-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_11712774-11988904 -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 Augustus_model.g19925.t1 Valid prediction for snap_scaffold_12-snap.2183-T1 Valid prediction for GlimmerHMM_glimmerT_30102-T1 Couldn't classify 85441, 87204 Sorry, prediction pasa_asmbl_7966.p1 fails validation. (CAT) GA 85441-87204 GG AGG Valid prediction for snap_scaffold_12-snap.2158-T1 Valid prediction for GlimmerHMM_glimmerT_30097-T1 Valid prediction for snap_scaffold_12-snap.2175-T1 Valid prediction for GlimmerHMM_glimmerT_30111-T1 Valid prediction for HiQ_model.g19936.t1 Valid prediction for GlimmerHMM_glimmerT_30110-T1 Valid prediction for snap_scaffold_12-snap.2177-T1 Valid prediction for GlimmerHMM_glimmerT_30114-T1 Valid prediction for GlimmerHMM_glimmerT_30101-T1 Valid prediction for GlimmerHMM_glimmerT_30107-T1 Valid prediction for GlimmerHMM_glimmerT_30112-T1 Valid prediction for GlimmerHMM_glimmerT_30120-T1 Valid prediction for snap_scaffold_12-snap.2171-T1 Valid prediction for GlimmerHMM_glimmerT_30104-T1 Valid prediction for snap_scaffold_12-snap.2166-T1 Valid prediction for snap_scaffold_12-snap.2174-T1 Valid prediction for GlimmerHMM_glimmerT_30099-T1 Valid prediction for snap_scaffold_12-snap.2185-T1 Valid prediction for snap_scaffold_12-snap.2191-T1 Valid prediction for snap_scaffold_12-snap.2180-T1 Valid prediction for Augustus_model.g19928.t1 Valid prediction for GlimmerHMM_glimmerT_30117-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 Augustus_model.g19932.t1 Valid prediction for snap_scaffold_12-snap.2187-T1 Valid prediction for snap_scaffold_12-snap.2173-T1 Valid prediction for GlimmerHMM_glimmerT_30124-T1 Valid prediction for CodingQuarry_transcript_10397-T1 Valid prediction for snap_scaffold_12-snap.2161-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for GlimmerHMM_glimmerT_30096-T1 Couldn't classify 31189, 31214 Couldn't classify 31668, 31843 Sorry, prediction pasa_asmbl_9163.p1 fails validation. (AAC) GA 31189-31214 GT CAG (GTC) AG 31348-31538 GT AGG (CCT) AG 31668-31843 GG AGG -recovered pasa_asmbl_9163.p1, internal, 31348, 31538 Valid prediction for Augustus_model.g19933.t1 Couldn't classify 33115, 33155 Couldn't classify 33482, 33751 Sorry, prediction pasa_asmbl_8841.p1 fails validation. (AAG) AA 33115-33155 GT AGG (GAA) AG 33278-33341 GT AAG (GAG) AG 33482-33751 CG AGC -recovered pasa_asmbl_8841.p1, internal, 33278, 33341 Valid prediction for GlimmerHMM_glimmerT_30122-T1 Valid prediction for GlimmerHMM_glimmerT_30106-T1 Valid prediction for snap_scaffold_12-snap.2170-T1 Valid prediction for GlimmerHMM_glimmerT_30119-T1 Valid prediction for GlimmerHMM_glimmerT_30118-T1 Valid prediction for GlimmerHMM_glimmerT_30123-T1 Valid prediction for snap_scaffold_12-snap.2172-T1 Valid prediction for snap_scaffold_12-snap.2160-T1 Valid prediction for Augustus_model.g19919.t1 Valid prediction for snap_scaffold_12-snap.2181-T1 Valid prediction for Augustus_model.g19930.t1 Couldn't classify 242738, 242769 Couldn't classify 245059, 245223 Sorry, prediction pasa_asmbl_8829.p1 fails validation. (CTC) AC 242738-242769 GT AGG (TGA) AG 244009-244078 GT AGG (GGG) AG 244173-244300 GT AGG (CAC) AG 244752-244863 GT AGG (AAC) AG 245059-245223 TG ACT -recovered pasa_asmbl_8829.p1, internal, 244009, 244078 -recovered pasa_asmbl_8829.p1, internal, 244173, 244300 -recovered pasa_asmbl_8829.p1, internal, 244752, 244863 Couldn't classify 55969, 56065 Couldn't classify 60885, 61013 Sorry, prediction pasa_asmbl_8837.p1 fails validation. (ACG) AG 55969-56065 GT AGG (GCA) AG 58842-58930 GT AGG (GGG) AG 60885-61013 AG AGA -recovered pasa_asmbl_8837.p1, internal, 55969, 56065 -recovered pasa_asmbl_8837.p1, internal, 58842, 58930 Valid prediction for Augustus_model.g19918.t1 Valid prediction for snap_scaffold_12-snap.2176-T1 Valid prediction for GlimmerHMM_glimmerT_30115-T1 Valid prediction for CodingQuarry_transcript_10399-T1 Couldn't classify 272746, 272918 Couldn't classify 275966, 276061 Sorry, prediction pasa_asmbl_8827.p1 fails validation. (GCC) AG 272746-272918 GT AGG (GGT) AG 274085-274268 GT AGG (TTC) AG 275966-276061 CT TCC -recovered pasa_asmbl_8827.p1, internal, 272746, 272918 -recovered pasa_asmbl_8827.p1, internal, 274085, 274268 Valid prediction for snap_scaffold_12-snap.2159-T1 Valid prediction for snap_scaffold_12-snap.2186-T1 Valid prediction for GlimmerHMM_glimmerT_30105-T1 Valid prediction for snap_scaffold_12-snap.2167-T1 Valid prediction for snap_scaffold_12-snap.2162-T1 Valid prediction for Augustus_model.g19922.t1 Couldn't classify 192980, 193132 Sorry, prediction pasa_asmbl_8832.p1 fails validation. (GTT) AA 192980-193132 GT GCG (GTC) AG 193708-193734 GT AGG (GTT) AG 194025-194113 GT GAG (AAC) AG 194637-194706 GT AGG (GCA) AG 194912-195059 GT AGG (GGG) AG 195180-195234 GT AAG (GCG) AG 195425-195524 GT GGG (GTG) AG 195678-195764 GT AGG (GTG) AG 195958-196125 GT TGG (GGT) AG 196373-196484 GT TGG (TGG) AG 196594-196725 GT AGG (AGG) AG 196953-197086 GT AGG (GTG) AG 197241-197390 CC AGC add_exon() Sorry, pasa_asmbl_8832.p1 195180-195234-terminal-3 is invalid. -recovered pasa_asmbl_8832.p1, terminal, 195180, 195234 -recovered pasa_asmbl_8832.p1, terminal, 197241, 197390 -recovered pasa_asmbl_8832.p1, internal, 193708, 193734 -recovered pasa_asmbl_8832.p1, internal, 194025, 194113 -recovered pasa_asmbl_8832.p1, internal, 194637, 194706 -recovered pasa_asmbl_8832.p1, internal, 194912, 195059 -recovered pasa_asmbl_8832.p1, internal, 195180, 195234 -recovered pasa_asmbl_8832.p1, internal, 195425, 195524 -recovered pasa_asmbl_8832.p1, internal, 195678, 195764 -recovered pasa_asmbl_8832.p1, internal, 195958, 196125 -recovered pasa_asmbl_8832.p1, internal, 196373, 196484 -recovered pasa_asmbl_8832.p1, internal, 196594, 196725 -recovered pasa_asmbl_8832.p1, internal, 196953, 197086 Valid prediction for Augustus_model.g19923.t1 Valid prediction for GlimmerHMM_glimmerT_30116-T1 Valid prediction for Augustus_model.g19921.t1 Valid prediction for GlimmerHMM_glimmerT_30109-T1 Valid prediction for Augustus_model.g19924.t1 Valid prediction for HiQ_model.g19927.t1 Valid prediction for Augustus_model.g19931.t1 Valid prediction for Augustus_model.g19935.t1 Valid prediction for snap_scaffold_12-snap.2194-T1 Valid prediction for GlimmerHMM_glimmerT_30103-T1 Couldn't classify 260888, 260959 Couldn't classify 266618, 266686 Sorry, prediction pasa_asmbl_8828.p1 fails validation. (AGC) AC 260888-260959 GT CGG (GAC) AG 261213-261297 GT GGG (GTC) AG 261596-261735 GT AGG (AAC) AG 263668-263806 GT CGG (GAC) AG 266303-266367 GT ACG (CCA) AG 266618-266686 AA GGA -recovered pasa_asmbl_8828.p1, internal, 261213, 261297 -recovered pasa_asmbl_8828.p1, internal, 261596, 261735 -recovered pasa_asmbl_8828.p1, internal, 263668, 263806 -recovered pasa_asmbl_8828.p1, internal, 266303, 266367 Valid prediction for snap_scaffold_12-snap.2165-T1 Valid prediction for snap_scaffold_12-snap.2169-T1 Valid prediction for Augustus_model.g19934.t1 Valid prediction for snap_scaffold_12-snap.2193-T1 Valid prediction for GlimmerHMM_glimmerT_30095-T1 Valid prediction for HiQ_model.g19926.t1 Valid prediction for GlimmerHMM_glimmerT_30121-T1 Valid prediction for GlimmerHMM_glimmerT_30098-T1 Valid prediction for snap_scaffold_12-snap.2163-T1 Valid prediction for pasa_asmbl_8831.p1 Valid prediction for GlimmerHMM_glimmerT_30094-T1 Valid prediction for Augustus_model.g19920.t1 Valid prediction for snap_scaffold_12-snap.2168-T1 Valid prediction for GlimmerHMM_glimmerT_30108-T1 Valid prediction for Augustus_model.g19937.t1 Couldn't classify 5938, 6189 Couldn't classify 7718, 8466 Sorry, prediction pasa_asmbl_8844.p1 fails validation. (CCA) CC 5938-6189 GT AGG (GTG) AG 6438-6771 GT AGG (AGA) AG 7718-8466 GG TGG add_exon() Sorry, pasa_asmbl_8844.p1 6438-6771-terminal-3 is invalid. -recovered pasa_asmbl_8844.p1, terminal, 6438, 6771 -recovered pasa_asmbl_8844.p1, internal, 6438, 6771 Valid prediction for snap_scaffold_12-snap.2178-T1 Valid prediction for snap_scaffold_12-snap.2190-T1 Valid prediction for snap_scaffold_12-snap.2164-T1 Valid prediction for pasa_asmbl_8839.p1 Valid prediction for GlimmerHMM_glimmerT_30100-T1 Valid prediction for CodingQuarry_transcript_10400-T1 Valid prediction for Augustus_model.g19929.t1 Valid prediction for GlimmerHMM_glimmerT_30113-T1 Valid prediction for snap_scaffold_12-snap.2182-T1 Valid prediction for snap_scaffold_12-snap.2179-T1 Valid prediction for snap_scaffold_12-snap.2192-T1 Couldn't classify 33914, 34798 Sorry, prediction pasa_asmbl_8840.p1 fails validation. (AGG) GC 33914-34798 CA CCC Valid prediction for CodingQuarry_transcript_10398-T1 Valid prediction for snap_scaffold_12-snap.2195-T1 Couldn't classify 9511, 9595 Sorry, prediction pasa_asmbl_8843.p3 fails validation. (TCC) GC 9511-9595 GT GGG (TGA) AG 9880-10127 TT GAT -recovered pasa_asmbl_8843.p3, terminal, 9880, 10127 Valid prediction for snap_scaffold_12-snap.2188-T1 Valid prediction for snap_scaffold_12-snap.2189-T1 Valid prediction for snap_scaffold_12-snap.2184-T1 Valid prediction for snap_scaffold_12-snap.2157-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6642, rend_intergenic: 5418 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 39341, rend_intergenic: 36246 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 206338, rend_intergenic: 203730 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 276131 -exon list size: 348 building trellis 0.3 0.6 0.9 1.1 1.4 1.7 2.0 2.3 2.6 2.9 3.1 3.4 3.7 4.0 4.3 4.6 4.9 5.1 5.4 5.7 6.0 6.3 6.6 6.9 7.1 7.4 7.7 8.0 8.3 8.6 8.9 9.1 9.4 9.7 10.0 10.3 10.6 10.9 11.1 11.4 11.7 12.0 12.3 12.6 12.9 13.1 13.4 13.7 14.0 14.3 14.6 14.9 15.1 15.4 15.7 16.0 16.3 16.6 16.9 17.1 17.4 17.7 18.0 18.3 18.6 18.9 19.1 19.4 19.7 20.0 20.3 20.6 20.9 21.1 21.4 21.7 22.0 22.3 22.6 22.9 23.1 23.4 23.7 24.0 24.3 24.6 24.9 25.1 25.4 25.7 26.0 26.3 26.6 26.9 27.1 27.4 27.7 28.0 28.3 28.6 28.9 29.1 29.4 29.7 30.0 30.3 30.6 30.9 31.1 31.4 31.7 32.0 32.3 32.6 32.9 33.1 33.4 33.7 34.0 34.3 34.6 34.9 35.1 35.4 35.7 36.0 36.3 36.6 36.9 37.1 37.4 37.7 38.0 38.3 38.6 38.9 39.1 39.4 39.7 40.0 40.3 40.6 40.9 41.1 41.4 41.7 42.0 42.3 42.6 42.9 43.1 43.4 43.7 44.0 44.3 44.6 44.9 45.1 45.4 45.7 46.0 46.3 46.6 46.9 47.1 47.4 47.7 48.0 48.3 48.6 48.9 49.1 49.4 49.7 50.0 50.3 50.6 50.9 51.1 51.4 51.7 52.0 52.3 52.6 52.9 53.1 53.4 53.7 54.0 54.3 54.6 54.9 55.1 55.4 55.7 56.0 56.3 56.6 56.9 57.1 57.4 57.7 58.0 58.3 58.6 58.9 59.1 59.4 59.7 60.0 60.3 60.6 60.9 61.1 61.4 61.7 62.0 62.3 62.6 62.9 63.1 63.4 63.7 64.0 64.3 64.6 64.9 65.1 65.4 65.7 66.0 66.3 66.6 66.9 67.1 67.4 67.7 68.0 68.3 68.6 68.9 69.1 69.4 69.7 70.0 70.3 70.6 70.9 71.1 71.4 71.7 72.0 72.3 72.6 72.9 73.1 73.4 73.7 74.0 74.3 74.6 74.9 75.1 75.4 75.7 76.0 76.3 76.6 76.9 77.1 77.4 77.7 78.0 78.3 78.6 78.9 79.1 79.4 79.7 80.0 80.3 80.6 80.9 81.1 81.4 81.7 82.0 82.3 82.6 82.9 83.1 83.4 83.7 84.0 84.3 84.6 84.9 85.1 85.4 85.7 86.0 86.3 86.6 86.9 87.1 87.4 87.7 88.0 88.3 88.6 88.9 89.1 89.4 89.7 90.0 90.3 90.6 90.9 91.1 91.4 91.7 92.0 92.3 92.6 92.9 93.1 93.4 93.7 94.0 94.3 94.6 94.9 95.1 95.4 95.7 96.0 96.3 96.6 96.9 97.1 97.4 97.7 98.0 98.3 98.6 98.9 99.1 99.4 99.7 -found 30 predictions from path traversal Error with prediction: snap lend_intergenic: 6642, rend_intergenic: 5418 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 39341, rend_intergenic: 36246 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 206338, rend_intergenic: 203730 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 21 predictions persist after filtering for low support