@galaxyproject/orbit 0.0.0 → 0.9.0

package/extensions/orbit/observation-allowlists.ts

@@ -0,0 +1,1109 @@
+// GENERATED by scripts/gen-observation-allowlists.mjs -- do not edit by hand.
+//
+// Sources:
+//   @galaxyproject/galaxy-ops 0.3.1, allOperations (Node entry)
+//   extra names, scripts/galaxy-allowlist-extra-names.mjs:
+//     (none)
+//   galaxy v26.1.1 (094145bc809e0dcd8c6e7784d4ff44f8db9bfbcb), read with `git show`:
+//     lib/galaxy/config/sample/datatypes_conf.xml.sample
+//     tools/, lib/galaxy/tools/, lib/galaxy/datatypes/converters/ (tool ids)
+//
+// Regenerate when galaxy-ops is bumped or Orbit's Galaxy floor moves; see the
+// script header for the command.
+
+/**
+ * Galaxy tool names in the observation wire spelling, `galaxy_<name>`.
+ * The model calls them by their bare names; the collector normalises to this
+ * spelling before it checks the list, so a bare name is never on it.
+ */
+export const GALAXY_MCP_TOOLS: ReadonlySet<string> = new Set([
+  "galaxy_cancel_workflow_invocation",
+  "galaxy_create_history",
+  "galaxy_create_page",
+  "galaxy_create_user_tool",
+  "galaxy_delete_user_tool",
+  "galaxy_download_dataset",
+  "galaxy_get_collection_details",
+  "galaxy_get_dataset_details",
+  "galaxy_get_histories",
+  "galaxy_get_history_contents",
+  "galaxy_get_history_details",
+  "galaxy_get_invocations",
+  "galaxy_get_iwc_workflow_details",
+  "galaxy_get_iwc_workflows",
+  "galaxy_get_job_details",
+  "galaxy_get_page",
+  "galaxy_get_page_revision",
+  "galaxy_get_server_info",
+  "galaxy_get_tool_citations",
+  "galaxy_get_tool_details",
+  "galaxy_get_tool_input_template",
+  "galaxy_get_tool_panel",
+  "galaxy_get_tool_run_examples",
+  "galaxy_get_user",
+  "galaxy_get_workflow_details",
+  "galaxy_get_workflow_input_template",
+  "galaxy_import_workflow_from_iwc",
+  "galaxy_invoke_workflow",
+  "galaxy_list_history_ids",
+  "galaxy_list_page_revisions",
+  "galaxy_list_pages",
+  "galaxy_list_user_tools",
+  "galaxy_list_workflows",
+  "galaxy_recommend_biocontainer",
+  "galaxy_recommend_iwc_workflows",
+  "galaxy_revert_page_revision",
+  "galaxy_run_tool",
+  "galaxy_run_user_tool",
+  "galaxy_search_iwc_workflows",
+  "galaxy_search_tools_by_keywords",
+  "galaxy_search_tools_by_name",
+  "galaxy_update_history",
+  "galaxy_update_page",
+  "galaxy_upload_file",
+  "galaxy_upload_file_from_url",
+]);
+
+/** Datatype extensions a stock Galaxy server registers. */
+export const GALAXY_DATATYPES: ReadonlySet<string> = new Set([
+  "4dn_pairs",
+  "4dn_pairs.gz",
+  "4dn_pairsam",
+  "4dn_pairsam.gz",
+  "a2m",
+  "a3m",
+  "ab1",
+  "abbyy.xml",
+  "acedb",
+  "affybatch",
+  "afg",
+  "agilentbrukeryep.d.tar",
+  "agilentmasshunter.d.tar",
+  "agp",
+  "allegro_descent",
+  "allegro_fparam",
+  "allegro_ihaplo",
+  "alohomora_gts",
+  "alohomora_maf",
+  "alohomora_map",
+  "alohomora_ped",
+  "alto",
+  "amnisflow.cif",
+  "ampvis2",
+  "analyze75",
+  "anvio_classifier",
+  "anvio_cog_profile",
+  "anvio_composite",
+  "anvio_contigs_db",
+  "anvio_db",
+  "anvio_genomes_db",
+  "anvio_pan_db",
+  "anvio_pfam_profile",
+  "anvio_profile_db",
+  "anvio_samples_db",
+  "anvio_state",
+  "anvio_structure_db",
+  "anvio_variability",
+  "arff",
+  "arrow",
+  "asn1",
+  "asn1-binary",
+  "augustus",
+  "auspice.json",
+  "avi",
+  "axt",
+  "axt.bz2",
+  "axt.gz",
+  "bai",
+  "bam",
+  "bcf",
+  "bcf_bgzip",
+  "bcf_uncompressed",
+  "bcsl.model",
+  "bcsl.ts",
+  "bcsp",
+  "beast.trees",
+  "bed",
+  "bed12",
+  "bed6",
+  "bed_tabix.gz",
+  "bedgraph",
+  "bedstrict",
+  "bgzip",
+  "bif",
+  "bigbed",
+  "bigwig",
+  "bil",
+  "binary",
+  "biom1",
+  "biom2",
+  "blastdbd",
+  "blastdbd5",
+  "blastdbn",
+  "blastdbn5",
+  "blastdbp",
+  "blastdbp5",
+  "blastxml",
+  "blib",
+  "bmp",
+  "bowtie_base_index",
+  "bowtie_color_index",
+  "bref3",
+  "brukerbaf.d.tar",
+  "brukertdf.d.tar",
+  "btf",
+  "btwisted",
+  "bus",
+  "bwa_index",
+  "bwa_mem2_index",
+  "cai",
+  "castep",
+  "cat_db",
+  "cel",
+  "cell",
+  "chain",
+  "charge",
+  "checktrans",
+  "chips",
+  "chira.sqlite",
+  "chrint",
+  "cif",
+  "cisml",
+  "ckpt",
+  "clustal",
+  "cm",
+  "cmap",
+  "cml",
+  "cnn",
+  "cnr",
+  "cns",
+  "codata",
+  "codcmp",
+  "coderet",
+  "colab.tar",
+  "colab.tar.gz",
+  "compseq",
+  "consensusxml",
+  "cool",
+  "cpgplot",
+  "cpgreport",
+  "cps",
+  "cpt",
+  "cram",
+  "csfasta",
+  "csv",
+  "ct",
+  "ctl.result",
+  "cuffdiff.sqlite",
+  "cusp",
+  "customtrack",
+  "cut",
+  "cxb",
+  "cytoscapejson",
+  "d3_hierarchy",
+  "daa",
+  "dada2_dada",
+  "dada2_errorrates",
+  "dada2_mergepairs",
+  "dada2_sequencetable",
+  "dada2_uniques",
+  "dan",
+  "data",
+  "data_manager_json",
+  "dbmotif",
+  "dbn",
+  "dbnsfp.tabular",
+  "dcd",
+  "dcm",
+  "deacon.idx",
+  "deeptools_compute_matrix_archive",
+  "deeptools_coverage_matrix",
+  "den_fmt",
+  "diffseq",
+  "digest",
+  "directory",
+  "dlib",
+  "dmnd",
+  "docx",
+  "dreg",
+  "drf",
+  "dta",
+  "dta2d",
+  "dzi",
+  "edr",
+  "edta",
+  "egapx_local_cache",
+  "eigenstratgeno",
+  "eigenstratpca",
+  "einverted",
+  "eland",
+  "elandmulti",
+  "elib",
+  "embl",
+  "encodepeak",
+  "epestfind",
+  "eps",
+  "equicktandem",
+  "eset",
+  "est2genome",
+  "etandem",
+  "excel",
+  "excel.xls",
+  "expression.json",
+  "extxyz",
+  "fai",
+  "fast5.tar",
+  "fast5.tar.bz2",
+  "fast5.tar.gz",
+  "fast5.tar.xz",
+  "fasta",
+  "fasta.bz2",
+  "fasta.gz",
+  "fastg",
+  "fastk_hist",
+  "fastk_ktab",
+  "fastk_ktab_tar",
+  "fastk_prof",
+  "fastq",
+  "fastq.bz2",
+  "fastq.gz",
+  "fastqcssanger",
+  "fastqcssanger.bz2",
+  "fastqcssanger.gz",
+  "fastqillumina",
+  "fastqillumina.bz2",
+  "fastqillumina.gz",
+  "fastqsanger",
+  "fastqsanger.bz2",
+  "fastqsanger.gz",
+  "fastqsolexa",
+  "fastqsolexa.bz2",
+  "fastqsolexa.gz",
+  "fcs",
+  "feattable",
+  "featurexml",
+  "feff",
+  "feffit",
+  "feflow.fem",
+  "ffdata",
+  "ffindex",
+  "fitch",
+  "fits",
+  "flac",
+  "fli",
+  "flowclr",
+  "flowframe",
+  "flowmfi",
+  "flowscore",
+  "flowset",
+  "flowstat1",
+  "flowstat2",
+  "flowstat3",
+  "flowtext",
+  "flv",
+  "fped",
+  "fphe",
+  "fps",
+  "fqtoc",
+  "freak",
+  "freq.json",
+  "fsom",
+  "fuzznuc",
+  "fuzzpro",
+  "fuzztran",
+  "gaf",
+  "gafa.sqlite",
+  "gal",
+  "gam",
+  "garnier",
+  "gatk_dbsnp",
+  "gatk_interval",
+  "gatk_recal",
+  "gatk_report",
+  "gatk_tranche",
+  "gbwt",
+  "gbz",
+  "gcg",
+  "gds",
+  "geecee",
+  "gemini.sqlite",
+  "genbank",
+  "genbank.gz",
+  "genenotebook",
+  "genetrack",
+  "geocsv",
+  "geojson",
+  "gfa1",
+  "gfa1.gz",
+  "gfa2",
+  "gfa2.gz",
+  "gff",
+  "gff3",
+  "gff3.bz2",
+  "gff3.gz",
+  "gff_tabix.gz",
+  "gg",
+  "gif",
+  "gii",
+  "gii.gz",
+  "gmaj.zip",
+  "gmsh.geo",
+  "gmsh.msh",
+  "gpr",
+  "graph_dot",
+  "grd",
+  "grd.tgz",
+  "grib",
+  "gro",
+  "gtf",
+  "gtf.gz",
+  "gwas_bgzip",
+  "gwas_tabix.gz",
+  "gz",
+  "h5",
+  "h5ad",
+  "h5mlm",
+  "h5mu",
+  "hal",
+  "hal.hg",
+  "hal.pg",
+  "hardklor",
+  "hdf4",
+  "hdr",
+  "hdt",
+  "helixturnhelix",
+  "hennig86",
+  "hep.root",
+  "hexrd.accepted_orientations",
+  "hexrd.eta_ome.npz",
+  "hexrd.images.npz",
+  "hexrd.materials.h5",
+  "hexrd.scored_orientations.npz",
+  "hexrd.yml",
+  "hhr",
+  "hic",
+  "hivtrace",
+  "hlf",
+  "hmm2",
+  "hmm3",
+  "hmoment",
+  "hocr",
+  "html",
+  "hyphy_results.json",
+  "icm",
+  "idat",
+  "ideaspre",
+  "idpdb",
+  "idxml",
+  "ig",
+  "im",
+  "imgt.json",
+  "immuneml_receptors.html",
+  "imzml",
+  "inchi",
+  "inp",
+  "inpcrd",
+  "intermine_tabular",
+  "interprophet_pepxml",
+  "interval",
+  "interval_index",
+  "interval_tabix.gz",
+  "ipynb",
+  "iqtree",
+  "isa-json",
+  "isa-tab",
+  "isochore",
+  "itp",
+  "jackknifer",
+  "jackknifernon",
+  "jellyfish",
+  "jp2",
+  "jpg",
+  "json",
+  "jsonld",
+  "juicer_medium_tabix.gz",
+  "kallisto.idx",
+  "kmindex",
+  "kroenik",
+  "kronik",
+  "laj",
+  "las",
+  "lastdb",
+  "lav",
+  "laz",
+  "ldindep",
+  "len",
+  "lexicmap_index",
+  "linecount",
+  "linkage_datain",
+  "linkage_map",
+  "linkage_pedin",
+  "loom",
+  "lped",
+  "ludwig_model",
+  "ludwig_report.html",
+  "m4a",
+  "maf",
+  "maf.bz2",
+  "maf.gz",
+  "mafcustomtrack",
+  "magres",
+  "malist",
+  "markdown",
+  "markx0",
+  "markx1",
+  "markx10",
+  "markx2",
+  "markx3",
+  "mascotdat",
+  "mascotxml",
+  "maskinfo-asn1",
+  "maskinfo-asn1-binary",
+  "match",
+  "mbi",
+  "mcool",
+  "mdp",
+  "mega",
+  "meganon",
+  "memepsp",
+  "memexml",
+  "meryldb",
+  "metacyto_clr.txt",
+  "metacyto_stats.txt",
+  "metacyto_summary.txt",
+  "mgf",
+  "mkv",
+  "mldist",
+  "mlmodel",
+  "mol",
+  "mol2",
+  "mongodb",
+  "mothur.accnos",
+  "mothur.align",
+  "mothur.align.check",
+  "mothur.align.report",
+  "mothur.axes",
+  "mothur.cons.taxonomy",
+  "mothur.count_table",
+  "mothur.design",
+  "mothur.dist",
+  "mothur.filter",
+  "mothur.filtered.masked.quan",
+  "mothur.filtered.quan",
+  "mothur.freq",
+  "mothur.groups",
+  "mothur.list",
+  "mothur.lower.dist",
+  "mothur.map",
+  "mothur.masked.quan",
+  "mothur.names",
+  "mothur.oligos",
+  "mothur.otu",
+  "mothur.otu.corr",
+  "mothur.otulabels",
+  "mothur.pair.dist",
+  "mothur.quan",
+  "mothur.rabund",
+  "mothur.rdp.taxonomy",
+  "mothur.ref.taxonomy",
+  "mothur.relabund",
+  "mothur.sabund",
+  "mothur.seq.taxonomy",
+  "mothur.sff.flow",
+  "mothur.shared",
+  "mothur.square.dist",
+  "mothur.summary",
+  "mothur.tax.summary",
+  "mothur.tre",
+  "motif",
+  "mov",
+  "mp3",
+  "mp4",
+  "mpg",
+  "mrc",
+  "mrm",
+  "mrxs",
+  "ms2",
+  "msf",
+  "msh",
+  "msp",
+  "mtx",
+  "mz.sqlite",
+  "mz5",
+  "mzdata",
+  "mzid",
+  "mzml",
+  "mzmlb",
+  "mzq",
+  "mzqc",
+  "mztab",
+  "mztab2",
+  "mzxml",
+  "n3",
+  "nametable",
+  "ncbi",
+  "ncbi_genome_dataset.zip",
+  "ncbitaxonomy.sqlite",
+  "ndpi",
+  "ndx",
+  "needle",
+  "neostore",
+  "neostore.zip",
+  "neper.mscell",
+  "neper.points",
+  "neper.points.tsv",
+  "neper.tesr",
+  "neper.tess",
+  "netcdf",
+  "newcpgreport",
+  "newcpgseek",
+  "newick",
+  "nex",
+  "nexus",
+  "nexusnon",
+  "nhdr",
+  "nhx",
+  "nii1",
+  "nii1.gz",
+  "nii2",
+  "nii2.gz",
+  "nmrml",
+  "noreturn",
+  "npy",
+  "npz",
+  "nrrd",
+  "nt",
+  "obfs",
+  "obo",
+  "odgi",
+  "ogg",
+  "ome.tiff",
+  "ome_zarr",
+  "ome_zarr.zip",
+  "onnx",
+  "osw",
+  "owl",
+  "oxlicg",
+  "oxligl",
+  "oxling",
+  "oxliss",
+  "oxlist",
+  "oxlits",
+  "paf",
+  "paf.gz",
+  "page.xml",
+  "pair",
+  "palindrome",
+  "par",
+  "param",
+  "paramxml",
+  "parquet",
+  "pbed",
+  "pbm",
+  "pcd",
+  "pcx",
+  "pdb",
+  "pdbqt",
+  "pdf",
+  "peff",
+  "pepcoil",
+  "pepinfo",
+  "peplist",
+  "pepstats",
+  "peptideprophet_pepxml",
+  "peptideshaker_archive",
+  "pepxml",
+  "pepxml.tsv",
+  "percin",
+  "percout",
+  "pgm",
+  "phar",
+  "pheno",
+  "phylip",
+  "phylipnon",
+  "phyloseq",
+  "phyloxml",
+  "picard_interval_list",
+  "pileup",
+  "pir",
+  "pithya.model",
+  "pithya.property",
+  "pithya.result",
+  "plyascii",
+  "plybinary",
+  "png",
+  "pnts",
+  "pod5",
+  "polydot",
+  "postgresql",
+  "pov",
+  "pphe",
+  "ppm",
+  "pptx",
+  "pqp",
+  "pqr",
+  "preg",
+  "pretext",
+  "prettyseq",
+  "primersearch",
+  "prj",
+  "prm",
+  "prmtop",
+  "probam",
+  "probed",
+  "protobuf2",
+  "protobuf3",
+  "protxml",
+  "protxml.tsv",
+  "psd",
+  "psl",
+  "psms",
+  "pssm-asn1",
+  "ptkscmp",
+  "qcml",
+  "qname_input_sorted.bam",
+  "qname_sorted.bam",
+  "qual",
+  "qual454",
+  "qualillumina",
+  "qualsolexa",
+  "qualsolid",
+  "qza",
+  "qzv",
+  "rast",
+  "raster.asc",
+  "raw_pepxml",
+  "rd",
+  "rdata",
+  "rdata.camera.negative",
+  "rdata.camera.positive",
+  "rdata.camera.quick",
+  "rdata.msnbase.raw",
+  "rdata.sce",
+  "rdata.xcms.fillpeaks",
+  "rdata.xcms.findchrompeaks",
+  "rdata.xcms.group",
+  "rdata.xcms.raw",
+  "rdata.xcms.retcor",
+  "rdf",
+  "rdock_as",
+  "rds",
+  "regions",
+  "rexpbase",
+  "rgb",
+  "rgenetics",
+  "rma6",
+  "rmd",
+  "rna_eps",
+  "roadmaps",
+  "rrd",
+  "safetensors",
+  "sam",
+  "sbml",
+  "sbol",
+  "scf",
+  "scidx",
+  "scn",
+  "scool",
+  "score",
+  "sdf",
+  "searchgui_archive",
+  "seqtable",
+  "sequences",
+  "sf3",
+  "sff",
+  "showfeat",
+  "showorf",
+  "shp",
+  "sif",
+  "simple",
+  "sirius.ms",
+  "sixpack",
+  "smat",
+  "smi",
+  "snaphmm",
+  "snpeffdb",
+  "snpmatrix",
+  "snpsiftdbnsfp",
+  "snptest",
+  "source.c",
+  "source.cpp",
+  "source.cs",
+  "source.go",
+  "source.h",
+  "source.py",
+  "sourmash.sig",
+  "sp",
+  "spalndba",
+  "spalndbnp",
+  "spatialdata.zip",
+  "spec.xml",
+  "splib",
+  "splib_noindex",
+  "sqlite",
+  "sqmass",
+  "sra",
+  "sra_manifest.tabular",
+  "srs",
+  "srspair",
+  "staden",
+  "star",
+  "stl",
+  "stockholm",
+  "storm.check",
+  "storm.sample",
+  "strider",
+  "supermatcher",
+  "svg",
+  "svs",
+  "svslide",
+  "swiss",
+  "syco",
+  "tabix",
+  "table",
+  "tabular",
+  "tabular.gz",
+  "taf",
+  "taf.gz",
+  "tagseq",
+  "tandem",
+  "tar",
+  "tar.bz2",
+  "tar.gz",
+  "taxonomy",
+  "tck",
+  "tei",
+  "textgrid",
+  "textsearch",
+  "tf2",
+  "tf8",
+  "tgz",
+  "thermo.raw",
+  "tif",
+  "tiff",
+  "toml",
+  "tool_markdown",
+  "toolshed.gz",
+  "top",
+  "tpr",
+  "trackhub",
+  "trafoxml",
+  "traml",
+  "triples",
+  "trk",
+  "trr",
+  "tsv",
+  "ttl",
+  "twobit",
+  "txt",
+  "uniprotxml",
+  "unsorted.bam",
+  "vcf",
+  "vcf_bgzip",
+  "vectorstrip",
+  "vel",
+  "velvet",
+  "vg",
+  "vg.dist",
+  "vg.gamp",
+  "vg.gg",
+  "vg.loci",
+  "vg.min",
+  "vg.snarls",
+  "vg.zipcodes",
+  "visium.tar.gz",
+  "vitessce.json",
+  "vms",
+  "vmu",
+  "vtkascii",
+  "vtkbinary",
+  "vtkxml",
+  "vtpascii",
+  "vtpbinary",
+  "watersmasslynx.raw.tar",
+  "wav",
+  "webm",
+  "wiff",
+  "wiff.tar",
+  "wiff2",
+  "wiff2.tar",
+  "wig",
+  "wma",
+  "wmv",
+  "wobble",
+  "wordcount",
+  "xbm",
+  "xg",
+  "xgmml",
+  "xls",
+  "xlsx",
+  "xmfa",
+  "xml",
+  "xpm",
+  "xquest.xml",
+  "xsd",
+  "xtc",
+  "xvg",
+  "xyz",
+  "yaml",
+  "zarr",
+  "zarr.zip",
+  "zip",
+  "zset.geof",
+]);
+
+/** Bare tool ids that ship inside Galaxy (not from a toolshed). */
+export const GALAXY_BUILTIN_TOOL_IDS: ReadonlySet<string> = new Set([
+  "CONVERTER_Bam_Bai_0",
+  "CONVERTER_Gro_to_Pdb_0",
+  "CONVERTER_Pdb_to_Gro_0",
+  "CONVERTER_SMILES_to_MOL",
+  "CONVERTER_archive_to_directory",
+  "CONVERTER_bam_to_bigwig_0",
+  "CONVERTER_bam_to_coodinate_sorted_bam",
+  "CONVERTER_bam_to_qname_sorted_bam",
+  "CONVERTER_bcf_uncompressed_to_bcf",
+  "CONVERTER_bed_gff_or_vcf_to_bigwig_0",
+  "CONVERTER_bed_to_fli_0",
+  "CONVERTER_bed_to_gff_0",
+  "CONVERTER_bed_to_interval_index_0",
+  "CONVERTER_bedgraph_to_bigwig",
+  "CONVERTER_biom",
+  "CONVERTER_bz2_to_uncompressed",
+  "CONVERTER_cml_to_smiles",
+  "CONVERTER_cram_to_bam_0",
+  "CONVERTER_fasta_to_2bit",
+  "CONVERTER_fasta_to_bowtie_base_index",
+  "CONVERTER_fasta_to_bowtie_color_index",
+  "CONVERTER_fasta_to_fai",
+  "CONVERTER_fasta_to_len",
+  "CONVERTER_fasta_to_tabular",
+  "CONVERTER_fastq_to_fqtoc0",
+  "CONVERTER_fastqsolexa_to_fasta_0",
+  "CONVERTER_fastqsolexa_to_qual_0",
+  "CONVERTER_gff_to_bed_0",
+  "CONVERTER_gff_to_fli_0",
+  "CONVERTER_gff_to_interval_index_0",
+  "CONVERTER_gz_to_uncompressed",
+  "CONVERTER_inchi_to_mol",
+  "CONVERTER_interval_to_bed12_0",
+  "CONVERTER_interval_to_bed6_0",
+  "CONVERTER_interval_to_bed_0",
+  "CONVERTER_interval_to_bedstrict_0",
+  "CONVERTER_interval_to_bgzip_0",
+  "CONVERTER_interval_to_bigwig_0",
+  "CONVERTER_interval_to_interval_index_0",
+  "CONVERTER_interval_to_tabix_0",
+  "CONVERTER_len_to_linecount",
+  "CONVERTER_maf_to_fasta_0",
+  "CONVERTER_maf_to_interval_0",
+  "CONVERTER_mdconvert",
+  "CONVERTER_mol2_to_mol",
+  "CONVERTER_molecules",
+  "CONVERTER_neostorezip_to_neostore",
+  "CONVERTER_parquet_to_csv",
+  "CONVERTER_picard_interval_list_to_bed6",
+  "CONVERTER_pileup_to_interval_index_0",
+  "CONVERTER_ref_to_seq_taxomony",
+  "CONVERTER_sam_to_bigwig_0",
+  "CONVERTER_sam_to_unsorted_bam",
+  "CONVERTER_smiles_to_smiles",
+  "CONVERTER_tar_to_directory",
+  "CONVERTER_uncompressed_to_gz",
+  "CONVERTER_vcf_bgzip_to_tabix_0",
+  "CONVERTER_vcf_to_interval_index_0",
+  "CONVERTER_vcf_to_vcf_bgzip_0",
+  "CONVERTER_wig_to_bigwig",
+  "CONVERTER_wiggle_to_interval_0",
+  "ChangeCase",
+  "Comm1",
+  "Count1",
+  "Cut1",
+  "Extract_features1",
+  "Filter1",
+  "GeneBed_Maf_Fasta2",
+  "Grep1",
+  "Grouping1",
+  "Interval2Maf1",
+  "Interval2Maf_pairwise1",
+  "Interval_Maf_Merged_Fasta2",
+  "MAF_Limit_To_Species1",
+  "MAF_Reverse_Complement_1",
+  "MAF_Thread_For_Species1",
+  "MAF_To_BED1",
+  "MAF_To_Fasta1",
+  "MAF_To_Interval1",
+  "MAF_filter",
+  "MAF_split_blocks_by_species1",
+  "Paste1",
+  "PerM",
+  "Sff_extractor",
+  "Summary_Statistics1",
+  "__APPLY_RULES__",
+  "__BUILD_LIST__",
+  "__CONVERT_SAMPLE_SHEET__",
+  "__CROSS_PRODUCT_FLAT__",
+  "__CROSS_PRODUCT_NESTED__",
+  "__DATA_FETCH__",
+  "__DUPLICATE_FILE_TO_COLLECTION__",
+  "__EXPORT_HISTORY_TO_URI__",
+  "__EXPORT_HISTORY__",
+  "__EXTRACT_DATASET__",
+  "__FILTER_EMPTY_DATASETS__",
+  "__FILTER_FAILED_DATASETS__",
+  "__FILTER_FROM_FILE__",
+  "__FILTER_NULL__",
+  "__FLATTEN__",
+  "__HARMONIZELISTS__",
+  "__IMPORT_HISTORY__",
+  "__KEEP_SUCCESS_DATASETS__",
+  "__MERGE_COLLECTION__",
+  "__NEST__",
+  "__RELABEL_FROM_FILE__",
+  "__SAMPLE_SHEET_TO_TABULAR__",
+  "__SORTLIST__",
+  "__SPLIT_PAIRED_AND_UNPAIRED__",
+  "__TAG_FROM_FILE__",
+  "__UNZIP_COLLECTION__",
+  "__ZIP_COLLECTION__",
+  "addValue",
+  "aggregate_scores_in_intervals2",
+  "axt_to_concat_fasta",
+  "axt_to_fasta",
+  "axt_to_lav_1",
+  "barchart_gnuplot",
+  "bed2gff1",
+  "bed_to_bigBed",
+  "bfast_wrapper",
+  "bigwigtowig",
+  "biomart",
+  "biomart_test",
+  "blat_wrapper",
+  "cat1",
+  "cbi_rice_mart",
+  "comp1",
+  "createInterval",
+  "cshl_fastq_statistics",
+  "csv_to_tabular",
+  "diced_database",
+  "ebi_sra_main",
+  "eupathdb",
+  "export_remote",
+  "fastq_conversions",
+  "fastq_gen_conv",
+  "fileGrep1",
+  "flymine",
+  "flymine_test",
+  "genbank",
+  "gene2exon1",
+  "gene2intron1",
+  "gff2bed1",
+  "gff_filter_by_attribute",
+  "gff_filter_by_feature_count",
+  "gramenemart",
+  "gtf2bedgraph",
+  "gtf_filter_by_attribute_values_list",
+  "hapmapmart",
+  "hbvar",
+  "hgv_beam",
+  "hgv_david",
+  "hgv_gpass",
+  "hgv_ldtools",
+  "hgv_linkToGProfile",
+  "hgv_lps",
+  "hgv_pass",
+  "hgv_sift",
+  "interactive_tool_askomics",
+  "interactive_tool_bam_iobio",
+  "interactive_tool_blobtoolkit",
+  "interactive_tool_cellxgene",
+  "interactive_tool_climate_notebook",
+  "interactive_tool_ethercalc",
+  "interactive_tool_geoexplorer",
+  "interactive_tool_guacamole_desktop",
+  "interactive_tool_hicbrowser",
+  "interactive_tool_higlass",
+  "interactive_tool_ilastik",
+  "interactive_tool_isee",
+  "interactive_tool_jupyter_notebook",
+  "interactive_tool_metashark",
+  "interactive_tool_mgnify_notebook",
+  "interactive_tool_ml_jupyter_notebook",
+  "interactive_tool_neo4j",
+  "interactive_tool_openrefine",
+  "interactive_tool_pangeo_notebook",
+  "interactive_tool_panoply",
+  "interactive_tool_paraview",
+  "interactive_tool_pavian",
+  "interactive_tool_phinch",
+  "interactive_tool_pyiron",
+  "interactive_tool_qiskit_jupyter_notebook",
+  "interactive_tool_radiant",
+  "interactive_tool_rstudio",
+  "interactive_tool_simtext_app",
+  "interactive_tool_vcf_iobio",
+  "interactive_tool_vrm_editor",
+  "interactive_tool_wallace",
+  "interactive_tool_wilson",
+  "intermine",
+  "join1",
+  "joiner2",
+  "lav_to_bed1",
+  "library_access1",
+  "liftOver1",
+  "lped2fpedconvert",
+  "lped2pbedconvert",
+  "maf_by_block_number1",
+  "maf_limit_size1",
+  "maf_stats1",
+  "maq_cs_wrapper",
+  "master2gd_snp",
+  "master2pgSnp",
+  "meme_meme",
+  "mergeCols1",
+  "metabolicmine",
+  "microbial_import1",
+  "modENCODEfly",
+  "modENCODEworm",
+  "modmine",
+  "mosaik_wrapper",
+  "mousemine",
+  "ncbi_datasets_source",
+  "ngs_simulation",
+  "param_value_from_file",
+  "pbed2ldindepconvert",
+  "pbed2lpedconvert",
+  "pick_value",
+  "qual_stats_boxplot",
+  "random_lines1",
+  "ratmine",
+  "secure_hash_message_digest",
+  "shrimp_color_wrapper",
+  "shrimp_wrapper",
+  "solid2fastq",
+  "solid_qual_boxplot",
+  "solid_qual_stats",
+  "solid_to_fastq",
+  "sort1",
+  "sra_source",
+  "srma_wrapper",
+  "tabular_to_csv",
+  "tabular_to_dbnsfp",
+  "trimmer",
+  "ucsc_bigbedtobed",
+  "ucsc_gene_table_to_intervals1",
+  "ucsc_table_direct1",
+  "ucsc_table_direct_archaea1",
+  "ucsc_table_direct_test1",
+  "upload1",
+  "vcf_to_maf_customtrack1",
+  "velvetg",
+  "velveth",
+  "wc_gnu",
+  "wig_to_bigWig",
+  "wiggle2simple1",
+  "wormbase",
+  "wormbase_test",
+  "yeastmine",
+  "zebrafishmine",
+]);