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linnabrown / run_dbcan

Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.
http://bcb.unl.edu/dbCAN2
GNU General Public License v3.0
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dbCAN_sub error (#2) #130

Closed jgrembi closed 8 months ago

jgrembi commented 1 year ago

I can't get the test example for E.coli to run. It errors in dbCAN_sub due to an index error as shown below. Am I doing something wrong? Thanks, Jess

command: run_dbcan EscheriaColiK12MG1655.fna prok --out_dir output_EscheriaColiK12MG1655 --tools all

output: *1. DIAMOND start*** diamond v2.1.8.162 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021)

CPU threads: 4

Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: output_EscheriaColiK12MG1655

Target sequences to report alignments for: 1

Opening the database... [0.201s] Database: /oak/stanford/groups/relman/public/databases/cazyme_db/CAZy (type: Diamond database, sequences: 2428817, letters: 1157024505) Block size = 2000000000 Building query seed set... [0.092s] Algorithm: Query-indexed Building query histograms... [0.018s] Seeking in database... [0s] Loading reference sequences... [3.284s] Initializing temporary storage... [0.009s] Building reference histograms... [10.068s] Allocating buffers... [0s] Processing query block 1, reference block 1/1, shape 1/2. Building reference seed array... [5.787s] Building query seed array... [0.014s] Computing hash join... [1.777s] Searching alignments... [6.49s] Deallocating memory... [0s] Processing query block 1, reference block 1/1, shape 2/2. Building reference seed array... [5.556s] Building query seed array... [0.029s] Computing hash join... [1.317s] Searching alignments... [6.999s] Deallocating memory... [0s] Deallocating buffers... [0.193s] Clearing query masking... [0s] Computing alignments... Loading trace points... [0.106s] Sorting trace points... [0.034s] Computing alignments... [13.294s] Deallocating buffers... [0.015s] Loading trace points... [0s] [13.516s] Deallocating reference... [0.198s] Loading reference sequences... [0s] Deallocating buffers... [0s] Deallocating queries... [0s] Total time = 55.595s Reported 197 pairwise alignments, 197 HSPs. 197 queries aligned.

*1. DIAMOND end***** *2. HMMER start*** *2. HMMER end***** *3. dbCAN_sub start***** ID count: 4319 Traceback (most recent call last): File "/home/users/jgrembi/miniconda3/envs/run_dbcan/bin/run_dbcan", line 10, in sys.exit(cli_main()) File "/home/users/jgrembi/miniconda3/envs/run_dbcan/lib/python3.8/site-packages/dbcan_cli/run_dbcan.py", line 883, in cli_main run(inputFile=args.inputFile, inputType=args.inputType, cluster=args.cluster, dbCANFile=args.dbCANFile, File "/home/users/jgrembi/miniconda3/envs/run_dbcan/lib/python3.8/site-packages/dbcan_cli/run_dbcan.py", line 252, in run split_uniInput('%suniInput'%outPath,dbcan_thread,outPath,dbDir,hmm_eval,hmm_cov) File "/home/users/jgrembi/miniconda3/envs/run_dbcan/lib/python3.8/site-packages/dbcan_cli/run_dbcan.py", line 95, in split_uniInput hmm_parser_output = hmmscan_parser.run("%sd%s"%(outPath,m), eval_num=hmm_eval, coverage=hmm_cov) File "/home/users/jgrembi/miniconda3/envs/run_dbcan/lib/python3.8/site-packages/dbcan_cli/hmmscan_parser.py", line 42, in run row.append(float(int(row[6])-int(row[5]))/int(row[1])) IndexError: list index out of range

linnabrown commented 10 months ago

I did not confront this issue and I used the totally the same command

(run_dbcan) ➜ run_dbcan git:(dbcan-proto) ✗ run_dbcan EscheriaColiK12MG1655.fna prok --out_dir output_EscheriaColiK12MG1655 --tools dbcansub --hmm_cpu 12

*3. dbCAN_sub start*****

ID count: 4319 1e-15 0.35 GH23_e734.hmm|GH23:3967|4.2.2.n1:8 150 NC_000913.3_1163 204 1.5e-69 1 148 53 200 0.98 GH37_e6.hmm|GH37:7900|3.2.1.28:18 476 NC_000913.3_1167 566 4.8e-224 1 474 58 530 0.9936974789915967 GH13_e137.hmm|GH13_18:228|GH13:5|2.4.1.352:2 342 NC_000913.3_1285 560 1e-179 1 342 83 424 0.9970760233918129 GH109_e7.hmm|GH109:31 390 NC_000913.3_1291 352 4.4e-19 2 147 10 156 0.3717948717948718 GT19_e17.hmm|GT19:7713|2.4.1.182:13 358 NC_000913.3_177 383 1e-174 1 358 10 367 0.9972067039106145 CBM50_e567.hmm|CBM50:3868 42 NC_000913.3_1834 441 2e-23 1 42 99 140 0.9761904761904762 GT4_e1752.hmm|GT4:31 141 NC_000913.3_1998 373 2e-52 1 138 203 338 0.9716312056737588 GT4_e731.hmm|GT4:130 149 NC_000913.3_2010 407 1.1e-69 1 145 225 369 0.9664429530201343 GT4_e2254.hmm|GT4:11 152 NC_000913.3_2016 408 4.1e-50 3 148 230 375 0.9539473684210527 GH3_e1.hmm|GH3:5872|3.2.1.21:20|3.2.1.-:6|GH16:4|CBM6:2|GH144:1 222 NC_000913.3_2100 756 8.2e-100 2 221 90 309 0.9864864864864865 GT83_e0.hmm|GT83:3973|2.4.2.43:13 513 NC_000913.3_2225 551 2.3e-249 3 513 8 517 0.9941520467836257 GT2_e2523.hmm|GT2:233 162 NC_000913.3_2319 307 6.4e-84 1 162 5 166 0.9938271604938271 GH23_e225.hmm|GH23:4469|4.2.2.n1:1 154 NC_000913.3_2525 519 7.1e-82 1 153 298 450 0.987012987012987 GH13_e166.hmm|GH13_27:44 316 NC_000913.3_2613 264 3e-21 116 315 23 238 0.629746835443038 CBM50_e486.hmm|CBM50:11431|GH73:1|CE4:1|GH25:1 43 NC_000913.3_2694 380 1.2e-22 1 42 124 165 0.9534883720930233 GH23_e259.hmm|GH23:688 121 NC_000913.3_2806 125 6.2e-73 1 116 5 119 0.9504132231404959 GH1_e0.hmm|GH1:9150|3.2.1.86:26|3.2.1.23:2|3.2.1.21:1 472 NC_000913.3_2850 478 3.7e-249 2 472 6 475 0.9957627118644068 GH2_e92.hmm|GH2:6387|3.2.1.23:41|CBM67:1|CBM32:1 861 NC_000913.3_3016 1031 0 3 861 28 887 0.9965156794425087 GH63_e1.hmm|GH63:1941|3.2.1.20:9|3.2.1.84:9 774 NC_000913.3_3020 784 0 2 774 8 781 0.9974160206718347 CE9_e34.hmm|CE9:1668|3.5.1.25:2|3.5.1.80:2 366 NC_000913.3_3070 152 1.3e-77 220 366 1 147 0.3989071038251366 GT51_e0.hmm|GT51:5325|2.4.1.129:10 165 NC_000913.3_3141 243 5.1e-88 1 164 63 227 0.9878787878787879 GH18_e193.hmm|GH18:646|CBM5:643|CBM73:11|3.2.1.14:10|CBM13:1|CBM12:1 188 NC_000913.3_3267 898 2.3e-109 1 188 607 794 0.9946808510638298 GT51_e130.hmm|GT51:5094|2.4.1.129:12 176 NC_000913.3_3325 851 6.7e-93 1 176 55 230 0.9943181818181818 GT2_e2022.hmm|GT2:522|2.4.1.12:6|2.4.1.-:1 352 NC_000913.3_3464 873 9e-106 91 265 275 450 0.4943181818181818 GT2_e2022.hmm|GT2:522|2.4.1.12:6|2.4.1.-:1 352 NC_000913.3_3464 873 6.7e-61 78 286 434 690 0.5909090909090909 CE1_e38.hmm|CE1:175 268 NC_000913.3_348 278 7e-18 2 149 23 185 0.5485074626865671 GH73_e253.hmm|GH73:3299 123 NC_000913.3_3503 275 2.2e-67 1 123 146 268 0.991869918699187 GH13_e62.hmm|GH13_19:166|CBM26:16|CBM25:10|CBM74:4|GH13:2|3.2.1.-:1|CBM48:1|3.2.1.1:1 378 NC_000913.3_3504 677 2.5e-194 1 377 227 595 0.9947089947089947 GT73_e2.hmm|GT73:871|2.4.99.-:10 239 NC_000913.3_3559 284 4.3e-137 1 238 19 256 0.9916317991631799 GT8_e147.hmm|GT8:1945|2.4.1.-:10|2.4.1.44:3|2.4.1.58:1 251 NC_000913.3_3562 340 1.9e-118 4 251 29 277 0.9840637450199203 GT4_e1251.hmm|GT4:177|2.4.1.-:2 150 NC_000913.3_3566 375 1.4e-70 2 146 195 339 0.96 GT30_e0.hmm|GT30:6984|2.4.99.-:25|GT2:1 177 NC_000913.3_3568 426 1.6e-80 1 176 35 211 0.9887005649717514 CE14_e27.hmm|CE14:619 106 NC_000913.3_357 186 3.7e-20 1 106 21 131 0.9905660377358491 GT26_e141.hmm|GT26:4099|2.4.1.-:12 170 NC_000913.3_3722 247 1.1e-93 2 170 64 232 0.9882352941176471 GH31_e85.hmm|GH31:2083|3.2.1.199:9 440 NC_000913.3_3796 679 2.9e-223 2 439 230 666 0.9931818181818182 GH24_e32.hmm|GH24:2579|3.2.1.17:8 125 NC_000913.3_544 166 8.4e-68 2 125 34 157 0.984 CE11_e22.hmm|CE11:9240|3.5.1.108:18 272 NC_000913.3_93 306 1.3e-133 1 271 5 276 0.9926470588235294 AA6_e2.hmm|AA6:22 195 NC_000913.3_980 199 5.1e-71 2 193 5 193 0.9794871794871794

GT2_e285.hmm|GT2:630 347 NC_000913.3_1023 838 1e-156 4 342 235 573 0.9740634005763689 GH73_e114.hmm|GH73:3220|3.2.1.-:3 136 NC_000913.3_1054 314 9.6e-67 1 136 160 295 0.9926470588235294 GH65_e4.hmm|GH65:1853|2.4.1.230:11 386 NC_000913.3_1292 756 5.5e-181 1 385 299 674 0.9948186528497409 GH24_e98.hmm|GH24:3855 140 NC_000913.3_1530 178 9.6e-83 1 140 29 168 0.9928571428571429 GH4_e24.hmm|GH4:7862|3.2.1.86:16 179 NC_000913.3_1712 451 9.4e-90 1 178 7 185 0.9888268156424581 GH13_e245.hmm|GH13_5:159|GH13:3|3.2.1.1:2 342 NC_000913.3_1901 496 1.4e-191 2 342 33 374 0.9941520467836257 GT113_e0.hmm|GT113:182|2.4.1.-:1 321 NC_000913.3_2000 331 8.1e-96 2 320 12 323 0.9906542056074766 GH23_e819.hmm|GH23:3899|CBM50:3878 143 NC_000913.3_202 407 3.1e-76 1 143 56 198 0.993006993006993 CBM50_e338.hmm|CBM50:4180|GH23:4153 43 NC_000913.3_202 407 2.4e-21 1 42 298 338 0.9534883720930233 CBM50_e338.hmm|CBM50:4180|GH23:4153 43 NC_000913.3_202 407 2.4e-20 1 42 357 396 0.9534883720930233 GT4_e1042.hmm|GT4:40 71 NC_000913.3_2023 406 6.7e-45 1 71 288 358 0.9859154929577465 GT2_e1464.hmm|GT2:42 127 NC_000913.3_2025 280 3.6e-75 1 126 9 134 0.984251968503937 GT2_e978.hmm|GT2:251 165 NC_000913.3_2222 323 1e-80 1 163 12 174 0.9818181818181818 CBM50_e391.hmm|CBM50:1681 49 NC_000913.3_2620 150 6.4e-31 1 49 100 148 0.9795918367346939 GH43_e285.hmm|GH43_11:2705|3.2.1.37:21|GH43:7|3.2.1.55:3|GH43_12:2|3.2.1.-:1 292 NC_000913.3_267 537 2.3e-138 1 292 4 304 0.9965753424657534 CBM91_e24.hmm|CBM91:3225|GH43_11:3213|GH43_12:1|GH43:1 200 NC_000913.3_267 537 6e-82 1 199 332 535 0.99 GH102_e2.hmm|GH102:4353|4.2.2.n1:8 134 NC_000913.3_2765 366 1.8e-70 1 134 127 258 0.9925373134328358 CBM50_e486.hmm|CBM50:11431|GH73:1|CE4:1|GH25:1 43 NC_000913.3_2814 252 2.5e-21 1 42 43 84 0.9534883720930233 GH23_e150.hmm|GH23:4464|4.2.2.n1:2 149 NC_000913.3_2908 360 1.8e-73 2 148 208 354 0.9798657718120806 AA3_e57.hmm|AA3_2:11 532 NC_000913.3_305 557 1.9e-205 1 532 3 533 0.9981203007518797 GH77_e27.hmm|GH77:4919|GH13_26:95|2.4.1.25:11|GT35:1 540 NC_000913.3_3345 695 9.5e-274 1 539 149 685 0.9962962962962963 GT35_e0.hmm|GT35:17065|2.4.1.1:158|GH77:18|GH13_39:1 712 NC_000913.3_3356 816 0 1 711 102 811 0.9971910112359551 GT5_e31.hmm|GT5:5296|2.4.1.21:29 473 NC_000913.3_3357 478 6.3e-215 1 472 3 474 0.9957716701902748 CBM48_e3.hmm|CBM48:14267|GH13_11:14161|3.2.1.68:75|GH13:59|GH77:38|2.4.1.25:4|GH13_10:2|GH13_36:1|3.2.1.-:1 101 NC_000913.3_3359 658 5.1e-41 4 96 10 101 0.9108910891089109 GH13_e48.hmm|GH13_11:3001|CBM48:2819|GH13:35|GH77:23|3.2.1.68:15|GH13_10:3|3.2.1.-:1 358 NC_000913.3_3359 658 6.2e-157 3 356 173 522 0.9860335195530726 CBM48_e2.hmm|CBM48:14087|GH13_9:14033|2.4.1.18:57|GH77:8|GH13:5|GT5:2|GH13_3:1|GH0:1 100 NC_000913.3_3360 729 7.9e-17 6 90 22 112 0.84 CBM48_e2.hmm|CBM48:14087|GH13_9:14033|2.4.1.18:57|GH77:8|GH13:5|GT5:2|GH13_3:1|GH0:1 100 NC_000913.3_3360 729 1.5e-28 6 89 122 218 0.83 GH13_e200.hmm|GH13_9:2874|CBM48:2782|2.4.1.18:14|GH77:10|GH13:7|GH13_3:5|GH0:1|GT5:1|GH13_1:1 301 NC_000913.3_3360 729 1.3e-159 1 300 275 574 0.9933554817275747 GH2_e92.hmm|GH2:6387|3.2.1.23:41|CBM67:1|CBM32:1 861 NC_000913.3_337 1025 0 3 861 40 917 0.9965156794425087 GT9_e84.hmm|GT9:7143|2.4.99.-:11|GT2:1 263 NC_000913.3_3555 349 8.7e-117 5 241 66 307 0.8973384030418251 GT4_e1207.hmm|GT4:40|2.4.1.-:1 147 NC_000913.3_3563 360 5.9e-70 2 145 179 322 0.9727891156462585 GH31_e31.hmm|GH31:4050|3.2.1.177:12 431 NC_000913.3_3591 773 6.7e-239 1 430 240 669 0.9953596287703016 GH4_e4.hmm|GH4:5108|3.2.1.122:13 177 NC_000913.3_3617 213 7.7e-94 1 177 7 183 0.9943502824858758 CBM48_e68.hmm|CBM48:192|CE0:190|CE6:12|GH10:3|CE1:2|GH62:1|3.1.1.73:1|3.2.1.55:1|3.2.1.8:1 61 NC_000913.3_3654 390 9.6e-16 2 59 49 110 0.9344262295081968 CE1_e22.hmm|CE1:6|CBM48:2|CE0:2 206 NC_000913.3_3654 390 4.6e-41 3 205 160 383 0.9805825242718447 GH1_e85.hmm|GH1:13226|3.2.1.86:49|3.2.1.21:4|3.2.1.37:1 470 NC_000913.3_3656 471 3.5e-223 1 469 4 459 0.9957446808510638 GH4_e0.hmm|GH4:3065|3.2.1.22:13 181 NC_000913.3_4037 452 9e-107 1 181 7 187 0.994475138121547 GH109_e7.hmm|GH109:31 390 NC_000913.3_4191 373 1.7e-17 3 192 3 184 0.4846153846153846 GH23_e96.hmm|GH23:3929|4.2.2.n1:10 127 NC_000913.3_4309 646 1.2e-66 1 126 497 622 0.984251968503937 GH38_e0.hmm|GH38:1275 259 NC_000913.3_715 878 4.1e-147 1 259 7 265 0.9961389961389961 CE8_e3.hmm|CE8:3130 331 NC_000913.3_749 428 3.1e-207 1 331 91 421 0.9969788519637462 GT28_e46.hmm|GT28:8561|2.4.1.227:11 160 NC_000913.3_87 356 2e-65 1 159 185 341 0.9875

CE4_e321.hmm|CE4:3543|GH153:3495|3.5.1.-:8|3.2.1.-:8|GT2:1 170 NC_000913.3_1000 673 1.4e-72 2 170 104 272 0.9882352941176471 GH153_e1.hmm|GH153:2729|CE4:2716|3.5.1.-:7|3.2.1.-:7 349 NC_000913.3_1000 673 1.8e-167 1 349 315 665 0.997134670487106 GH3_e19.hmm|GH3:6438|3.2.1.52:16 223 NC_000913.3_1079 342 2.1e-109 2 223 56 278 0.9910313901345291 CBM50_e118.hmm|CBM50:9 44 NC_000913.3_1085 320 2.7e-17 4 43 51 90 0.8863636363636364 AA1_e20.hmm|AA1:10 461 NC_000913.3_118 517 2.6e-29 3 461 75 512 0.9934924078091106 CE4_e2.hmm|CE4:695|3.5.1.-:1 140 NC_000913.3_125 410 3.4e-27 2 139 229 368 0.9785714285714285 GT51_e28.hmm|GT51:6681|2.4.1.129:11 172 NC_000913.3_144 845 7.3e-84 2 171 211 380 0.9825581395348837 GH2_e29.hmm|GH2:3674|3.2.1.31:89|GH31:1 578 NC_000913.3_1594 604 3.8e-269 2 578 9 588 0.9965397923875432 GT20_e1.hmm|GT20:8450|2.4.1.15:96 473 NC_000913.3_1874 475 5.1e-181 9 471 2 454 0.9767441860465116 GT2_e1702.hmm|GT2:5 136 NC_000913.3_1997 158 1.3e-73 1 130 5 135 0.9485294117647058 GT2_e1154.hmm|GT2:59 129 NC_000913.3_2021 249 4.6e-53 1 127 5 134 0.9767441860465116 GH25_e19.hmm|GH25:1217 167 NC_000913.3_2068 273 1.3e-99 1 167 71 246 0.9940119760479041 GT51_e71.hmm|GT51:5520 166 NC_000913.3_2486 758 4.4e-80 1 165 50 213 0.9879518072289156 GH103_e0.hmm|GH103:4244|4.2.2.n1:10 291 NC_000913.3_2652 397 1.1e-141 1 290 100 390 0.993127147766323 GH1_e85.hmm|GH1:13226|3.2.1.86:49|3.2.1.21:4|3.2.1.37:1 470 NC_000913.3_2667 475 1e-230 1 470 4 471 0.997872340425532 GT35_e0.hmm|GT35:17065|2.4.1.1:158|GH77:18|GH13_39:1 712 NC_000913.3_3346 798 0 1 711 92 796 0.9971910112359551 GH37_e6.hmm|GH37:7900|3.2.1.28:18 476 NC_000913.3_3450 550 3.1e-213 1 475 73 545 0.9957983193277311 GH8_e0.hmm|GH8:4312|3.2.1.4:20|3.2.1.6:1 326 NC_000913.3_3462 369 9.1e-150 1 326 26 344 0.9969325153374233 GT2_e908.hmm|GT2:33 167 NC_000913.3_355 399 3.6e-102 1 167 35 201 0.9940119760479041 GT2_e1093.hmm|GT2:36 128 NC_000913.3_3550 345 1.7e-66 1 128 10 137 0.9921875 GT9_e71.hmm|GT9:5354|2.4.99.-:11 224 NC_000913.3_3556 320 8.7e-113 1 222 78 299 0.9866071428571429 GT9_e82.hmm|GT9:222|2.4.1.56:10 212 NC_000913.3_3558 358 7.3e-125 1 212 107 317 0.9952830188679245 GT8_e183.hmm|GT8:1370|2.4.1.58:14 255 NC_000913.3_3561 339 3.4e-119 3 255 26 276 0.9882352941176471 GT9_e0.hmm|GT9:2054|2.4.99.-:11 240 NC_000913.3_3567 357 4.8e-121 1 239 79 317 0.9916666666666667 GT56_e0.hmm|GT56:4056|2.4.1.-:18|GT41:1 353 NC_000913.3_3720 360 3.3e-181 1 352 2 352 0.9943342776203966 AA2_e1.hmm|AA2:59 252 NC_000913.3_3863 727 5.1e-19 14 109 92 188 0.376984126984127 AA2_e1.hmm|AA2:59 252 NC_000913.3_3863 727 4.6e-18 16 249 461 720 0.9246031746031746 CBM34_e8.hmm|CBM34:3739|GH13_21:3729|3.2.1.20:14|3.2.1.1:3|GH13:3|CBM25:2|GH13_20:1 108 NC_000913.3_395 606 5.6e-46 1 107 7 113 0.9814814814814815 GH13_e88.hmm|GH13_21:161|CBM34:128|GH13_20:6|GH13:4|CBM25:2|3.2.1.1:1|3.2.1.133:1|3.2.1.20:1 315 NC_000913.3_395 606 2.4e-157 1 315 179 492 0.9968253968253968 GH13_e1.hmm|GH13_29:585|GH13:36|3.2.1.93:2|GH13_31:2 345 NC_000913.3_4154 552 5.9e-181 1 345 30 372 0.9971014492753624 CE9_e0.hmm|CE9:4926|3.5.1.25:23 370 NC_000913.3_659 383 3.6e-187 2 370 6 377 0.9945945945945946 GT2_e2088.hmm|GT2:253|2.4.1.-:1|GT8:1|GT0:1 280 NC_000913.3_999 442 7.7e-134 2 272 77 347 0.9642857142857143

total time: 133.76168608665466

*3. dbCAN_sub end*****

No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it No substrate for it Preparing overview table from hmmer, dbCAN_sub and diamond output... overview table complete. Saved as output_EscheriaColiK12MG1655/overview.txt

linnabrown commented 9 months ago

Do you still have this issue?

linnabrown commented 8 months ago

Close this issue with no response.