTG) AG 40657-40868 GT AGG (ATC) AG 42054-42161 GT AGG (CTG) AG 42953-43141 GT AGG (ATG) AG 43826-44224 CA GAC -recovered pasa_asmbl_20124.p1, terminal, 43826, 44224 -recovered pasa_asmbl_20124.p1, internal, 38157, 38336 -recovered pasa_asmbl_20124.p1, internal, 38667, 38754 -recovered pasa_asmbl_20124.p1, internal, 38848, 38954 -recovered pasa_asmbl_20124.p1, internal, 39323, 39514 -recovered pasa_asmbl_20124.p1, internal, 40178, 40391 -recovered pasa_asmbl_20124.p1, internal, 40657, 40868 -recovered pasa_asmbl_20124.p1, internal, 42054, 42161 -recovered pasa_asmbl_20124.p1, internal, 42953, 43141 Valid prediction for snap_scaffold_18-snap.2355-T1 Valid prediction for snap_scaffold_18-snap.2360-T1 Couldn't classify 46513, 46839 Sorry, prediction pasa_asmbl_20213.p1 fails validation. (ATG) AT 46513-46839 CT TCC Valid prediction for snap_scaffold_18-snap.2367-T1 Valid prediction for snap_scaffold_18-snap.2379-T1 Valid prediction for Augustus_model.g28729.t1 Valid prediction for snap_scaffold_18-snap.2369-T1 Valid prediction for Augustus_model.g28730.t1 Valid prediction for GlimmerHMM_glimmerT_43106-T1 Couldn't classify 54454, 54522 Sorry, prediction pasa_asmbl_20122.p1 fails validation. (ATG) AA 51400-51477 GT CCG (AGC) AG 51730-51919 GT AGG (ACA) AG 52299-52378 GT AGG (ATT) AG 52844-52921 GT CGG (AGA) AG 53206-53342 GT AGG (GAC) AG 54049-54107 GT AGG (GTG) AG 54210-54250 GT CGG (CTA) AG 54454-54522 GG AGG -recovered pasa_asmbl_20122.p1, initial, 51400, 51477 -recovered pasa_asmbl_20122.p1, internal, 51730, 51919 -recovered pasa_asmbl_20122.p1, internal, 52299, 52378 -recovered pasa_asmbl_20122.p1, internal, 52844, 52921 -recovered pasa_asmbl_20122.p1, internal, 53206, 53342 -recovered pasa_asmbl_20122.p1, internal, 54049, 54107 -recovered pasa_asmbl_20122.p1, internal, 54210, 54250 Valid prediction for Augustus_model.g28728.t1 Valid prediction for snap_scaffold_18-snap.2357-T1 Valid prediction for snap_scaffold_18-snap.2363-T1 Couldn't classify 30510, 30543 Couldn't classify 37202, 37265 Sorry, prediction pasa_asmbl_20125.p1 fails validation. (AAA) AT 30510-30543 GT AGG (ATA) AG 33283-33438 GT AGG (GTC) AG 33867-34081 GT AGG (AAA) AG 34536-34778 GT TGG (TCC) AG 35203-35444 GT AAG (GTG) AG 37202-37265 AT ACA -recovered pasa_asmbl_20125.p1, internal, 33283, 33438 -recovered pasa_asmbl_20125.p1, internal, 33867, 34081 -recovered pasa_asmbl_20125.p1, internal, 34536, 34778 -recovered pasa_asmbl_20125.p1, internal, 35203, 35444 Valid prediction for snap_scaffold_18-snap.2364-T1 Valid prediction for CodingQuarry_transcript_23901-T1 Valid prediction for GlimmerHMM_glimmerT_43113-T1 Valid prediction for GlimmerHMM_glimmerT_43105-T1 Valid prediction for GlimmerHMM_glimmerT_43108-T1 Valid prediction for GlimmerHMM_glimmerT_43110-T1 Couldn't classify 26169, 26367 Couldn't classify 27534, 27658 Sorry, prediction pasa_asmbl_20126.p1 fails validation. (GGT) CA 26169-26367 GT TCG (ACT) AG 26795-27052 GT TGG (GTG) AG 27534-27658 GG CAG -recovered pasa_asmbl_20126.p1, internal, 26795, 27052 Valid prediction for snap_scaffold_18-snap.2373-T1 Valid prediction for snap_scaffold_18-snap.2372-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7749, rend_intergenic: 7552 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 10004, rend_intergenic: 8171 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 26707, rend_intergenic: 25595 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 34987, rend_intergenic: 30700 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 37894, rend_intergenic: 35408 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 45805, rend_intergenic: 43811 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 55736, rend_intergenic: 50290 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57098, rend_intergenic: 55949 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 78622, rend_intergenic: 57233 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93814, rend_intergenic: 91919 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 97570 -exon list size: 251 building trellis 0.4 0.8 1.2 1.6 2.0 2.4 2.8 3.2 3.6 4.0 4.3 4.7 5.1 5.5 5.9 6.3 6.7 7.1 7.5 7.9 8.3 8.7 9.1 9.5 9.9 10.3 10.7 11.1 11.5 11.9 12.3 12.6 13.0 13.4 13.8 14.2 14.6 15.0 15.4 15.8 16.2 16.6 17.0 17.4 17.8 18.2 18.6 19.0 19.4 19.8 20.2 20.6 20.9 21.3 21.7 22.1 22.5 22.9 23.3 23.7 24.1 24.5 24.9 25.3 25.7 26.1 26.5 26.9 27.3 27.7 28.1 28.5 28.9 29.2 29.6 30.0 30.4 30.8 31.2 31.6 32.0 32.4 32.8 33.2 33.6 34.0 34.4 34.8 35.2 35.6 36.0 36.4 36.8 37.2 37.5 37.9 38.3 38.7 39.1 39.5 39.9 40.3 40.7 41.1 41.5 41.9 42.3 42.7 43.1 43.5 43.9 44.3 44.7 45.1 45.5 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 54.5 54.9 55.3 55.7 56.1 56.5 56.9 57.3 57.7 58.1 58.5 58.9 59.3 59.7 60.1 60.5 60.9 61.3 61.7 62.1 62.5 62.8 63.2 63.6 64.0 64.4 64.8 65.2 65.6 66.0 66.4 66.8 67.2 67.6 68.0 68.4 68.8 69.2 69.6 70.0 70.4 70.8 71.1 71.5 71.9 72.3 72.7 73.1 73.5 73.9 74.3 74.7 75.1 75.5 75.9 76.3 76.7 77.1 77.5 77.9 78.3 78.7 79.1 79.4 79.8 80.2 80.6 81.0 81.4 81.8 82.2 82.6 83.0 83.4 83.8 84.2 84.6 85.0 85.4 85.8 86.2 86.6 87.0 87.4 87.7 88.1 88.5 88.9 89.3 89.7 90.1 90.5 90.9 91.3 91.7 92.1 92.5 92.9 93.3 93.7 94.1 94.5 94.9 95.3 95.7 96.0 96.4 96.8 97.2 97.6 98.0 98.4 98.8 99.2 99.6 -found 14 predictions from path traversal Error with prediction: snap lend_intergenic: 7749, rend_intergenic: 7552 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 10004, rend_intergenic: 8171 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 26707, rend_intergenic: 25595 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 34987, rend_intergenic: 30700 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 37894, rend_intergenic: 35408 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 45805, rend_intergenic: 43811 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 55736, rend_intergenic: 50290 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57098, rend_intergenic: 55949 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 78622, rend_intergenic: 57233 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93814, rend_intergenic: 91919 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 -building DP trellis -building trellis in range 1 - 15145 -exon list size: 19 building trellis 4.8 9.5 14.3 19.0 23.8 28.6 33.3 38.1 42.9 47.6 52.4 57.1 61.9 66.7 71.4 76.2 81.0 85.7 90.5 95.2 -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