website/tests/Ant suite/classes.html

   1 <table border='1'>
   2 <tr>
   3 <th>Class name</th>
   4 <th>Method name</th>
   5 <th>Groups</th>
   6 </tr><tr>
   7 <td>compbio.engine.client.CommandBuilderTester</td>
   8 <td>&nbsp;</td><td>&nbsp;</td></tr>
   9 <tr>
  10 <td align='center' colspan='3'>@Test</td>
  11 </tr>
  12 <tr>
  13 <td>&nbsp;</td>
  14 <td>testOptionsToCommand</td>
  15 <td>&nbsp;</td></tr>
  16 <tr>
  17 <td>&nbsp;</td>
  18 <td>testSpaceDelimiterExecutable</td>
  19 <td>&nbsp;</td></tr>
  20 <tr>
  21 <td>&nbsp;</td>
  22 <td>testCommandBuilding</td>
  23 <td>&nbsp;</td></tr>
  24 <tr>
  25 <td align='center' colspan='3'>@BeforeClass</td>
  26 </tr>
  27 <tr>
  28 <td align='center' colspan='3'>@BeforeMethod</td>
  29 </tr>
  30 <tr>
  31 <td align='center' colspan='3'>@AfterMethod</td>
  32 </tr>
  33 <tr>
  34 <td align='center' colspan='3'>@AfterClass</td>
  35 </tr>
  36 <tr>
  37 <td>compbio.runner._impl.NetNglycTester</td>
  38 <td>&nbsp;</td><td>&nbsp;</td></tr>
  39 <tr>
  40 <td align='center' colspan='3'>@Test</td>
  41 </tr>
  42 <tr>
  43 <td>&nbsp;</td>
  44 <td>testBuildCommand</td>
  45 <td>cluster runner </td>
  46 </tr>
  47 <tr>
  48 <td>&nbsp;</td>
  49 <td>testGetTestCommand</td>
  50 <td>&nbsp;</td></tr>
  51 <tr>
  52 <td align='center' colspan='3'>@BeforeClass</td>
  53 </tr>
  54 <tr>
  55 <td align='center' colspan='3'>@BeforeMethod</td>
  56 </tr>
  57 <tr>
  58 <td align='center' colspan='3'>@AfterMethod</td>
  59 </tr>
  60 <tr>
  61 <td align='center' colspan='3'>@AfterClass</td>
  62 </tr>
  63 <tr>
  64 <td>compbio.engine.EngineConfiguratorTester</td>
  65 <td>&nbsp;</td><td>&nbsp;</td></tr>
  66 <tr>
  67 <td align='center' colspan='3'>@Test</td>
  68 </tr>
  69 <tr>
  70 <td>&nbsp;</td>
  71 <td>testGetAsyncEngine</td>
  72 <td>&nbsp;</td></tr>
  73 <tr>
  74 <td>&nbsp;</td>
  75 <td>testGetSyncEngine</td>
  76 <td>&nbsp;</td></tr>
  77 <tr>
  78 <td align='center' colspan='3'>@BeforeClass</td>
  79 </tr>
  80 <tr>
  81 <td align='center' colspan='3'>@BeforeMethod</td>
  82 </tr>
  83 <tr>
  84 <td align='center' colspan='3'>@AfterMethod</td>
  85 </tr>
  86 <tr>
  87 <td align='center' colspan='3'>@AfterClass</td>
  88 </tr>
  89 <tr>
  90 <td>compbio.runner.disorder.GlobPlotTester</td>
  91 <td>&nbsp;</td><td>&nbsp;</td></tr>
  92 <tr>
  93 <td align='center' colspan='3'>@Test</td>
  94 </tr>
  95 <tr>
  96 <td>&nbsp;</td>
  97 <td>testRunOnCluster</td>
  98 <td>cluster runner </td>
  99 </tr>
 100 <tr>
 101 <td>&nbsp;</td>
 102 <td>testPersistance</td>
 103 <td>runner </td>
 104 </tr>
 105 <tr>
 106 <td>&nbsp;</td>
 107 <td>testRunOnClusterAsync</td>
 108 <td>cluster runner </td>
 109 </tr>
 110 <tr>
 111 <td>&nbsp;</td>
 112 <td>testConfigurationLoading</td>
 113 <td>runner </td>
 114 </tr>
 115 <tr>
 116 <td>&nbsp;</td>
 117 <td>readStatistics</td>
 118 <td>runner </td>
 119 </tr>
 120 <tr>
 121 <td>&nbsp;</td>
 122 <td>testRunLocally</td>
 123 <td>runner </td>
 124 </tr>
 125 <tr>
 126 <td align='center' colspan='3'>@BeforeClass</td>
 127 </tr>
 128 <tr>
 129 <td align='center' colspan='3'>@BeforeMethod</td>
 130 </tr>
 131 <tr>
 132 <td>&nbsp;</td>
 133 <td>init</td>
 134 <td>&nbsp;</td></tr>
 135 <tr>
 136 <td align='center' colspan='3'>@AfterMethod</td>
 137 </tr>
 138 <tr>
 139 <td align='center' colspan='3'>@AfterClass</td>
 140 </tr>
 141 <tr>
 142 <td>compbio.stat.collector.ExecutionStatCollectorTester</td>
 143 <td>&nbsp;</td><td>&nbsp;</td></tr>
 144 <tr>
 145 <td align='center' colspan='3'>@Test</td>
 146 </tr>
 147 <tr>
 148 <td>&nbsp;</td>
 149 <td>testHasCompleted</td>
 150 <td>&nbsp;</td></tr>
 151 <tr>
 152 <td>&nbsp;</td>
 153 <td>testHasTimedOut</td>
 154 <td>&nbsp;</td></tr>
 155 <tr>
 156 <td>&nbsp;</td>
 157 <td>testCollectStat</td>
 158 <td>&nbsp;</td></tr>
 159 <tr>
 160 <td>&nbsp;</td>
 161 <td>testUpdateStatTester</td>
 162 <td>&nbsp;</td></tr>
 163 <tr>
 164 <td align='center' colspan='3'>@BeforeClass</td>
 165 </tr>
 166 <tr>
 167 <td align='center' colspan='3'>@BeforeMethod</td>
 168 </tr>
 169 <tr>
 170 <td align='center' colspan='3'>@AfterMethod</td>
 171 </tr>
 172 <tr>
 173 <td align='center' colspan='3'>@AfterClass</td>
 174 </tr>
 175 <tr>
 176 <td>compbio.engine.local.AsyncLocalRunnerTester</td>
 177 <td>&nbsp;</td><td>&nbsp;</td></tr>
 178 <tr>
 179 <td align='center' colspan='3'>@Test</td>
 180 </tr>
 181 <tr>
 182 <td>&nbsp;</td>
 183 <td>testCancelLocally</td>
 184 <td>engine </td>
 185 </tr>
 186 <tr>
 187 <td>&nbsp;</td>
 188 <td>testMultipleCancelLocally</td>
 189 <td>engine </td>
 190 </tr>
 191 <tr>
 192 <td>&nbsp;</td>
 193 <td>testAsyncCancelOperation</td>
 194 <td>engine </td>
 195 </tr>
 196 <tr>
 197 <td>&nbsp;</td>
 198 <td>testAsyncRetrievOperation</td>
 199 <td>engine </td>
 200 </tr>
 201 <tr>
 202 <td>&nbsp;</td>
 203 <td>testSubmitLocally</td>
 204 <td>engine </td>
 205 </tr>
 206 <tr>
 207 <td>&nbsp;</td>
 208 <td>testCancelCompletedTaskLocally</td>
 209 <td>engine </td>
 210 </tr>
 211 <tr>
 212 <td>&nbsp;</td>
 213 <td>testGetStatus</td>
 214 <td>engine </td>
 215 </tr>
 216 <tr>
 217 <td align='center' colspan='3'>@BeforeClass</td>
 218 </tr>
 219 <tr>
 220 <td align='center' colspan='3'>@BeforeMethod</td>
 221 </tr>
 222 <tr>
 223 <td align='center' colspan='3'>@AfterMethod</td>
 224 </tr>
 225 <tr>
 226 <td align='center' colspan='3'>@AfterClass</td>
 227 </tr>
 228 <tr>
 229 <td>compbio.runner.msa.MafftTester</td>
 230 <td>&nbsp;</td><td>&nbsp;</td></tr>
 231 <tr>
 232 <td align='center' colspan='3'>@Test</td>
 233 </tr>
 234 <tr>
 235 <td>&nbsp;</td>
 236 <td>testExecute</td>
 237 <td>runner non_windows </td>
 238 </tr>
 239 <tr>
 240 <td>&nbsp;</td>
 241 <td>testRunOnClusterAsyncCheckStatusShortPoolingTime</td>
 242 <td>cluster runner non_windows </td>
 243 </tr>
 244 <tr>
 245 <td>&nbsp;</td>
 246 <td>testPersistance</td>
 247 <td>runner non_windows </td>
 248 </tr>
 249 <tr>
 250 <td>&nbsp;</td>
 251 <td>testClusterExecute</td>
 252 <td>cluster runner non_windows </td>
 253 </tr>
 254 <tr>
 255 <td>&nbsp;</td>
 256 <td>testSetInputTester</td>
 257 <td>runner non_windows </td>
 258 </tr>
 259 <tr>
 260 <td>&nbsp;</td>
 261 <td>testConfigurationLoading</td>
 262 <td>runner </td>
 263 </tr>
 264 <tr>
 265 <td>&nbsp;</td>
 266 <td>readStatistics</td>
 267 <td>runner non_windows </td>
 268 </tr>
 269 <tr>
 270 <td>&nbsp;</td>
 271 <td>testRunOnClusterAsyncCheckStatusLongPoolingTime</td>
 272 <td>cluster runner non_windows </td>
 273 </tr>
 274 <tr>
 275 <td align='center' colspan='3'>@BeforeClass</td>
 276 </tr>
 277 <tr>
 278 <td align='center' colspan='3'>@BeforeMethod</td>
 279 </tr>
 280 <tr>
 281 <td>&nbsp;</td>
 282 <td>init</td>
 283 <td>cluster runner non_windows </td>
 284 </tr>
 285 <tr>
 286 <td align='center' colspan='3'>@AfterMethod</td>
 287 </tr>
 288 <tr>
 289 <td align='center' colspan='3'>@AfterClass</td>
 290 </tr>
 291 <tr>
 292 <td>compbio.data.sequence.ClustalAlignmentUtilTester</td>
 293 <td>&nbsp;</td><td>&nbsp;</td></tr>
 294 <tr>
 295 <td align='center' colspan='3'>@Test</td>
 296 </tr>
 297 <tr>
 298 <td>&nbsp;</td>
 299 <td>testReadClustalFile</td>
 300 <td>&nbsp;</td></tr>
 301 <tr>
 302 <td>&nbsp;</td>
 303 <td>testReadClustalFileLongNames</td>
 304 <td>&nbsp;</td></tr>
 305 <tr>
 306 <td>&nbsp;</td>
 307 <td>testReadClustalFileShortNames</td>
 308 <td>&nbsp;</td></tr>
 309 <tr>
 310 <td align='center' colspan='3'>@BeforeClass</td>
 311 </tr>
 312 <tr>
 313 <td align='center' colspan='3'>@BeforeMethod</td>
 314 </tr>
 315 <tr>
 316 <td align='center' colspan='3'>@AfterMethod</td>
 317 </tr>
 318 <tr>
 319 <td align='center' colspan='3'>@AfterClass</td>
 320 </tr>
 321 <tr>
 322 <td>compbio.runner.disorder.IUPredTester</td>
 323 <td>&nbsp;</td><td>&nbsp;</td></tr>
 324 <tr>
 325 <td align='center' colspan='3'>@Test</td>
 326 </tr>
 327 <tr>
 328 <td>&nbsp;</td>
 329 <td>testRunOnCluster</td>
 330 <td>cluster runner </td>
 331 </tr>
 332 <tr>
 333 <td>&nbsp;</td>
 334 <td>testReadResults</td>
 335 <td>runner </td>
 336 </tr>
 337 <tr>
 338 <td>&nbsp;</td>
 339 <td>testPersistance</td>
 340 <td>runner </td>
 341 </tr>
 342 <tr>
 343 <td>&nbsp;</td>
 344 <td>testRunOnClusterAsync</td>
 345 <td>cluster runner </td>
 346 </tr>
 347 <tr>
 348 <td>&nbsp;</td>
 349 <td>testSetParameter</td>
 350 <td>runner </td>
 351 </tr>
 352 <tr>
 353 <td>&nbsp;</td>
 354 <td>testConfigurationLoading</td>
 355 <td>runner </td>
 356 </tr>
 357 <tr>
 358 <td>&nbsp;</td>
 359 <td>testRunLocally</td>
 360 <td>runner </td>
 361 </tr>
 362 <tr>
 363 <td>&nbsp;</td>
 364 <td>testRunLocallyWithParams</td>
 365 <td>runner </td>
 366 </tr>
 367 <tr>
 368 <td align='center' colspan='3'>@BeforeClass</td>
 369 </tr>
 370 <tr>
 371 <td align='center' colspan='3'>@BeforeMethod</td>
 372 </tr>
 373 <tr>
 374 <td>&nbsp;</td>
 375 <td>init</td>
 376 <td>&nbsp;</td></tr>
 377 <tr>
 378 <td align='center' colspan='3'>@AfterMethod</td>
 379 </tr>
 380 <tr>
 381 <td align='center' colspan='3'>@AfterClass</td>
 382 </tr>
 383 <tr>
 384 <td>compbio.engine.client.PathValidatorTester</td>
 385 <td>&nbsp;</td><td>&nbsp;</td></tr>
 386 <tr>
 387 <td align='center' colspan='3'>@Test</td>
 388 </tr>
 389 <tr>
 390 <td>&nbsp;</td>
 391 <td>testIsAbsolutePath</td>
 392 <td>&nbsp;</td></tr>
 393 <tr>
 394 <td>&nbsp;</td>
 395 <td>testGetClassPath</td>
 396 <td>&nbsp;</td></tr>
 397 <tr>
 398 <td align='center' colspan='3'>@BeforeClass</td>
 399 </tr>
 400 <tr>
 401 <td align='center' colspan='3'>@BeforeMethod</td>
 402 </tr>
 403 <tr>
 404 <td align='center' colspan='3'>@AfterMethod</td>
 405 </tr>
 406 <tr>
 407 <td align='center' colspan='3'>@AfterClass</td>
 408 </tr>
 409 <tr>
 410 <td>compbio.stat.collector.StatDBTester</td>
 411 <td>&nbsp;</td><td>&nbsp;</td></tr>
 412 <tr>
 413 <td align='center' colspan='3'>@Test</td>
 414 </tr>
 415 <tr>
 416 <td>&nbsp;</td>
 417 <td>testReadOneMonthData</td>
 418 <td>&nbsp;</td></tr>
 419 <tr>
 420 <td>&nbsp;</td>
 421 <td>testVerifyJobsCount</td>
 422 <td>&nbsp;</td></tr>
 423 <tr>
 424 <td>&nbsp;</td>
 425 <td>testReadYearData</td>
 426 <td>&nbsp;</td></tr>
 427 <tr>
 428 <td>&nbsp;</td>
 429 <td>testGetEarliestRecord</td>
 430 <td>&nbsp;</td></tr>
 431 <tr>
 432 <td align='center' colspan='3'>@BeforeClass</td>
 433 </tr>
 434 <tr>
 435 <td>&nbsp;</td>
 436 <td>init</td>
 437 <td>&nbsp;</td></tr>
 438 <tr>
 439 <td align='center' colspan='3'>@BeforeMethod</td>
 440 </tr>
 441 <tr>
 442 <td align='center' colspan='3'>@AfterMethod</td>
 443 </tr>
 444 <tr>
 445 <td align='center' colspan='3'>@AfterClass</td>
 446 </tr>
 447 <tr>
 448 <td>compbio.stat.servlet.util.StatCollectionTester</td>
 449 <td>&nbsp;</td><td>&nbsp;</td></tr>
 450 <tr>
 451 <td align='center' colspan='3'>@Test</td>
 452 </tr>
 453 <tr>
 454 <td>&nbsp;</td>
 455 <td>testGetStats</td>
 456 <td>&nbsp;</td></tr>
 457 <tr>
 458 <td align='center' colspan='3'>@BeforeClass</td>
 459 </tr>
 460 <tr>
 461 <td align='center' colspan='3'>@BeforeMethod</td>
 462 </tr>
 463 <tr>
 464 <td align='center' colspan='3'>@AfterMethod</td>
 465 </tr>
 466 <tr>
 467 <td align='center' colspan='3'>@AfterClass</td>
 468 </tr>
 469 <tr>
 470 <td>compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester</td>
 471 <td>&nbsp;</td><td>&nbsp;</td></tr>
 472 <tr>
 473 <td align='center' colspan='3'>@Test</td>
 474 </tr>
 475 <tr>
 476 <td>&nbsp;</td>
 477 <td>testSubmit</td>
 478 <td>engine cluster </td>
 479 </tr>
 480 <tr>
 481 <td>&nbsp;</td>
 482 <td>testCancel</td>
 483 <td>engine cluster </td>
 484 </tr>
 485 <tr>
 486 <td>&nbsp;</td>
 487 <td>testGetJobStatus</td>
 488 <td>engine cluster </td>
 489 </tr>
 490 <tr>
 491 <td align='center' colspan='3'>@BeforeClass</td>
 492 </tr>
 493 <tr>
 494 <td align='center' colspan='3'>@BeforeMethod</td>
 495 </tr>
 496 <tr>
 497 <td align='center' colspan='3'>@AfterMethod</td>
 498 </tr>
 499 <tr>
 500 <td align='center' colspan='3'>@AfterClass</td>
 501 </tr>
 502 <tr>
 503 <td>compbio.engine.cluster.drmaa.DrmaaClusterEngineTester</td>
 504 <td>&nbsp;</td><td>&nbsp;</td></tr>
 505 <tr>
 506 <td align='center' colspan='3'>@Test</td>
 507 </tr>
 508 <tr>
 509 <td>&nbsp;</td>
 510 <td>testSubmit</td>
 511 <td>engine cluster </td>
 512 </tr>
 513 <tr>
 514 <td>&nbsp;</td>
 515 <td>testCancel</td>
 516 <td>engine cluster </td>
 517 </tr>
 518 <tr>
 519 <td align='center' colspan='3'>@BeforeClass</td>
 520 </tr>
 521 <tr>
 522 <td align='center' colspan='3'>@BeforeMethod</td>
 523 </tr>
 524 <tr>
 525 <td align='center' colspan='3'>@AfterMethod</td>
 526 </tr>
 527 <tr>
 528 <td align='center' colspan='3'>@AfterClass</td>
 529 </tr>
 530 <tr>
 531 <td>compbio.runner.conservation.AAConTester</td>
 532 <td>&nbsp;</td><td>&nbsp;</td></tr>
 533 <tr>
 534 <td align='center' colspan='3'>@Test</td>
 535 </tr>
 536 <tr>
 537 <td>&nbsp;</td>
 538 <td>testRunOnCluster</td>
 539 <td>runner </td>
 540 </tr>
 541 <tr>
 542 <td>&nbsp;</td>
 543 <td>testRunLocallyWithPreset</td>
 544 <td>runner </td>
 545 </tr>
 546 <tr>
 547 <td>&nbsp;</td>
 548 <td>testPersistance</td>
 549 <td>runner </td>
 550 </tr>
 551 <tr>
 552 <td>&nbsp;</td>
 553 <td>testRunOnClusterAsync</td>
 554 <td>cluster runner </td>
 555 </tr>
 556 <tr>
 557 <td>&nbsp;</td>
 558 <td>testRunLocallyOnTwoCpu</td>
 559 <td>runner </td>
 560 </tr>
 561 <tr>
 562 <td>&nbsp;</td>
 563 <td>testConfigurationLoading</td>
 564 <td>runner </td>
 565 </tr>
 566 <tr>
 567 <td>&nbsp;</td>
 568 <td>readStatistics</td>
 569 <td>runner </td>
 570 </tr>
 571 <tr>
 572 <td>&nbsp;</td>
 573 <td>testRunLocally</td>
 574 <td>runner </td>
 575 </tr>
 576 <tr>
 577 <td align='center' colspan='3'>@BeforeClass</td>
 578 </tr>
 579 <tr>
 580 <td align='center' colspan='3'>@BeforeMethod</td>
 581 </tr>
 582 <tr>
 583 <td>&nbsp;</td>
 584 <td>init</td>
 585 <td>&nbsp;</td></tr>
 586 <tr>
 587 <td align='center' colspan='3'>@AfterMethod</td>
 588 </tr>
 589 <tr>
 590 <td align='center' colspan='3'>@AfterClass</td>
 591 </tr>
 592 <tr>
 593 <td>compbio.runner._impl.RPSBlastTester</td>
 594 <td>&nbsp;</td><td>&nbsp;</td></tr>
 595 <tr>
 596 <td align='center' colspan='3'>@Test</td>
 597 </tr>
 598 <tr>
 599 <td>&nbsp;</td>
 600 <td>testBuildCommand</td>
 601 <td>cluster runner </td>
 602 </tr>
 603 <tr>
 604 <td>&nbsp;</td>
 605 <td>testGetTestCommand</td>
 606 <td>&nbsp;</td></tr>
 607 <tr>
 608 <td>&nbsp;</td>
 609 <td>testGetTestArgsCommand</td>
 610 <td>&nbsp;</td></tr>
 611 <tr>
 612 <td align='center' colspan='3'>@BeforeClass</td>
 613 </tr>
 614 <tr>
 615 <td align='center' colspan='3'>@BeforeMethod</td>
 616 </tr>
 617 <tr>
 618 <td align='center' colspan='3'>@AfterMethod</td>
 619 </tr>
 620 <tr>
 621 <td align='center' colspan='3'>@AfterClass</td>
 622 </tr>
 623 <tr>
 624 <td>compbio.engine.PulledFileCacheTester</td>
 625 <td>&nbsp;</td><td>&nbsp;</td></tr>
 626 <tr>
 627 <td align='center' colspan='3'>@Test</td>
 628 </tr>
 629 <tr>
 630 <td>&nbsp;</td>
 631 <td>test</td>
 632 <td>&nbsp;</td></tr>
 633 <tr>
 634 <td align='center' colspan='3'>@BeforeClass</td>
 635 </tr>
 636 <tr>
 637 <td align='center' colspan='3'>@BeforeMethod</td>
 638 </tr>
 639 <tr>
 640 <td align='center' colspan='3'>@AfterMethod</td>
 641 </tr>
 642 <tr>
 643 <td align='center' colspan='3'>@AfterClass</td>
 644 </tr>
 645 <tr>
 646 <td>compbio.runner.disorder.DisemblTester</td>
 647 <td>&nbsp;</td><td>&nbsp;</td></tr>
 648 <tr>
 649 <td align='center' colspan='3'>@Test</td>
 650 </tr>
 651 <tr>
 652 <td>&nbsp;</td>
 653 <td>testRunOnCluster</td>
 654 <td>cluster runner </td>
 655 </tr>
 656 <tr>
 657 <td>&nbsp;</td>
 658 <td>testPersistance</td>
 659 <td>runner </td>
 660 </tr>
 661 <tr>
 662 <td>&nbsp;</td>
 663 <td>testRunOnClusterAsync</td>
 664 <td>cluster runner </td>
 665 </tr>
 666 <tr>
 667 <td>&nbsp;</td>
 668 <td>testConfigurationLoading</td>
 669 <td>runner </td>
 670 </tr>
 671 <tr>
 672 <td>&nbsp;</td>
 673 <td>readStatistics</td>
 674 <td>runner </td>
 675 </tr>
 676 <tr>
 677 <td>&nbsp;</td>
 678 <td>testRunLocally</td>
 679 <td>runner </td>
 680 </tr>
 681 <tr>
 682 <td align='center' colspan='3'>@BeforeClass</td>
 683 </tr>
 684 <tr>
 685 <td align='center' colspan='3'>@BeforeMethod</td>
 686 </tr>
 687 <tr>
 688 <td>&nbsp;</td>
 689 <td>init</td>
 690 <td>&nbsp;</td></tr>
 691 <tr>
 692 <td align='center' colspan='3'>@AfterMethod</td>
 693 </tr>
 694 <tr>
 695 <td align='center' colspan='3'>@AfterClass</td>
 696 </tr>
 697 <tr>
 698 <td>compbio.runner._impl.MclTester</td>
 699 <td>&nbsp;</td><td>&nbsp;</td></tr>
 700 <tr>
 701 <td align='center' colspan='3'>@Test</td>
 702 </tr>
 703 <tr>
 704 <td>&nbsp;</td>
 705 <td>testBuildCommand</td>
 706 <td>cluster runner </td>
 707 </tr>
 708 <tr>
 709 <td>&nbsp;</td>
 710 <td>testGetTestCommand</td>
 711 <td>&nbsp;</td></tr>
 712 <tr>
 713 <td align='center' colspan='3'>@BeforeClass</td>
 714 </tr>
 715 <tr>
 716 <td align='center' colspan='3'>@BeforeMethod</td>
 717 </tr>
 718 <tr>
 719 <td align='center' colspan='3'>@AfterMethod</td>
 720 </tr>
 721 <tr>
 722 <td align='center' colspan='3'>@AfterClass</td>
 723 </tr>
 724 <tr>
 725 <td>compbio.engine.cluster.dundee._QueueTester</td>
 726 <td>&nbsp;</td><td>&nbsp;</td></tr>
 727 <tr>
 728 <td align='center' colspan='3'>@Test</td>
 729 </tr>
 730 <tr>
 731 <td>&nbsp;</td>
 732 <td>testQueue</td>
 733 <td>&nbsp;</td></tr>
 734 <tr>
 735 <td align='center' colspan='3'>@BeforeClass</td>
 736 </tr>
 737 <tr>
 738 <td align='center' colspan='3'>@BeforeMethod</td>
 739 </tr>
 740 <tr>
 741 <td align='center' colspan='3'>@AfterMethod</td>
 742 </tr>
 743 <tr>
 744 <td align='center' colspan='3'>@AfterClass</td>
 745 </tr>
 746 <tr>
 747 <td>compbio.engine.LoadBalancerTester</td>
 748 <td>&nbsp;</td><td>&nbsp;</td></tr>
 749 <tr>
 750 <td align='center' colspan='3'>@Test</td>
 751 </tr>
 752 <tr>
 753 <td>&nbsp;</td>
 754 <td>testLoadBalance</td>
 755 <td>&nbsp;</td></tr>
 756 <tr>
 757 <td align='center' colspan='3'>@BeforeClass</td>
 758 </tr>
 759 <tr>
 760 <td align='center' colspan='3'>@BeforeMethod</td>
 761 </tr>
 762 <tr>
 763 <td align='center' colspan='3'>@AfterMethod</td>
 764 </tr>
 765 <tr>
 766 <td align='center' colspan='3'>@AfterClass</td>
 767 </tr>
 768 <tr>
 769 <td>compbio.runner.msa.ProbconsParametersTester</td>
 770 <td>&nbsp;</td><td>&nbsp;</td></tr>
 771 <tr>
 772 <td align='center' colspan='3'>@Test</td>
 773 </tr>
 774 <tr>
 775 <td>&nbsp;</td>
 776 <td>testConstrainedParametersMaxValues</td>
 777 <td>runner non_windows </td>
 778 </tr>
 779 <tr>
 780 <td>&nbsp;</td>
 781 <td>testConstrainedParametersRandomValues</td>
 782 <td>runner non_windows </td>
 783 </tr>
 784 <tr>
 785 <td>&nbsp;</td>
 786 <td>testConstrainedParametersMinValues</td>
 787 <td>runner non_windows </td>
 788 </tr>
 789 <tr>
 790 <td>&nbsp;</td>
 791 <td>testArguments</td>
 792 <td>runner non_windows </td>
 793 </tr>
 794 <tr>
 795 <td>&nbsp;</td>
 796 <td>testOptions</td>
 797 <td>runner non_windows </td>
 798 </tr>
 799 <tr>
 800 <td>&nbsp;</td>
 801 <td>testDefaultParameters</td>
 802 <td>runner non_windows </td>
 803 </tr>
 804 <tr>
 805 <td>&nbsp;</td>
 806 <td>testParameters</td>
 807 <td>runner non_windows </td>
 808 </tr>
 809 <tr>
 810 <td>&nbsp;</td>
 811 <td>testConfiguration</td>
 812 <td>&nbsp;</td></tr>
 813 <tr>
 814 <td align='center' colspan='3'>@BeforeClass</td>
 815 </tr>
 816 <tr>
 817 <td align='center' colspan='3'>@BeforeMethod</td>
 818 </tr>
 819 <tr>
 820 <td>&nbsp;</td>
 821 <td>setup</td>
 822 <td>runner non_windows </td>
 823 </tr>
 824 <tr>
 825 <td align='center' colspan='3'>@AfterMethod</td>
 826 </tr>
 827 <tr>
 828 <td align='center' colspan='3'>@AfterClass</td>
 829 </tr>
 830 <tr>
 831 <td>compbio.metadata.RunnerConfigTester</td>
 832 <td>&nbsp;</td><td>&nbsp;</td></tr>
 833 <tr>
 834 <td align='center' colspan='3'>@Test</td>
 835 </tr>
 836 <tr>
 837 <td>&nbsp;</td>
 838 <td>testValidateUpperBoundaryConstrainCheck</td>
 839 <td>&nbsp;</td></tr>
 840 <tr>
 841 <td>&nbsp;</td>
 842 <td>testOptionSetInvalidValue</td>
 843 <td>&nbsp;</td></tr>
 844 <tr>
 845 <td>&nbsp;</td>
 846 <td>testValidateBoundaryConstrainCheck</td>
 847 <td>&nbsp;</td></tr>
 848 <tr>
 849 <td>&nbsp;</td>
 850 <td>testValidateValueConstrain</td>
 851 <td>&nbsp;</td></tr>
 852 <tr>
 853 <td>&nbsp;</td>
 854 <td>testCreateParameterWithValidValueConstrain</td>
 855 <td>&nbsp;</td></tr>
 856 <tr>
 857 <td>&nbsp;</td>
 858 <td>testValidateLowerBoundaryConstrainCheck</td>
 859 <td>&nbsp;</td></tr>
 860 <tr>
 861 <td>&nbsp;</td>
 862 <td>testOptionNoDefaultValidate</td>
 863 <td>&nbsp;</td></tr>
 864 <tr>
 865 <td>&nbsp;</td>
 866 <td>testCreateParameter</td>
 867 <td>&nbsp;</td></tr>
 868 <tr>
 869 <td>&nbsp;</td>
 870 <td>testOptionToCommand</td>
 871 <td>&nbsp;</td></tr>
 872 <tr>
 873 <td>&nbsp;</td>
 874 <td>testParameterToCommand</td>
 875 <td>&nbsp;</td></tr>
 876 <tr>
 877 <td>&nbsp;</td>
 878 <td>testCreateNumParameterWithoutValidValue</td>
 879 <td>&nbsp;</td></tr>
 880 <tr>
 881 <td>&nbsp;</td>
 882 <td>testValidate</td>
 883 <td>&nbsp;</td></tr>
 884 <tr>
 885 <td align='center' colspan='3'>@BeforeClass</td>
 886 </tr>
 887 <tr>
 888 <td align='center' colspan='3'>@BeforeMethod</td>
 889 </tr>
 890 <tr>
 891 <td>&nbsp;</td>
 892 <td>setup</td>
 893 <td>&nbsp;</td></tr>
 894 <tr>
 895 <td align='center' colspan='3'>@AfterMethod</td>
 896 </tr>
 897 <tr>
 898 <td align='center' colspan='3'>@AfterClass</td>
 899 </tr>
 900 <tr>
 901 <td>compbio.runner.disorder.JronnTester</td>
 902 <td>&nbsp;</td><td>&nbsp;</td></tr>
 903 <tr>
 904 <td align='center' colspan='3'>@Test</td>
 905 </tr>
 906 <tr>
 907 <td>&nbsp;</td>
 908 <td>testRunOnCluster</td>
 909 <td>cluster runner </td>
 910 </tr>
 911 <tr>
 912 <td>&nbsp;</td>
 913 <td>testPersistance</td>
 914 <td>runner </td>
 915 </tr>
 916 <tr>
 917 <td>&nbsp;</td>
 918 <td>testRunOnClusterAsync</td>
 919 <td>cluster runner </td>
 920 </tr>
 921 <tr>
 922 <td>&nbsp;</td>
 923 <td>testRunLocallyOnTwoCpu</td>
 924 <td>runner </td>
 925 </tr>
 926 <tr>
 927 <td>&nbsp;</td>
 928 <td>testConfigurationLoading</td>
 929 <td>runner </td>
 930 </tr>
 931 <tr>
 932 <td>&nbsp;</td>
 933 <td>readStatistics</td>
 934 <td>runner </td>
 935 </tr>
 936 <tr>
 937 <td>&nbsp;</td>
 938 <td>testRunLocally</td>
 939 <td>runner </td>
 940 </tr>
 941 <tr>
 942 <td align='center' colspan='3'>@BeforeClass</td>
 943 </tr>
 944 <tr>
 945 <td align='center' colspan='3'>@BeforeMethod</td>
 946 </tr>
 947 <tr>
 948 <td>&nbsp;</td>
 949 <td>init</td>
 950 <td>&nbsp;</td></tr>
 951 <tr>
 952 <td align='center' colspan='3'>@AfterMethod</td>
 953 </tr>
 954 <tr>
 955 <td align='center' colspan='3'>@AfterClass</td>
 956 </tr>
 957 <tr>
 958 <td>compbio.runner.msa.MafftParametersTester</td>
 959 <td>&nbsp;</td><td>&nbsp;</td></tr>
 960 <tr>
 961 <td align='center' colspan='3'>@Test</td>
 962 </tr>
 963 <tr>
 964 <td>&nbsp;</td>
 965 <td>testConstrainedParametersMaxValues</td>
 966 <td>runner non_windows </td>
 967 </tr>
 968 <tr>
 969 <td>&nbsp;</td>
 970 <td>testConstrainedParametersRandomValues</td>
 971 <td>runner non_windows </td>
 972 </tr>
 973 <tr>
 974 <td>&nbsp;</td>
 975 <td>testConstrainedParametersMinValues</td>
 976 <td>runner non_windows </td>
 977 </tr>
 978 <tr>
 979 <td>&nbsp;</td>
 980 <td>testArguments</td>
 981 <td>runner non_windows </td>
 982 </tr>
 983 <tr>
 984 <td>&nbsp;</td>
 985 <td>testOptions</td>
 986 <td>runner non_windows </td>
 987 </tr>
 988 <tr>
 989 <td>&nbsp;</td>
 990 <td>testDefaultParameters</td>
 991 <td>runner non_windows </td>
 992 </tr>
 993 <tr>
 994 <td>&nbsp;</td>
 995 <td>testParameters</td>
 996 <td>runner non_windows </td>
 997 </tr>
 998 <tr>
 999 <td>&nbsp;</td>
1000 <td>testPresets</td>
1001 <td>runner non_windows </td>
1002 </tr>
1003 <tr>
1004 <td>&nbsp;</td>
1005 <td>testConfiguration</td>
1006 <td>&nbsp;</td></tr>
1007 <tr>
1008 <td align='center' colspan='3'>@BeforeClass</td>
1009 </tr>
1010 <tr>
1011 <td align='center' colspan='3'>@BeforeMethod</td>
1012 </tr>
1013 <tr>
1014 <td>&nbsp;</td>
1015 <td>setup</td>
1016 <td>runner non_windows </td>
1017 </tr>
1018 <tr>
1019 <td align='center' colspan='3'>@AfterMethod</td>
1020 </tr>
1021 <tr>
1022 <td align='center' colspan='3'>@AfterClass</td>
1023 </tr>
1024 <tr>
1025 <td>compbio.runner._impl.RonnTester</td>
1026 <td>&nbsp;</td><td>&nbsp;</td></tr>
1027 <tr>
1028 <td align='center' colspan='3'>@Test</td>
1029 </tr>
1030 <tr>
1031 <td>&nbsp;</td>
1032 <td>testBuildCommand</td>
1033 <td>cluster runner </td>
1034 </tr>
1035 <tr>
1036 <td>&nbsp;</td>
1037 <td>testGetTestCommand</td>
1038 <td>&nbsp;</td></tr>
1039 <tr>
1040 <td align='center' colspan='3'>@BeforeClass</td>
1041 </tr>
1042 <tr>
1043 <td align='center' colspan='3'>@BeforeMethod</td>
1044 </tr>
1045 <tr>
1046 <td align='center' colspan='3'>@AfterMethod</td>
1047 </tr>
1048 <tr>
1049 <td align='center' colspan='3'>@AfterClass</td>
1050 </tr>
1051 <tr>
1052 <td>compbio.runner.msa.ProbconsTester</td>
1053 <td>&nbsp;</td><td>&nbsp;</td></tr>
1054 <tr>
1055 <td align='center' colspan='3'>@Test</td>
1056 </tr>
1057 <tr>
1058 <td>&nbsp;</td>
1059 <td>testExecute</td>
1060 <td>runner non_windows </td>
1061 </tr>
1062 <tr>
1063 <td>&nbsp;</td>
1064 <td>testPersistance</td>
1065 <td>runner non_windows </td>
1066 </tr>
1067 <tr>
1068 <td>&nbsp;</td>
1069 <td>testClusterExecute</td>
1070 <td>cluster runner non_windows </td>
1071 </tr>
1072 <tr>
1073 <td>&nbsp;</td>
1074 <td>testSetInputTester</td>
1075 <td>runner non_windows </td>
1076 </tr>
1077 <tr>
1078 <td>&nbsp;</td>
1079 <td>testConfigurationLoading</td>
1080 <td>runner </td>
1081 </tr>
1082 <tr>
1083 <td>&nbsp;</td>
1084 <td>readStatistics</td>
1085 <td>runner non_windows </td>
1086 </tr>
1087 <tr>
1088 <td align='center' colspan='3'>@BeforeClass</td>
1089 </tr>
1090 <tr>
1091 <td align='center' colspan='3'>@BeforeMethod</td>
1092 </tr>
1093 <tr>
1094 <td>&nbsp;</td>
1095 <td>init</td>
1096 <td>cluster runner non_windows </td>
1097 </tr>
1098 <tr>
1099 <td align='center' colspan='3'>@AfterMethod</td>
1100 </tr>
1101 <tr>
1102 <td align='center' colspan='3'>@AfterClass</td>
1103 </tr>
1104 <tr>
1105 <td>compbio.engine.conf.PropertyHelperManagerTester</td>
1106 <td>&nbsp;</td><td>&nbsp;</td></tr>
1107 <tr>
1108 <td align='center' colspan='3'>@Test</td>
1109 </tr>
1110 <tr>
1111 <td>&nbsp;</td>
1112 <td>testClusterEngineConf</td>
1113 <td>cluster </td>
1114 </tr>
1115 <tr>
1116 <td>&nbsp;</td>
1117 <td>validateClustalConfiguration</td>
1118 <td>&nbsp;</td></tr>
1119 <tr>
1120 <td>&nbsp;</td>
1121 <td>validateTcoffeeConfiguration</td>
1122 <td>&nbsp;</td></tr>
1123 <tr>
1124 <td>&nbsp;</td>
1125 <td>validateMuscleConfiguration</td>
1126 <td>&nbsp;</td></tr>
1127 <tr>
1128 <td>&nbsp;</td>
1129 <td>validateMafftConfiguration</td>
1130 <td>&nbsp;</td></tr>
1131 <tr>
1132 <td align='center' colspan='3'>@BeforeClass</td>
1133 </tr>
1134 <tr>
1135 <td>&nbsp;</td>
1136 <td>testLoadResources</td>
1137 <td>&nbsp;</td></tr>
1138 <tr>
1139 <td align='center' colspan='3'>@BeforeMethod</td>
1140 </tr>
1141 <tr>
1142 <td align='center' colspan='3'>@AfterMethod</td>
1143 </tr>
1144 <tr>
1145 <td align='center' colspan='3'>@AfterClass</td>
1146 </tr>
1147 <tr>
1148 <td>compbio.metadata.OptionCombinatorTester</td>
1149 <td>&nbsp;</td><td>&nbsp;</td></tr>
1150 <tr>
1151 <td align='center' colspan='3'>@Test</td>
1152 </tr>
1153 <tr>
1154 <td>&nbsp;</td>
1155 <td>testgetAllParameters</td>
1156 <td>&nbsp;</td></tr>
1157 <tr>
1158 <td>&nbsp;</td>
1159 <td>testgetAllOptions</td>
1160 <td>&nbsp;</td></tr>
1161 <tr>
1162 <td align='center' colspan='3'>@BeforeClass</td>
1163 </tr>
1164 <tr>
1165 <td align='center' colspan='3'>@BeforeMethod</td>
1166 </tr>
1167 <tr>
1168 <td>&nbsp;</td>
1169 <td>setup</td>
1170 <td>&nbsp;</td></tr>
1171 <tr>
1172 <td align='center' colspan='3'>@AfterMethod</td>
1173 </tr>
1174 <tr>
1175 <td align='center' colspan='3'>@AfterClass</td>
1176 </tr>
1177 <tr>
1178 <td>compbio.engine.FilePullerTester</td>
1179 <td>&nbsp;</td><td>&nbsp;</td></tr>
1180 <tr>
1181 <td align='center' colspan='3'>@Test</td>
1182 </tr>
1183 <tr>
1184 <td>&nbsp;</td>
1185 <td>testGet</td>
1186 <td>&nbsp;</td></tr>
1187 <tr>
1188 <td>&nbsp;</td>
1189 <td>testCache</td>
1190 <td>engine </td>
1191 </tr>
1192 <tr>
1193 <td>&nbsp;</td>
1194 <td>testGetDelay</td>
1195 <td>engine </td>
1196 </tr>
1197 <tr>
1198 <td>&nbsp;</td>
1199 <td>testPull</td>
1200 <td>engine </td>
1201 </tr>
1202 <tr>
1203 <td align='center' colspan='3'>@BeforeClass</td>
1204 </tr>
1205 <tr>
1206 <td align='center' colspan='3'>@BeforeMethod</td>
1207 </tr>
1208 <tr>
1209 <td align='center' colspan='3'>@AfterMethod</td>
1210 </tr>
1211 <tr>
1212 <td align='center' colspan='3'>@AfterClass</td>
1213 </tr>
1214 <tr>
1215 <td>compbio.runner.msa.MuscleTester</td>
1216 <td>&nbsp;</td><td>&nbsp;</td></tr>
1217 <tr>
1218 <td align='center' colspan='3'>@Test</td>
1219 </tr>
1220 <tr>
1221 <td>&nbsp;</td>
1222 <td>testRunOnCluster</td>
1223 <td>cluster runner </td>
1224 </tr>
1225 <tr>
1226 <td>&nbsp;</td>
1227 <td>testPersistance</td>
1228 <td>runner </td>
1229 </tr>
1230 <tr>
1231 <td>&nbsp;</td>
1232 <td>testRunOnClusterAsync</td>
1233 <td>cluster runner </td>
1234 </tr>
1235 <tr>
1236 <td>&nbsp;</td>
1237 <td>testConfigurationLoading</td>
1238 <td>runner </td>
1239 </tr>
1240 <tr>
1241 <td>&nbsp;</td>
1242 <td>readStatistics</td>
1243 <td>runner </td>
1244 </tr>
1245 <tr>
1246 <td>&nbsp;</td>
1247 <td>testRunLocally</td>
1248 <td>runner </td>
1249 </tr>
1250 <tr>
1251 <td align='center' colspan='3'>@BeforeClass</td>
1252 </tr>
1253 <tr>
1254 <td align='center' colspan='3'>@BeforeMethod</td>
1255 </tr>
1256 <tr>
1257 <td>&nbsp;</td>
1258 <td>init</td>
1259 <td>&nbsp;</td></tr>
1260 <tr>
1261 <td align='center' colspan='3'>@AfterMethod</td>
1262 </tr>
1263 <tr>
1264 <td align='center' colspan='3'>@AfterClass</td>
1265 </tr>
1266 <tr>
1267 <td>compbio.runner.msa.TcoffeeTester</td>
1268 <td>&nbsp;</td><td>&nbsp;</td></tr>
1269 <tr>
1270 <td align='center' colspan='3'>@Test</td>
1271 </tr>
1272 <tr>
1273 <td>&nbsp;</td>
1274 <td>testExecute</td>
1275 <td>runner non_windows </td>
1276 </tr>
1277 <tr>
1278 <td>&nbsp;</td>
1279 <td>testPersistance</td>
1280 <td>cluster runner non_windows </td>
1281 </tr>
1282 <tr>
1283 <td>&nbsp;</td>
1284 <td>testNcore</td>
1285 <td>runner non_windows </td>
1286 </tr>
1287 <tr>
1288 <td>&nbsp;</td>
1289 <td>testClusterExecute</td>
1290 <td>cluster runner non_windows </td>
1291 </tr>
1292 <tr>
1293 <td>&nbsp;</td>
1294 <td>testConfigurationLoading</td>
1295 <td>runner </td>
1296 </tr>
1297 <tr>
1298 <td>&nbsp;</td>
1299 <td>readStatistics</td>
1300 <td>runner non_windows </td>
1301 </tr>
1302 <tr>
1303 <td align='center' colspan='3'>@BeforeClass</td>
1304 </tr>
1305 <tr>
1306 <td align='center' colspan='3'>@BeforeMethod</td>
1307 </tr>
1308 <tr>
1309 <td>&nbsp;</td>
1310 <td>init</td>
1311 <td>cluster runner non_windows </td>
1312 </tr>
1313 <tr>
1314 <td align='center' colspan='3'>@AfterMethod</td>
1315 </tr>
1316 <tr>
1317 <td align='center' colspan='3'>@AfterClass</td>
1318 </tr>
1319 <tr>
1320 <td>compbio.runner._impl.OBTester</td>
1321 <td>&nbsp;</td><td>&nbsp;</td></tr>
1322 <tr>
1323 <td align='center' colspan='3'>@Test</td>
1324 </tr>
1325 <tr>
1326 <td>&nbsp;</td>
1327 <td>testBuildCommand</td>
1328 <td>cluster runner </td>
1329 </tr>
1330 <tr>
1331 <td>&nbsp;</td>
1332 <td>testGetTestCommand</td>
1333 <td>&nbsp;</td></tr>
1334 <tr>
1335 <td>&nbsp;</td>
1336 <td>testGetTestArgsCommand</td>
1337 <td>&nbsp;</td></tr>
1338 <tr>
1339 <td align='center' colspan='3'>@BeforeClass</td>
1340 </tr>
1341 <tr>
1342 <td align='center' colspan='3'>@BeforeMethod</td>
1343 </tr>
1344 <tr>
1345 <td align='center' colspan='3'>@AfterMethod</td>
1346 </tr>
1347 <tr>
1348 <td align='center' colspan='3'>@AfterClass</td>
1349 </tr>
1350 <tr>
1351 <td>compbio.runner.msa.LimitTester</td>
1352 <td>&nbsp;</td><td>&nbsp;</td></tr>
1353 <tr>
1354 <td align='center' colspan='3'>@Test</td>
1355 </tr>
1356 <tr>
1357 <td>&nbsp;</td>
1358 <td>testLimitExceeded</td>
1359 <td>&nbsp;</td></tr>
1360 <tr>
1361 <td>&nbsp;</td>
1362 <td>testLoadLimits</td>
1363 <td>&nbsp;</td></tr>
1364 <tr>
1365 <td align='center' colspan='3'>@BeforeClass</td>
1366 </tr>
1367 <tr>
1368 <td align='center' colspan='3'>@BeforeMethod</td>
1369 </tr>
1370 <tr>
1371 <td>&nbsp;</td>
1372 <td>setup</td>
1373 <td>runner </td>
1374 </tr>
1375 <tr>
1376 <td align='center' colspan='3'>@AfterMethod</td>
1377 </tr>
1378 <tr>
1379 <td align='center' colspan='3'>@AfterClass</td>
1380 </tr>
1381 <tr>
1382 <td>compbio.engine.local.LocalRunnerTester</td>
1383 <td>&nbsp;</td><td>&nbsp;</td></tr>
1384 <tr>
1385 <td align='center' colspan='3'>@Test</td>
1386 </tr>
1387 <tr>
1388 <td>&nbsp;</td>
1389 <td>testCancelLocally</td>
1390 <td>engine </td>
1391 </tr>
1392 <tr>
1393 <td>&nbsp;</td>
1394 <td>testMultipleCancelLocally</td>
1395 <td>engine </td>
1396 </tr>
1397 <tr>
1398 <td>&nbsp;</td>
1399 <td>testCancelCompletedTaskLocally</td>
1400 <td>engine </td>
1401 </tr>
1402 <tr>
1403 <td align='center' colspan='3'>@BeforeClass</td>
1404 </tr>
1405 <tr>
1406 <td align='center' colspan='3'>@BeforeMethod</td>
1407 </tr>
1408 <tr>
1409 <td align='center' colspan='3'>@AfterMethod</td>
1410 </tr>
1411 <tr>
1412 <td align='center' colspan='3'>@AfterClass</td>
1413 </tr>
1414 <tr>
1415 <td>compbio.runner._impl.Tmhmm2Tester</td>
1416 <td>&nbsp;</td><td>&nbsp;</td></tr>
1417 <tr>
1418 <td align='center' colspan='3'>@Test</td>
1419 </tr>
1420 <tr>
1421 <td>&nbsp;</td>
1422 <td>testBuildCommand</td>
1423 <td>cluster runner </td>
1424 </tr>
1425 <tr>
1426 <td>&nbsp;</td>
1427 <td>testGetTestCommand</td>
1428 <td>&nbsp;</td></tr>
1429 <tr>
1430 <td align='center' colspan='3'>@BeforeClass</td>
1431 </tr>
1432 <tr>
1433 <td align='center' colspan='3'>@BeforeMethod</td>
1434 </tr>
1435 <tr>
1436 <td align='center' colspan='3'>@AfterMethod</td>
1437 </tr>
1438 <tr>
1439 <td align='center' colspan='3'>@AfterClass</td>
1440 </tr>
1441 <tr>
1442 <td>compbio.runner.msa.MuscleParametersTester</td>
1443 <td>&nbsp;</td><td>&nbsp;</td></tr>
1444 <tr>
1445 <td align='center' colspan='3'>@Test</td>
1446 </tr>
1447 <tr>
1448 <td>&nbsp;</td>
1449 <td>testConstrainedParametersMaxValues</td>
1450 <td>runner </td>
1451 </tr>
1452 <tr>
1453 <td>&nbsp;</td>
1454 <td>testConstrainedParametersRandomValues</td>
1455 <td>runner </td>
1456 </tr>
1457 <tr>
1458 <td>&nbsp;</td>
1459 <td>testConstrainedParametersMinValues</td>
1460 <td>runner </td>
1461 </tr>
1462 <tr>
1463 <td>&nbsp;</td>
1464 <td>testArguments</td>
1465 <td>runner </td>
1466 </tr>
1467 <tr>
1468 <td>&nbsp;</td>
1469 <td>testOptions</td>
1470 <td>runner </td>
1471 </tr>
1472 <tr>
1473 <td>&nbsp;</td>
1474 <td>testDefaultParameters</td>
1475 <td>runner </td>
1476 </tr>
1477 <tr>
1478 <td>&nbsp;</td>
1479 <td>testParameters</td>
1480 <td>runner </td>
1481 </tr>
1482 <tr>
1483 <td>&nbsp;</td>
1484 <td>testPresets</td>
1485 <td>runner </td>
1486 </tr>
1487 <tr>
1488 <td>&nbsp;</td>
1489 <td>testConfiguration</td>
1490 <td>&nbsp;</td></tr>
1491 <tr>
1492 <td align='center' colspan='3'>@BeforeClass</td>
1493 </tr>
1494 <tr>
1495 <td align='center' colspan='3'>@BeforeMethod</td>
1496 </tr>
1497 <tr>
1498 <td>&nbsp;</td>
1499 <td>setup</td>
1500 <td>runner </td>
1501 </tr>
1502 <tr>
1503 <td align='center' colspan='3'>@AfterMethod</td>
1504 </tr>
1505 <tr>
1506 <td align='center' colspan='3'>@AfterClass</td>
1507 </tr>
1508 <tr>
1509 <td>compbio.data.sequence.FastaSequenceGeneratorTester</td>
1510 <td>&nbsp;</td><td>&nbsp;</td></tr>
1511 <tr>
1512 <td align='center' colspan='3'>@Test</td>
1513 </tr>
1514 <tr>
1515 <td>&nbsp;</td>
1516 <td>testProteinSequenceGeneration</td>
1517 <td>&nbsp;</td></tr>
1518 <tr>
1519 <td align='center' colspan='3'>@BeforeClass</td>
1520 </tr>
1521 <tr>
1522 <td align='center' colspan='3'>@BeforeMethod</td>
1523 </tr>
1524 <tr>
1525 <td align='center' colspan='3'>@AfterMethod</td>
1526 </tr>
1527 <tr>
1528 <td align='center' colspan='3'>@AfterClass</td>
1529 </tr>
1530 <tr>
1531 <td>compbio.engine.cluster.drmaa.ClusterSessionTester</td>
1532 <td>&nbsp;</td><td>&nbsp;</td></tr>
1533 <tr>
1534 <td align='center' colspan='3'>@Test</td>
1535 </tr>
1536 <tr>
1537 <td>&nbsp;</td>
1538 <td>testTaskList</td>
1539 <td>engine cluster </td>
1540 </tr>
1541 <tr>
1542 <td align='center' colspan='3'>@BeforeClass</td>
1543 </tr>
1544 <tr>
1545 <td align='center' colspan='3'>@BeforeMethod</td>
1546 </tr>
1547 <tr>
1548 <td align='center' colspan='3'>@AfterMethod</td>
1549 </tr>
1550 <tr>
1551 <td align='center' colspan='3'>@AfterClass</td>
1552 </tr>
1553 <tr>
1554 <td>compbio.data.sequence.FastaReaderTester</td>
1555 <td>&nbsp;</td><td>&nbsp;</td></tr>
1556 <tr>
1557 <td align='center' colspan='3'>@Test</td>
1558 </tr>
1559 <tr>
1560 <td>&nbsp;</td>
1561 <td>test</td>
1562 <td>&nbsp;</td></tr>
1563 <tr>
1564 <td align='center' colspan='3'>@BeforeClass</td>
1565 </tr>
1566 <tr>
1567 <td align='center' colspan='3'>@BeforeMethod</td>
1568 </tr>
1569 <tr>
1570 <td align='center' colspan='3'>@AfterMethod</td>
1571 </tr>
1572 <tr>
1573 <td align='center' colspan='3'>@AfterClass</td>
1574 </tr>
1575 <tr>
1576 <td>compbio.data.sequence.FastaSequenceTester</td>
1577 <td>&nbsp;</td><td>&nbsp;</td></tr>
1578 <tr>
1579 <td align='center' colspan='3'>@Test</td>
1580 </tr>
1581 <tr>
1582 <td>&nbsp;</td>
1583 <td>testGetFormattedFasta</td>
1584 <td>&nbsp;</td></tr>
1585 <tr>
1586 <td align='center' colspan='3'>@BeforeClass</td>
1587 </tr>
1588 <tr>
1589 <td align='center' colspan='3'>@BeforeMethod</td>
1590 </tr>
1591 <tr>
1592 <td align='center' colspan='3'>@AfterMethod</td>
1593 </tr>
1594 <tr>
1595 <td align='center' colspan='3'>@AfterClass</td>
1596 </tr>
1597 <tr>
1598 <td>compbio.data.sequence.SequenceUtilTester</td>
1599 <td>&nbsp;</td><td>&nbsp;</td></tr>
1600 <tr>
1601 <td align='center' colspan='3'>@Test</td>
1602 </tr>
1603 <tr>
1604 <td>&nbsp;</td>
1605 <td>testReadIUPredForGlobDomain</td>
1606 <td>&nbsp;</td></tr>
1607 <tr>
1608 <td>&nbsp;</td>
1609 <td>testDeepCleanSequence</td>
1610 <td>&nbsp;</td></tr>
1611 <tr>
1612 <td>&nbsp;</td>
1613 <td>testReadIUPredForShortAndLongDisorder</td>
1614 <td>&nbsp;</td></tr>
1615 <tr>
1616 <td>&nbsp;</td>
1617 <td>testCleanProteinSequence</td>
1618 <td>&nbsp;</td></tr>
1619 <tr>
1620 <td>&nbsp;</td>
1621 <td>testReadWriteFasta</td>
1622 <td>&nbsp;</td></tr>
1623 <tr>
1624 <td>&nbsp;</td>
1625 <td>testReadAAConResults</td>
1626 <td>&nbsp;</td></tr>
1627 <tr>
1628 <td>&nbsp;</td>
1629 <td>testReadGlobPlotResults</td>
1630 <td>&nbsp;</td></tr>
1631 <tr>
1632 <td>&nbsp;</td>
1633 <td>testReadDisemblResults</td>
1634 <td>&nbsp;</td></tr>
1635 <tr>
1636 <td>&nbsp;</td>
1637 <td>loadJronnFile</td>
1638 <td>&nbsp;</td></tr>
1639 <tr>
1640 <td>&nbsp;</td>
1641 <td>testisNonAmbNucleotideSequence</td>
1642 <td>&nbsp;</td></tr>
1643 <tr>
1644 <td>&nbsp;</td>
1645 <td>testisProteinSequence</td>
1646 <td>&nbsp;</td></tr>
1647 <tr>
1648 <td>&nbsp;</td>
1649 <td>testCleanSequence</td>
1650 <td>&nbsp;</td></tr>
1651 <tr>
1652 <td align='center' colspan='3'>@BeforeClass</td>
1653 </tr>
1654 <tr>
1655 <td align='center' colspan='3'>@BeforeMethod</td>
1656 </tr>
1657 <tr>
1658 <td align='center' colspan='3'>@AfterMethod</td>
1659 </tr>
1660 <tr>
1661 <td align='center' colspan='3'>@AfterClass</td>
1662 </tr>
1663 <tr>
1664 <td>compbio.runner.msa.TcoffeeParametersTester</td>
1665 <td>&nbsp;</td><td>&nbsp;</td></tr>
1666 <tr>
1667 <td align='center' colspan='3'>@Test</td>
1668 </tr>
1669 <tr>
1670 <td>&nbsp;</td>
1671 <td>testConstrainedParametersMaxValues</td>
1672 <td>runner non_windows </td>
1673 </tr>
1674 <tr>
1675 <td>&nbsp;</td>
1676 <td>testConstrainedParametersRandomValues</td>
1677 <td>runner non_windows </td>
1678 </tr>
1679 <tr>
1680 <td>&nbsp;</td>
1681 <td>testConstrainedParametersMinValues</td>
1682 <td>runner non_windows </td>
1683 </tr>
1684 <tr>
1685 <td>&nbsp;</td>
1686 <td>testArguments</td>
1687 <td>runner non_windows </td>
1688 </tr>
1689 <tr>
1690 <td>&nbsp;</td>
1691 <td>testOptions</td>
1692 <td>runner non_windows </td>
1693 </tr>
1694 <tr>
1695 <td>&nbsp;</td>
1696 <td>testDefaultParameters</td>
1697 <td>runner non_windows </td>
1698 </tr>
1699 <tr>
1700 <td>&nbsp;</td>
1701 <td>testParameters</td>
1702 <td>runner non_windows </td>
1703 </tr>
1704 <tr>
1705 <td>&nbsp;</td>
1706 <td>testPresets</td>
1707 <td>runner non_windows </td>
1708 </tr>
1709 <tr>
1710 <td>&nbsp;</td>
1711 <td>testConfiguration</td>
1712 <td>&nbsp;</td></tr>
1713 <tr>
1714 <td align='center' colspan='3'>@BeforeClass</td>
1715 </tr>
1716 <tr>
1717 <td align='center' colspan='3'>@BeforeMethod</td>
1718 </tr>
1719 <tr>
1720 <td>&nbsp;</td>
1721 <td>setup</td>
1722 <td>runner non_windows </td>
1723 </tr>
1724 <tr>
1725 <td align='center' colspan='3'>@AfterMethod</td>
1726 </tr>
1727 <tr>
1728 <td align='center' colspan='3'>@AfterClass</td>
1729 </tr>
1730 <tr>
1731 <td>compbio.engine.cluster.drmaa.UtilTester</td>
1732 <td>&nbsp;</td><td>&nbsp;</td></tr>
1733 <tr>
1734 <td align='center' colspan='3'>@Test</td>
1735 </tr>
1736 <tr>
1737 <td>&nbsp;</td>
1738 <td>testParser</td>
1739 <td>&nbsp;</td></tr>
1740 <tr>
1741 <td align='center' colspan='3'>@BeforeClass</td>
1742 </tr>
1743 <tr>
1744 <td align='center' colspan='3'>@BeforeMethod</td>
1745 </tr>
1746 <tr>
1747 <td align='center' colspan='3'>@AfterMethod</td>
1748 </tr>
1749 <tr>
1750 <td align='center' colspan='3'>@AfterClass</td>
1751 </tr>
1752 <tr>
1753 <td>compbio.runner.msa.ClustalWTester</td>
1754 <td>&nbsp;</td><td>&nbsp;</td></tr>
1755 <tr>
1756 <td align='center' colspan='3'>@Test</td>
1757 </tr>
1758 <tr>
1759 <td>&nbsp;</td>
1760 <td>testRunOnCluster</td>
1761 <td>cluster runner </td>
1762 </tr>
1763 <tr>
1764 <td>&nbsp;</td>
1765 <td>testAddParameters</td>
1766 <td>&nbsp;</td></tr>
1767 <tr>
1768 <td>&nbsp;</td>
1769 <td>testPersistance</td>
1770 <td>runner </td>
1771 </tr>
1772 <tr>
1773 <td>&nbsp;</td>
1774 <td>testOptionsLocally</td>
1775 <td>runner </td>
1776 </tr>
1777 <tr>
1778 <td>&nbsp;</td>
1779 <td>readStatisticsClusterExecution</td>
1780 <td>cluster runner </td>
1781 </tr>
1782 <tr>
1783 <td>&nbsp;</td>
1784 <td>testRunWithMatrix</td>
1785 <td>runner </td>
1786 </tr>
1787 <tr>
1788 <td>&nbsp;</td>
1789 <td>testConfigurationLoading</td>
1790 <td>runner </td>
1791 </tr>
1792 <tr>
1793 <td>&nbsp;</td>
1794 <td>readStatistics</td>
1795 <td>runner </td>
1796 </tr>
1797 <tr>
1798 <td>&nbsp;</td>
1799 <td>testRunLocally</td>
1800 <td>runner </td>
1801 </tr>
1802 <tr>
1803 <td align='center' colspan='3'>@BeforeClass</td>
1804 </tr>
1805 <tr>
1806 <td align='center' colspan='3'>@BeforeMethod</td>
1807 </tr>
1808 <tr>
1809 <td align='center' colspan='3'>@AfterMethod</td>
1810 </tr>
1811 <tr>
1812 <td align='center' colspan='3'>@AfterClass</td>
1813 </tr>
1814 <tr>
1815 <td>compbio.engine.conf.DirectoryManagerTester</td>
1816 <td>&nbsp;</td><td>&nbsp;</td></tr>
1817 <tr>
1818 <td align='center' colspan='3'>@Test</td>
1819 </tr>
1820 <tr>
1821 <td>&nbsp;</td>
1822 <td>testGetDirectory</td>
1823 <td>&nbsp;</td></tr>
1824 <tr>
1825 <td>&nbsp;</td>
1826 <td>testNanoTime</td>
1827 <td>&nbsp;</td></tr>
1828 <tr>
1829 <td align='center' colspan='3'>@BeforeClass</td>
1830 </tr>
1831 <tr>
1832 <td align='center' colspan='3'>@BeforeMethod</td>
1833 </tr>
1834 <tr>
1835 <td align='center' colspan='3'>@AfterMethod</td>
1836 </tr>
1837 <tr>
1838 <td align='center' colspan='3'>@AfterClass</td>
1839 </tr>
1840 <tr>
1841 <td>compbio.metadata.PresetTester</td>
1842 <td>&nbsp;</td><td>&nbsp;</td></tr>
1843 <tr>
1844 <td align='center' colspan='3'>@Test</td>
1845 </tr>
1846 <tr>
1847 <td>&nbsp;</td>
1848 <td>testPresetWithMuptiOptions</td>
1849 <td>&nbsp;</td></tr>
1850 <tr>
1851 <td>&nbsp;</td>
1852 <td>marshallPreset</td>
1853 <td>&nbsp;</td></tr>
1854 <tr>
1855 <td>&nbsp;</td>
1856 <td>validatePresets</td>
1857 <td>&nbsp;</td></tr>
1858 <tr>
1859 <td align='center' colspan='3'>@BeforeClass</td>
1860 </tr>
1861 <tr>
1862 <td align='center' colspan='3'>@BeforeMethod</td>
1863 </tr>
1864 <tr>
1865 <td align='center' colspan='3'>@AfterMethod</td>
1866 </tr>
1867 <tr>
1868 <td align='center' colspan='3'>@AfterClass</td>
1869 </tr>
1870 <tr>
1871 <td>compbio.metadata.OptionMarshallerTester</td>
1872 <td>&nbsp;</td><td>&nbsp;</td></tr>
1873 <tr>
1874 <td align='center' colspan='3'>@Test</td>
1875 </tr>
1876 <tr>
1877 <td>&nbsp;</td>
1878 <td>testUnMarshalling</td>
1879 <td>&nbsp;</td></tr>
1880 <tr>
1881 <td>&nbsp;</td>
1882 <td>testMarshalling</td>
1883 <td>&nbsp;</td></tr>
1884 <tr>
1885 <td align='center' colspan='3'>@BeforeClass</td>
1886 </tr>
1887 <tr>
1888 <td align='center' colspan='3'>@BeforeMethod</td>
1889 </tr>
1890 <tr>
1891 <td>&nbsp;</td>
1892 <td>setup</td>
1893 <td>&nbsp;</td></tr>
1894 <tr>
1895 <td align='center' colspan='3'>@AfterMethod</td>
1896 </tr>
1897 <tr>
1898 <td align='center' colspan='3'>@AfterClass</td>
1899 </tr>
1900 <tr>
1901 <td>compbio.runner.msa.ClustalWParametersTester</td>
1902 <td>&nbsp;</td><td>&nbsp;</td></tr>
1903 <tr>
1904 <td align='center' colspan='3'>@Test</td>
1905 </tr>
1906 <tr>
1907 <td>&nbsp;</td>
1908 <td>testConstrainedParametersMaxValues</td>
1909 <td>runner </td>
1910 </tr>
1911 <tr>
1912 <td>&nbsp;</td>
1913 <td>testConstrainedParametersRandomValues</td>
1914 <td>runner </td>
1915 </tr>
1916 <tr>
1917 <td>&nbsp;</td>
1918 <td>testConstrainedParametersMinValues</td>
1919 <td>runner </td>
1920 </tr>
1921 <tr>
1922 <td>&nbsp;</td>
1923 <td>testArguments</td>
1924 <td>runner </td>
1925 </tr>
1926 <tr>
1927 <td>&nbsp;</td>
1928 <td>testOptions</td>
1929 <td>runner </td>
1930 </tr>
1931 <tr>
1932 <td>&nbsp;</td>
1933 <td>testDefaultParameters</td>
1934 <td>runner </td>
1935 </tr>
1936 <tr>
1937 <td>&nbsp;</td>
1938 <td>testParameters</td>
1939 <td>runner </td>
1940 </tr>
1941 <tr>
1942 <td>&nbsp;</td>
1943 <td>testPresets</td>
1944 <td>runner </td>
1945 </tr>
1946 <tr>
1947 <td>&nbsp;</td>
1948 <td>testConfiguration</td>
1949 <td>&nbsp;</td></tr>
1950 <tr>
1951 <td align='center' colspan='3'>@BeforeClass</td>
1952 </tr>
1953 <tr>
1954 <td align='center' colspan='3'>@BeforeMethod</td>
1955 </tr>
1956 <tr>
1957 <td>&nbsp;</td>
1958 <td>setup</td>
1959 <td>runner </td>
1960 </tr>
1961 <tr>
1962 <td align='center' colspan='3'>@AfterMethod</td>
1963 </tr>
1964 <tr>
1965 <td align='center' colspan='3'>@AfterClass</td>
1966 </tr>
1967 <tr>
1968 <td>compbio.engine.conf.RunnerConfigMarshallerTester</td>
1969 <td>&nbsp;</td><td>&nbsp;</td></tr>
1970 <tr>
1971 <td align='center' colspan='3'>@Test</td>
1972 </tr>
1973 <tr>
1974 <td>&nbsp;</td>
1975 <td>testValidationOnMarshalling</td>
1976 <td>&nbsp;</td></tr>
1977 <tr>
1978 <td>&nbsp;</td>
1979 <td>testUnMarshalling</td>
1980 <td>&nbsp;</td></tr>
1981 <tr>
1982 <td>&nbsp;</td>
1983 <td>testValidation</td>
1984 <td>&nbsp;</td></tr>
1985 <tr>
1986 <td>&nbsp;</td>
1987 <td>testSchemaFromCodeGeneration</td>
1988 <td>&nbsp;</td></tr>
1989 <tr>
1990 <td>&nbsp;</td>
1991 <td>testMarshalling</td>
1992 <td>&nbsp;</td></tr>
1993 <tr>
1994 <td align='center' colspan='3'>@BeforeClass</td>
1995 </tr>
1996 <tr>
1997 <td align='center' colspan='3'>@BeforeMethod</td>
1998 </tr>
1999 <tr>
2000 <td>&nbsp;</td>
2001 <td>setup</td>
2002 <td>&nbsp;</td></tr>
2003 <tr>
2004 <td align='center' colspan='3'>@AfterMethod</td>
2005 </tr>
2006 <tr>
2007 <td align='center' colspan='3'>@AfterClass</td>
2008 </tr>
2009 </table>