tbtools-cli 1.2.0__py3-none-any.whl

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Files changed (139) hide show
  1. tbtools_cli/__init__.py +18 -0
  2. tbtools_cli/auto_commands.py +1149 -0
  3. tbtools_cli/cli.py +528 -0
  4. tbtools_cli/cli_load.py +352 -0
  5. tbtools_cli/cli_rpc.py +303 -0
  6. tbtools_cli/cli_tools_registry.py +93 -0
  7. tbtools_cli/cli_top.py +1160 -0
  8. tbtools_cli/command_metadata.json +4606 -0
  9. tbtools_cli/command_spec.py +382 -0
  10. tbtools_cli/config.example.toml +19 -0
  11. tbtools_cli/config.py +43 -0
  12. tbtools_cli/core.py +508 -0
  13. tbtools_cli/errors.py +38 -0
  14. tbtools_cli/presets.py +100 -0
  15. tbtools_cli/scenarios.py +92 -0
  16. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/AdmixtureCli.java +91 -0
  17. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/AmazingMetaCli.java +78 -0
  18. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/AssemblyRecommandCli.java +47 -0
  19. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BamIndexCli.java +31 -0
  20. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BamSortCli.java +43 -0
  21. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BamStateCli.java +49 -0
  22. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BarPlotterCli.java +18 -0
  23. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BarplotCli.java +168 -0
  24. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BatchVizMotifsCli.java +47 -0
  25. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BlastXmlConvertCli.java +45 -0
  26. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/BlatExecutorCli.java +66 -0
  27. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/CalcRepeatCli.java +62 -0
  28. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/CalculateSimilarityCli.java +34 -0
  29. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/CddMotifCli.java +46 -0
  30. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/CircleGeneViewerCli.java +81 -0
  31. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/CircosCli.java +76 -0
  32. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/ColorSchemeCli.java +29 -0
  33. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/CtgGroupCli.java +29 -0
  34. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/CubeHeatmapCli.java +70 -0
  35. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/DeHistCli.java +46 -0
  36. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/DegramdomCli.java +33 -0
  37. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/DiffExpCli.java +44 -0
  38. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/DistanceCli.java +53 -0
  39. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/DualSynCli.java +147 -0
  40. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/EggnogCli.java +39 -0
  41. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/ExprCorrCli.java +27 -0
  42. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/FastaMergerCli.java +36 -0
  43. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/FastaTableConvertCli.java +38 -0
  44. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/FileCleanerCli.java +31 -0
  45. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/FileSplitCli.java +15 -0
  46. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/FindBlockDualCli.java +71 -0
  47. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/FindBlockMultipleCli.java +67 -0
  48. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/FindPathCli.java +15 -0
  49. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GSEAWrapperCli.java +33 -0
  50. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GenBank2FastaCli.java +32 -0
  51. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GeneDensityCli.java +38 -0
  52. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GeneLocGffCli.java +140 -0
  53. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GeneStructureCli.java +90 -0
  54. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GenericCli.java +177 -0
  55. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GetENALinksCli.java +36 -0
  56. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GetSubNewickTreeCli.java +50 -0
  57. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GoEnrichCli.java +42 -0
  58. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GoLevelCli.java +59 -0
  59. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GroupedBarCli.java +95 -0
  60. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GsaDiagCli.java +45 -0
  61. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GxfFilterCli.java +39 -0
  62. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/GxfSortCli.java +23 -0
  63. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/HclustCli.java +43 -0
  64. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/HeatmapCli.java +89 -0
  65. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/HmmerSuiteCli.java +47 -0
  66. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/JgblocksCli.java +65 -0
  67. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/KeggEnrichCli.java +31 -0
  68. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/LayoutHeatmapCli.java +90 -0
  69. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MCScanXCli.java +80 -0
  70. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MCScanXFastCli.java +41 -0
  71. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MSACli.java +46 -0
  72. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MakeMotifCli.java +39 -0
  73. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MarkerDesignCli.java +62 -0
  74. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MarkerToolsCli.java +57 -0
  75. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/Mast2TabCli.java +27 -0
  76. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MastCli.java +54 -0
  77. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MastRunCli.java +39 -0
  78. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/Meme2TabCli.java +26 -0
  79. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MemeCli.java +74 -0
  80. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MemeRunCli.java +40 -0
  81. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MgGxfCli.java +35 -0
  82. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MicroSynCli.java +118 -0
  83. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MirIdentifyCli.java +55 -0
  84. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MotifCli.java +75 -0
  85. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MotifPatternCli.java +67 -0
  86. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MotifShiftCli.java +30 -0
  87. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MountainPlotCli.java +44 -0
  88. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/MultiSuperHeatCli.java +64 -0
  89. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/NeedlemanWunschCli.java +76 -0
  90. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PafGC.java +15 -0
  91. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PafVizCli.java +67 -0
  92. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PeakDistCli.java +58 -0
  93. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/Pep2CodonCli.java +26 -0
  94. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PfamMotifCli.java +43 -0
  95. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PhyloTreeCli.java +92 -0
  96. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PileUpCli.java +55 -0
  97. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PlantCAREResultClassifyCli.java +36 -0
  98. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/PubmedSearchCli.java +25 -0
  99. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/QpcrCli.java +69 -0
  100. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/QpcrDdctCli.java +28 -0
  101. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/QpcrProcCli.java +28 -0
  102. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/QuickGenomeDotCli.java +66 -0
  103. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/QuickProteinAnnoCli.java +34 -0
  104. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/QuickRunIQtreeCli.java +69 -0
  105. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/QuickTrimALCli.java +67 -0
  106. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/RNAplotCli.java +129 -0
  107. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/RegionBedToGFF3Cli.java +43 -0
  108. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/RegionDepthCli.java +29 -0
  109. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SamBamCovCli.java +33 -0
  110. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SeqConverterCli.java +17 -0
  111. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SeqLenTrackCli.java +41 -0
  112. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SeveralSpeciesCli.java +132 -0
  113. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SimpleEnricherCli.java +44 -0
  114. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SimpleHmmscanCli.java +32 -0
  115. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SixFrameTranlaterCli.java +35 -0
  116. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/StructAnnoCompareCli.java +66 -0
  117. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SubmitSMARTCli.java +30 -0
  118. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/SuperCircosCli.java +330 -0
  119. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TableColManipCli.java +56 -0
  120. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TableCollapseCli.java +33 -0
  121. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TargetScoreCli.java +47 -0
  122. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TauCalcCli.java +28 -0
  123. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TaxonomyBatchCli.java +72 -0
  124. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TreeCli.java +75 -0
  125. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TreeRootingCli.java +30 -0
  126. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/TrimMSACli.java +33 -0
  127. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/UnrootedTreeCli.java +44 -0
  128. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/UpSetCli.java +90 -0
  129. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/Venn5Cli.java +60 -0
  130. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/Venn6Cli.java +65 -0
  131. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/ViolinCli.java +66 -0
  132. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/VisualizeCli.java +57 -0
  133. tbtools_cli-1.2.0.data/data/tbtools_cli/bridges/VizGFACli.java +39 -0
  134. tbtools_cli-1.2.0.dist-info/METADATA +504 -0
  135. tbtools_cli-1.2.0.dist-info/RECORD +139 -0
  136. tbtools_cli-1.2.0.dist-info/WHEEL +5 -0
  137. tbtools_cli-1.2.0.dist-info/entry_points.txt +2 -0
  138. tbtools_cli-1.2.0.dist-info/licenses/LICENSE +21 -0
  139. tbtools_cli-1.2.0.dist-info/top_level.txt +1 -0
tbtools_cli/cli_tools_registry.py ADDED
@@ -0,0 +1,93 @@
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+ """
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+ cli_tools_registry — 82 个命令行工具的共享注册表（name → java 类名）
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+ ====================================================================
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+ FIX(P0-3): 原注册表仅存在于旧入口 bin/tbcli.py，新入口 tbtools tool 不可达
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+ （外部测试 2026-09-19 报告 §3.3）。抽取为共享模块，新旧入口共用：
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+ - bin/tbcli.py（旧入口）import 本模块
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+ - tbtools_cli/cli.py ToolGroup（新入口）import 本模块
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+ """
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+
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+ CLI_TOOLS = {
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+ "DecodeIlluminaFqPool": "biocjava.bioDoer.Fastq.DecodeIlluminaFqPool",
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+ "fastaIDAppender": "biocjava.bioIO.FastX.FastaIndex.FastaIDAppender",
13
+ "rpkmCal": "biocjava.bioDoer.ExpressionLevelCalculator.RPKMcalculator",
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+ "fpkmToTpm": "biocjava.bioDoer.ExpressionLevelCalculator.FPKMtoTPM",
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+ "tpmCalc": "biocjava.bioDoer.ExpressionLevelCalculator.TPMcalculator",
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+ "mimicVqsr": "biocjava.bioDoer.GWAS.MimicVqsrCutoffFind",
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+ "autoMakeBlastDb": "biocjava.bioDoer.BLAST.makeblastdb",
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+ "autoRemoteBlast": "biocjava.bioDoer.BLAST.remoteblast",
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+ "GoCompareBar": "biocjava.bioDoer.GeneOntology.Grapher.GoCompare",
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+ "plotRNAfoldloci": "biocjava.bioDoer.JIGplotToolkit.miRCoverage.PlotRNAfold",
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+ "getLongestCompleteORF": "biocjava.bioIO.ORF.ORF",
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+ "ExtractFeaturefromGFF3andGenome": "biocjava.bioIO.GFF.ExtractFeaturefromGFF3andGenome",
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+ "Fasta36m10toTable": "biocjava.bioIO.FastaAligner.Fasta36m10toTable",
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+ "FastaIDRenamer": "biocjava.bioIO.FastX.FastaIndex.FastaIDRenamer",
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+ "FastaIDSimplifier": "biocjava.bioIO.FastX.FastaIndex.FastaIDSimplifier",
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+ "FastaLongestRepresentater": "biocjava.bioIO.FastX.FastaIndex.FastaLongestRepresentater",
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+ "FoldStructureStater": "biocjava.bioIO.RNAfold.FoldStructureStater",
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+ "GXFOverlaper": "biocjava.bioDoer.GXFUtils.GXFOverlaper",
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+ "NCBITaxonomy": "biocjava.bioWeb.NCBITaxonomy.NCBITaxonomy",
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+ "OneStepMirGraph": "biocjava.bioIO.RNAfold.OneStepMirGraph",
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+ "OverlapGeneModels": "biocjava.bioIO.GXF.gxfTree.OverlapGeneModels",
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+ "PredictMirSTAR": "biocjava.bioIO.RNAfold.PredictMirSTAR",
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+ "RNAplotAdvance": "biocjava.bioDoer.JIGplotToolkit.miRCoverage.RNAplotAdvance",
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+ "MIRPrediionResultStat": "biocjava.bioDoer.miRNA.MIRPrediionResultStat",
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+ "ReciprocalBlast": "biocjava.bioDoer.BLAST.ReciprocalBlast.ReciprocalBlast",
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+ "RegionGXFOverlapAnnotation": "biocjava.bioDoer.GXFUtils.RegionGXFOverlapAnnotation",
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+ "TableCast": "biocjava.bioDoer.Table.TableCast",
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+ "TableColSelector": "biocjava.bioDoer.Table.TableColSelector",
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+ "TableMelt": "biocjava.bioDoer.Table.TableMelt",
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+ "downLoadNCBIFasta": "biocjava.bioWeb.DownLoadNCBIFasta",
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+ "extractFasta": "biocjava.bioDoer.Fasta.ExtractFasta",
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+ "extractFastaSub": "biocjava.bioDoer.Fasta.ExtractFastaSubseq",
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+ "keggEnrichment": "biocjava.bioDoer.Kegg.AdvancedForEnrichment.KeggEnrichment",
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+ "goAnnoPipe": "biocjava.bioDoer.GeneOntology.Annotation.GoAnnoPipe",
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+ "dnDsCalculate": "biocjava.bioIO.KaKs.DnDsCalculate",
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+ "ssrMiner": "biocjava.bioIO.FastX.FastaIndex.SSRminer",
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+ "checkPrimer": "biocjava.bioIO.Primer.CheckPrimer",
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+ "quickLocateSeqPattern": "biocjava.bioIO.FastX.QuickLocateSeqPattern",
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+ "blastXmlSummaryTable": "biocjava.bioIO.BlastXml.BlastXMLSummaryTable",
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+ "emblToFasta": "biocjava.bioIO.Embl.emblToFasta",
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+ "gbff2gff": "biocjava.bioIO.GBff.gbff2gff",
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+ "extractGff3Region": "biocjava.bioIO.GFF.ExtractGff3Region",
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+ "vcfBinCount": "biocjava.bioIO.HTSData.VCF.VCFBINCount",
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+ "getLongestORF": "biocjava.bioIO.ORF.GetLongestORF",
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+ "translater": "biocjava.bioIO.ORF.Translater",
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+ "makeFastaIndex": "biocjava.bioIO.FastX.FastaIndex.MakeFastaIndex",
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+ "quickSplitFasta": "biocjava.bioIO.FastX.FastaIndex.QuickSpiltFasta",
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+ "fastaFragmenter": "biocjava.bioIO.FastX.FastaIndex.Fragment.FastaFragmenter",
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+ "eggNogMapperResult": "biocjava.bioIO.BioSoftPipeServer.eggNogMapperResult",
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+ "tandemDupFinder": "biocjava.bioIO.BioSoftPipeServer.TandemDupFinder",
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+ "genePairExpCorr": "biocjava.bioIO.BioSoftPipeServer.GenePairExpCorr",
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+ "slurmScriptPrepare": "biocjava.bioIO.BioSoftPipeServer.SlurmScriptPrepare",
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+ "geneExpFilter": "biocjava.bioIO.BioSoftPipeServer.GeneExpFilter",
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+ "prepareFileFromMCScanXtoTBtools": "biocjava.bioDoer.JIGplotToolkit.Synteny.PrepareFileFromMCScanXtoTBtools",
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+ "blastXmlToTable": "biocjava.bioIO.BlastXml.BlastXmlToSelfDefinedTable",
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+ "targetSoPipe": "biocjava.bioDoer.miRNA.TargetSoPipe",
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+ "target2TablePipe": "biocjava.bioDoer.miRNA.Target2TablePipe",
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+ "mirIdentifierBasedOnTargetSo": "biocjava.bioDoer.miRNA.MIRidentifierBasedOnTargetSoResult",
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+ "regionBlast": "biocjava.bioDoer.BLAST.wholeGenomeBlastN.regionBlast",
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+ "findBestHomologyBatch": "biocjava.bioIO.BioSoftPipeServer.FindBestHomologyBatch",
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+ "collinearityToRegion": "biocjava.bioDoer.ComparativeGenomics.MCScanX.CollinearityToRegion",
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+ "pairWiseKaKsCalculator": "biocjava.bioIO.BioSoftPipeServer.PairWiseKaKsCalculator",
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+ "simpleBatchProcess": "biocjava.bioDoer.Aligner.NeedleMan.SimpleBatchProcess",
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+ "quickGeneFamilyIdentification": "biocjava.bioDoer.BLAST.ReciprocalBlast.QuickGeneFamilyIdentification",
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+ "gffCdsPhaseCorrector": "biocjava.bioDoer.GXFUtils.GffCdsPhase.GffCdsPhaseCorrector",
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+ "parallelMD5Check": "biocjava.bioDoer.FileUtils.ParallelMD5Check",
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+ "pafRefBaseCoverCalc": "biocjava.bioDoer.JIGplotToolkit.Paf.PafRefBaseCoverCalc",
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+ "sRNAseqReadLenStat": "biocjava.sRNA.Tools.sRNAseqReadLenStat",
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+ "sRNAReadTrimmer": "biocjava.sRNA.Tools.sRNAReadTrimmer",
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+ "sRNAseqAdaperRemover": "biocjava.sRNA.Tools.sRNAseqAdaperRemover",
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+ "fastqParallelTrimmer": "biocjava.bioDoer.Fastq.FastqParallelTrimmer",
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+ "fastqParallelSubBest": "biocjava.bioDoer.Fastq.FastqParallelSubBest",
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+ "fastqAndFasta": "biocjava.bioDoer.LinuxPipe.FastqAndFasta",
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+ "extractFeatureFromGTF": "biocjava.bioIO.GTF.ExtractFeaturefromGTFandGenome",
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+ "sRNAseqCollasper": "biocjava.sRNA.Tools.sRNAseqCollasper",
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+ "generateMotifFromSequences": "biocjava.bioIO.BioSoftPipeServer.MEMEsuiteWrapper.GenerateMotifFromSequences",
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+ "sRNAseqDeCollasper": "biocjava.sRNA.Tools.sRNAseqDeCollasper",
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+ "findBestForkerRootTree": "biocjava.bioDoer.JIGplotToolkit.newickParser.FindBestForkerRootTree",
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+ "statFasta": "biocjava.bioIO.FastX.FastaIndex.QuickStatFasta",
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+ "goEnrichMerge": "biocjava.bioDoer.JIGplotToolkit.EnrichmentAnalysisGraph.GOEnrichmentMergeBubble",
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+ "vcfAddID": "biocjava.bioDoer.GWAS.VCFAddID",
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+ "bigMarkerRandomDesign": "biocjava.bioDoer.markerDesign.BigMarkerRandomDesign"
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+ }