From 2eee3a9013e75f2cbc807fbe9974b31d37497575 Mon Sep 17 00:00:00 2001 From: github-actions Date: Thu, 14 Nov 2024 00:55:49 +0000 Subject: [PATCH] Automated deployment with updated cache 2024-11-14 --- counts.json | 1161 +++++++++-------- .../b/biobb_mem:5.0.1--pyhdfd78af_0.json | 512 ++++++++ .../biocontainers/g/gzrt:0.8--he4a0461_0.json | 3 + .../l/lamps:1.0.3--pyhdfd78af_0.json | 240 ++++ .../r-remapenrich:0.99.0--r43hdfd78af_0.json | 251 ++++ .../t/teloscope:0.0.2--hdcf5f25_0.json | 3 + 6 files changed, 1618 insertions(+), 552 deletions(-) create mode 100644 quay.io/biocontainers/b/biobb_mem:5.0.1--pyhdfd78af_0.json create mode 100644 quay.io/biocontainers/g/gzrt:0.8--he4a0461_0.json create mode 100644 quay.io/biocontainers/l/lamps:1.0.3--pyhdfd78af_0.json create mode 100644 quay.io/biocontainers/r/r-remapenrich:0.99.0--r43hdfd78af_0.json create mode 100644 quay.io/biocontainers/t/teloscope:0.0.2--hdcf5f25_0.json diff --git a/counts.json b/counts.json index 75eb71a..772aa88 100644 --- a/counts.json +++ b/counts.json @@ -2326,10 +2326,10 @@ "2csfastq_1csfastq": 1, "2ft": 2, "2ndscore": 1, - "2to3": 3817, + "2to3": 3818, "2to3-3.10": 834, "2to3-3.11": 283, - "2to3-3.12": 292, + "2to3-3.12": 293, "2to3-3.4": 6, "2to3-3.5": 103, "2to3-3.6": 344, @@ -2402,7 +2402,7 @@ "AddGeneCoord.pl": 1, "AddLengths.pl": 1, "AddModel.py": 1, - "AddToBox": 6, + "AddToBox": 7, "AdjList": 17, "Admin_CacheFileBuilder.pl": 1, "Admin_EnsemblReferenceFileGenerator.pl": 1, @@ -2645,11 +2645,11 @@ "Canal": 2, "Canion": 2, "Canvas": 1, - "CartHess2FC.py": 6, + "CartHess2FC.py": 7, "Catrack": 7, "CensusSeq": 1, "CfDnaQC": 1, - "ChBox": 6, + "ChBox": 7, "ChIP-R": 1, "ChIPAssoc": 1, "Chainer": 2, @@ -2976,7 +2976,7 @@ "FEELnc_tpLevel2gnLevelClassification.R": 1, "FEELnc_tpLevel2gnLevelClassification.R.bak": 1, "FET.pl": 49, - "FEW.pl": 6, + "FEW.pl": 7, "FFEval": 2, "FGAP": 1, "FGS_gff.py": 1, @@ -3253,7 +3253,7 @@ "INSTALL": 2, "INSTALL_annotations.sh": 1, "IONTorrent.R": 1, - "IPMach.py": 6, + "IPMach.py": 7, "IRFinder": 1, "IRMA": 1, "ISFinder_search.py": 1, @@ -3413,7 +3413,7 @@ "MArVD2.py": 1, "MBG": 3, "MBICseq": 1, - "MCPB.py": 6, + "MCPB.py": 7, "MEGAN": 1, "MGCplotter": 1, "MHG": 1, @@ -3423,8 +3423,8 @@ "MITGARD.py": 1, "MITObim.pl": 1, "MKtest": 1, - "MMPBSA.py": 6, - "MMPBSA.py.MPI": 3, + "MMPBSA.py": 7, + "MMPBSA.py.MPI": 4, "MMalign": 1, "MPSSam2fq": 1, "MPileUpVariantCaller.py": 1, @@ -3708,7 +3708,7 @@ "OpenSwathRTNormalizer": 2, "OpenSwathRewriteToFeatureXML": 2, "OpenSwathWorkflow": 2, - "OptC4.py": 6, + "OptC4.py": 7, "OptiTypePipeline.py": 2, "Org.Mentalis.Security.dll": 2, "OrientContigs": 2, @@ -3805,7 +3805,7 @@ "PathoLive.py": 1, "PathogenTrack": 1, "PausingScore": 1, - "PdbSearcher.py": 6, + "PdbSearcher.py": 7, "PePr": 1, "PePr-postprocess": 1, "PePr-preprocess": 1, @@ -3906,7 +3906,7 @@ "PrimedLAMP_Tm_Update": 1, "PrimedRPA": 1, "ProSampler": 4, - "ProScrs.py": 6, + "ProScrs.py": 7, "ProbKnot": 5, "ProbKnot-smp": 5, "ProbScan": 5, @@ -3920,7 +3920,7 @@ "Profile": 3, "ProgDynOptim.py": 1, "Projector": 1, - "PropPDB": 6, + "PropPDB": 7, "ProphetModels.pl": 2, "ProtFDRTraML2Fasta.py": 1, "ProtFDRmProphet2Mayu.py": 1, @@ -3957,7 +3957,7 @@ "QueueingSystem.dll": 1, "QuickDeconvolution": 1, "QuickSNP.py": 1, - "R": 4684, + "R": 4685, "R-scape": 2, "R-scape-sim": 2, "R-scape-sim-nobps": 2, @@ -4294,7 +4294,7 @@ "Rprof": 1, "Rsample": 5, "Rsample-smp": 5, - "Rscript": 4685, + "Rscript": 4686, "RunTHetA.py": 1, "SAGE": 1, "SAMMPileUpReader.py": 1, @@ -4669,7 +4669,7 @@ "USalign": 1, "UVP": 1, "UnifyHeaders.py": 3, - "UnitCell": 6, + "UnitCell": 7, "UnitTest_LV": 1, "UpdHunter": 1, "Utility.py": 1, @@ -4745,7 +4745,7 @@ "XTandemAdapter": 2, "XXmotif": 5, "Xcalcmem.sh": 13, - "XrayPrep": 6, + "XrayPrep": 7, "YamlDotNet.dll": 1, "ZOL": 2, "[": 56, @@ -5134,7 +5134,7 @@ "actc": 1, "action_report.py": 1, "activate": 1343, - "activate-global-python-argcomplete": 347, + "activate-global-python-argcomplete": 348, "acyclic": 203, "adVNTR-Filtering": 1, "ada_model_builder_ntChange.R": 1, @@ -5192,7 +5192,7 @@ "add_pancore_matrices.pl": 1, "add_pangenome_matrices.pl": 1, "add_pb_seq.pl": 1, - "add_pdb": 6, + "add_pdb": 7, "add_polypeptide_to_gff3_gene_models.py": 2, "add_prefix_to_cool.py": 1, "add_protein_annotation.py": 1, @@ -5203,10 +5203,10 @@ "add_tags_to_primers.py": 1, "add_tradis_tags": 2, "add_transcript_feature_to_gtf.py": 1, - "add_xray": 6, + "add_xray": 7, "addadapters.sh": 31, "addindel.py": 1, - "addles": 6, + "addles": 7, "addr2line": 8, "addrg": 1, "addsnv.py": 1, @@ -5215,7 +5215,7 @@ "addtit.pl": 2, "adf_checker.pl": 1, "adhocfilelist": 1, - "adig": 4625, + "adig": 4627, "adjustPeakFile.pl": 5, "adjustRedunGroupFile.pl": 5, "adjustScanRankerScoreByGroup": 2, @@ -5332,7 +5332,7 @@ "agrvate": 1, "agtsampleinforw.dll": 2, "ahmm-s": 1, - "ahost": 4625, + "ahost": 4627, "airr-tools": 5, "akita_data.py": 1, "akita_data_read.py": 1, @@ -5490,18 +5490,18 @@ "alter2bed.pl": 5, "alternative_bins_to_fasta.py": 2, "alv": 1, - "am1bcc": 6, + "am1bcc": 7, "ama": 13, "ama-qvalues": 13, "amalgamateSAM": 1, "amap": 1, - "amb2chm_par.py": 6, - "amb2chm_psf_crd.py": 6, - "amb2gro_top_gro.py": 6, + "amb2chm_par.py": 7, + "amb2chm_psf_crd.py": 7, + "amb2gro_top_gro.py": 7, "amber.py": 1, "amber_to_pdb": 1, - "ambmask": 6, - "ambpdb": 6, + "ambmask": 7, + "ambpdb": 7, "ambtest": 1, "amdgpu-arch": 1, "ame": 13, @@ -5580,7 +5580,8 @@ "anchorwave_sse2": 2, "anchorwave_sse4.1": 2, "andi": 1, - "androiddeployqt6": 1, + "android_deploy.py": 2, + "androiddeployqt6": 3, "anglerfish": 1, "angsd": 1, "animate": 76, @@ -5662,8 +5663,8 @@ "antRun.bat": 1, "antRun.pl": 1, "antarna.py": 1, - "ante-MMPBSA.py": 6, - "antechamber": 6, + "ante-MMPBSA.py": 7, + "antechamber": 7, "antenv.cmd": 1, "antigenic": 27, "antismash": 3, @@ -6012,7 +6013,7 @@ "ase-gui": 4, "ase-info": 4, "ase-run": 4, - "aserver": 461, + "aserver": 463, "asession": 3, "asgal": 1, "asgal_BitVector.py": 1, @@ -6077,7 +6078,7 @@ "assign_taxonomy_by_blast_result.py": 1, "assistant": 257, "assistant-qt4": 3, - "assistant6": 1, + "assistant6": 3, "astalavista": 1, "astats": 2, "asterisk": 1, @@ -6093,7 +6094,7 @@ "atlas-fastq-provider-post-install-tests.sh": 1, "atlas_validation.py": 1, "atoiindex": 12, - "atomtype": 6, + "atomtype": 7, "atpoc": 1, "atropos": 2, "atst": 2, @@ -6475,7 +6476,7 @@ "bank2scaff": 2, "banner": 1, "bar_chart.py": 1, - "bar_pbsa.py": 3, + "bar_pbsa.py": 4, "baralign.sh": 1, "barcode_filter.py": 1, "barcode_plot": 1, @@ -7013,6 +7014,7 @@ "blaze": 1, "blend": 1, "bleties": 1, + "bln2gnu": 1, "blobtools": 2, "blobtools-build_nodesdb": 2, "block2prfl.pl": 15, @@ -7050,7 +7052,7 @@ "bold2utax.py": 1, "bold_identification": 1, "bolt": 2, - "bondtype": 6, + "bondtype": 7, "bondtype.orig": 6, "bonesis-attractors": 1, "bonesis-reprogramming": 1, @@ -7249,7 +7251,7 @@ "broad_utils.py": 1, "brockman_pipeline": 1, "brooklyn_plot": 1, - "brotli": 470, + "brotli": 472, "browse": 18, "bs_call": 2, "bs_seeker2-align.py": 1, @@ -7354,7 +7356,7 @@ "bundlelinks": 2, "bundler": 19, "bunwarpj": 4, - "bunzip2": 6817, + "bunzip2": 6820, "burden_test_vase": 1, "burst_linux_DB12": 1, "burst_linux_DB15": 1, @@ -7408,16 +7410,16 @@ "bxStats.py": 1, "bxcl_seqqc": 1, "bxtools": 1, - "bzcat": 6817, - "bzcmp": 6817, - "bzdiff": 6817, - "bzegrep": 6817, - "bzfgrep": 6817, - "bzgrep": 6817, - "bzip2": 6818, - "bzip2recover": 6817, - "bzless": 6817, - "bzmore": 6817, + "bzcat": 6820, + "bzcmp": 6820, + "bzdiff": 6820, + "bzegrep": 6820, + "bzfgrep": 6820, + "bzgrep": 6820, + "bzip2": 6821, + "bzip2recover": 6820, + "bzless": 6820, + "bzmore": 6820, "c++": 5, "c++filt": 8, "c-index-test": 8, @@ -7434,7 +7436,7 @@ "cPecanLibTests": 1, "cPecanModifyHmm": 1, "cPecanRealign": 1, - "c_rehash": 7963, + "c_rehash": 7966, "ca2ace.pl": 3, "ca2ctg": 2, "ca2mates": 2, @@ -7511,7 +7513,7 @@ "cagecatProcess.py": 1, "cagee": 1, "cai": 28, - "cairo-trace": 5177, + "cairo-trace": 5180, "cairosvg": 6, "cal": 13, "calD": 1, @@ -7614,13 +7616,14 @@ "capnpc-c++": 58, "capnpc-capnp": 58, "capnpc-cython": 1, + "capost2gnu": 1, "capri_eval": 1, - "captoinfo": 7895, + "captoinfo": 7898, "captus_assembly": 1, "caqc.pl": 3, "caqc_help.ini": 3, "car-sequencing": 2, - "car_to_files.py": 6, + "car_to_files.py": 7, "card-trick": 1, "cargo": 1, "cargo-clippy": 1, @@ -7766,7 +7769,7 @@ "ceasBW": 1, "cegma2gff.pl": 15, "cegma2zff": 1, - "ceinutil.py": 6, + "ceinutil.py": 7, "celery": 4, "cell_types_utils.R": 1, "cellbender": 1, @@ -7813,7 +7816,7 @@ "certutil": 187, "cesar": 1, "cestat-cov": 2, - "cestats": 6, + "cestats": 7, "cestats_run": 1, "cfadmin": 29, "cfsan_snp_pipeline": 1, @@ -7874,7 +7877,7 @@ "chardetect": 287, "charfreq": 1, "charge": 27, - "charmmlipid2amber.py": 6, + "charmmlipid2amber.py": 7, "chartex": 58, "chcon": 86, "check": 2, @@ -8064,7 +8067,7 @@ "cit2pmid": 39, "civicpy": 1, "cjk-gs-integrate": 1, - "cjpeg": 5855, + "cjpeg": 5858, "ckeygen": 1, "cksum": 86, "claMLST": 1, @@ -8175,7 +8178,7 @@ "cleanup-coverage.py": 2, "cleanup-stale-gcp-resources.py": 1, "cleanup.py": 1, - "clear": 7895, + "clear": 7898, "clearCNV": 1, "clearcut": 1, "cleric": 1, @@ -8204,7 +8207,7 @@ "clique": 10, "cliquesnv": 1, "clk": 2, - "cllayerinfo": 2, + "cllayerinfo": 3, "clm": 26, "clmformat": 23, "cloci": 1, @@ -8553,7 +8556,7 @@ "compileSpliceCands": 13, "compile_STARE_Linux.sh": 1, "compile_STARE_macOS.sh": 1, - "compile_et": 5916, + "compile_et": 5919, "compiled_table.py": 1, "compleasm": 1, "complementBed": 280, @@ -8866,7 +8869,7 @@ "core_diversity_analyses.py": 1, "core_methods.py": 1, "core_overlap_plot.py": 1, - "corelist": 1745, + "corelist": 1746, "corepack": 12, "coreprocess.pl": 3, "coresnpfilter": 1, @@ -8974,25 +8977,26 @@ "cp2k_run": 1, "cp2k_shell.ssmp": 1, "cpack": 12, - "cpan": 1745, + "cpan": 1746, "cpancover": 6, "cpanm": 245, "cpat.py": 1, - "cpeinutil.py": 6, + "cpeinutil.py": 7, "cpgcdifenrich": 1, "cpgcdifenrichhist.R": 1, "cpgplot": 27, "cpgreport": 27, "cph": 31, - "cphstats": 6, + "cphstats": 7, "cphstats_run": 1, "cpinsim": 1, - "cpinutil.py": 6, + "cpinutil.py": 7, "cpp": 6, - "cpptraj": 6, + "cpptraj": 7, "cpptraj_average": 1, "cpptraj_bfactor": 1, "cpptraj_convert": 1, + "cpptraj_density": 1, "cpptraj_dry": 1, "cpptraj_image": 1, "cpptraj_mask": 1, @@ -9214,7 +9218,7 @@ "cuffquant": 2, "cuppa": 1, "cuppa-chart": 1, - "cups-config": 214, + "cups-config": 216, "curare": 1, "curare_wizard": 1, "curate_chemical_data": 1, @@ -9222,8 +9226,8 @@ "curate_spatial_data": 1, "curate_universe": 1, "curesim": 2, - "curl": 5151, - "curl-config": 6020, + "curl": 5152, + "curl-config": 6022, "curlywhirly": 1, "curve_keygen": 73, "cusp": 27, @@ -9289,11 +9293,11 @@ "cxpm": 60, "cycle_finder": 1, "cyclone": 1, - "cygdb": 84, + "cygdb": 85, "cyntenator": 1, "cyrcular": 1, - "cython": 84, - "cythonize": 84, + "cython": 85, + "cythonize": 85, "cytocad": 2, "cytoscape.sh": 14, "cytosnake": 1, @@ -9444,16 +9448,16 @@ "dbscan": 1, "dbsnp_iit": 12, "dbtell": 27, - "dbus-cleanup-sockets": 261, - "dbus-daemon": 261, + "dbus-cleanup-sockets": 263, + "dbus-daemon": 263, "dbus-daemon-launch-helper": 1, - "dbus-launch": 261, - "dbus-monitor": 261, - "dbus-run-session": 261, - "dbus-send": 261, - "dbus-test-tool": 261, - "dbus-update-activation-environment": 261, - "dbus-uuidgen": 261, + "dbus-launch": 263, + "dbus-monitor": 263, + "dbus-run-session": 263, + "dbus-send": 263, + "dbus-test-tool": 263, + "dbus-update-activation-environment": 263, + "dbus-uuidgen": 263, "dbxcompress": 27, "dbxedam": 27, "dbxfasta": 27, @@ -9671,6 +9675,7 @@ "densitree": 1, "density": 27, "depinfo": 8, + "deploy.py": 2, "depot": 1, "deprecated_decorator.py": 1, "depth.py": 1, @@ -9679,7 +9684,7 @@ "depth_calc.py": 1, "depth_estim_from_vcf.sh": 1, "depythontex": 1, - "derb": 5926, + "derb": 5929, "derep_stuff.py": 2, "deripcal": 1, "derna": 1, @@ -9707,7 +9712,7 @@ "design_naively.py": 2, "designer": 257, "designer-qt4": 3, - "designer6": 1, + "designer6": 3, "desman": 1, "desmanflow.nf": 1, "despair": 1, @@ -9887,7 +9892,7 @@ "django-admin": 4, "django-admin.py": 3, "django-admin.pyc": 1, - "djpeg": 5855, + "djpeg": 5858, "dkfzbiasfilter.py": 1, "dkfzbiasfilter_summarize.py": 1, "dlcoal_to_dlcpar": 1, @@ -10064,7 +10069,7 @@ "draw_circos_images.sh": 1, "draw_fusions.R": 1, "draw_heatmap": 1, - "draw_membrane2": 6, + "draw_membrane2": 7, "draw_model_graph": 1, "draw_tree": 2, "drawgram": 10, @@ -10354,6 +10359,9 @@ "edamname": 27, "edd": 1, "edena": 1, + "edgembar": 1, + "edgembar-WriteGraphHtml.py": 1, + "edgembar-amber2dats.py": 1, "edgepaint": 203, "edgeredef": 5, "edialign": 27, @@ -10424,7 +10432,7 @@ "elink": 316, "elm2meme": 13, "elprep": 1, - "elsize": 6, + "elsize": 7, "em_ref": 1, "ema": 1, "ema-h": 1, @@ -10458,8 +10466,8 @@ "enano": 1, "enasearch": 1, "enc": 1, - "enc2xs": 1745, - "encguess": 1745, + "enc2xs": 1746, + "encguess": 1746, "encode2var": 1, "encode_dir": 1, "encode_exclude_loci": 1, @@ -10594,8 +10602,8 @@ "esl-translate": 176, "esl-weight": 176, "espell": 88, - "espgen": 6, - "espgen.py": 6, + "espgen": 7, + "espgen.py": 7, "espoca": 5, "esri2wkt.py": 4, "est-genomic-kmers.r": 1, @@ -10915,7 +10923,7 @@ "ezez4makefile_v4.pl": 1, "ezez4qsub_vx1.pl": 1, "ezez_vx1.pl": 1, - "f2py": 2170, + "f2py": 2172, "f2py2": 136, "f2py2.7": 136, "f2py3": 1601, @@ -11380,19 +11388,19 @@ "fasxl": 2, "fathom": 2, "favites_lite.py": 1, - "fax2ps": 5327, - "fax2tiff": 5327, + "fax2ps": 5330, + "fax2tiff": 5330, "fba": 1, "fc": 1, - "fc-cache": 5381, - "fc-cat": 5381, - "fc-conflist": 4898, - "fc-list": 5381, - "fc-match": 5381, - "fc-pattern": 5381, - "fc-query": 5381, - "fc-scan": 5381, - "fc-validate": 5381, + "fc-cache": 5384, + "fc-cat": 5384, + "fc-conflist": 4901, + "fc-list": 5384, + "fc-match": 5384, + "fc-pattern": 5384, + "fc-query": 5384, + "fc-scan": 5384, + "fc-validate": 5384, "fc_actg_coordinate": 1, "fc_calc_cutoff": 1, "fc_consensus": 1, @@ -11513,10 +11521,10 @@ "ffreqboot": 2, "fftns": 113, "fftnsi": 113, - "fftw-wisdom": 169, - "fftw-wisdom-to-conf": 169, - "fftwf-wisdom": 169, - "fftwl-wisdom": 169, + "fftw-wisdom": 170, + "fftw-wisdom-to-conf": 170, + "fftwf-wisdom": 170, + "fftwl-wisdom": 170, "fgap.m": 1, "fgbio": 3, "fgendist": 2, @@ -11818,7 +11826,7 @@ "findbp-all": 1, "findbrh": 1, "findcsRNATSS.pl": 4, - "finddgref.py": 6, + "finddgref.py": 7, "findfe": 1, "findfe.X86_64.LINUX": 1, "findgrm.py": 1, @@ -11854,7 +11862,7 @@ "fitevd": 13, "fithic": 1, "fitness_to_selcoeff.py": 1, - "fitpkaeo.py": 6, + "fitpkaeo.py": 7, "fits2bitmap": 3, "fitscheck": 3, "fitscopy": 50, @@ -11895,7 +11903,7 @@ "fixgaps.sh": 30, "fixlib": 2, "fixqt4headers.pl": 248, - "fixremdcouts.py": 6, + "fixremdcouts.py": 7, "fkitsch": 2, "flac": 52, "flag_circular.py": 2, @@ -11973,7 +11981,7 @@ "font-awesome-to-png": 2, "font2c": 3, "fontinst": 1, - "fonttools": 444, + "fonttools": 446, "fop": 1, "forceOneClusterPerPairMem.py": 1, "forest.py": 1, @@ -12065,7 +12073,7 @@ "freec": 1, "freec2bed.pl": 1, "freec2circos.pl": 1, - "freetype-config": 5918, + "freetype-config": 5921, "freeze_graph": 25, "freq2group.pl": 5, "frequency.py": 1, @@ -12079,7 +12087,7 @@ "frg2fastq": 2, "frg2ta": 2, "frgs2clones": 3, - "fribidi": 4043, + "fribidi": 4044, "frictionless": 1, "frm_admin": 1, "frm_purged": 1, @@ -12513,7 +12521,7 @@ "gbk2faa.pl": 2, "gbkviz_webapp": 1, "gbmunge": 1, - "gbnsr6": 6, + "gbnsr6": 7, "gbrowse.conf": 15, "gbrowseold2gff3.pl": 15, "gbsx": 1, @@ -12649,7 +12657,7 @@ "gem-indexer": 3, "gem-mapper": 3, "gem-retriever": 3, - "gem.pmemd": 6, + "gem.pmemd": 7, "gemBS": 1, "gemini": 1, "gemma": 1, @@ -12679,17 +12687,17 @@ "genbank_to": 1, "genblastG": 1, "genbox": 1, - "genbrk": 5926, - "gencfu": 5926, + "genbrk": 5929, + "gencfu": 5929, "genclust": 1, - "gencnval": 5926, + "gencnval": 5929, "gencode_extract_relevant_gtf_exons.pl": 1, "gencode_singleton_unit_test": 5, "genconf": 1, "gencore": 1, "gencove": 1, "gendb": 13, - "gendict": 5926, + "gendict": 5929, "gendist": 10, "gene2protein.db3": 2, "gene2range": 216, @@ -12857,9 +12865,9 @@ "genotyphi.py": 1, "genpcz": 2, "genpept2gsi.pl": 2, - "genrb": 5926, + "genrb": 5929, "genreflex": 3, - "genremdinputs.py": 6, + "genremdinputs.py": 7, "genrestr": 4, "genson": 1, "genview-makedb": 1, @@ -13252,8 +13260,8 @@ "gi2taxid.sh": 31, "gid-taxid": 1, "gie": 44, - "gif2h5": 572, - "gif2hdf": 128, + "gif2h5": 573, + "gif2hdf": 129, "gif2rgb": 776, "gif2tiff": 189, "gif2webp": 357, @@ -13380,7 +13388,7 @@ "gmvalue": 1, "gmvalue.utl": 1, "gmwi2": 1, - "gmx": 7, + "gmx": 8, "gmx-completion-gmx.bash": 4, "gmx-completion.bash": 4, "gmx_cluster": 1, @@ -13570,6 +13578,7 @@ "grappaResultParser": 1, "grass.pl": 2, "grd2cube": 2, + "grd2gnu": 1, "greedyFragmentTiling": 3, "greedy_layout_to_IUM": 3, "green": 1, @@ -13642,7 +13651,7 @@ "gs": 106, "gsbj": 106, "gscat": 2, - "gsd": 5, + "gsd": 6, "gsdj": 106, "gsdj500": 106, "gsea": 1, @@ -13652,9 +13661,9 @@ "gsf": 1, "gsf-office-thumbnailer": 1, "gsf-vba-dump": 1, - "gsl-config": 4584, - "gsl-histogram": 4584, - "gsl-randist": 4584, + "gsl-config": 4585, + "gsl-histogram": 4585, + "gsl-randist": 4585, "gslj": 106, "gslp": 106, "gsmap": 1, @@ -13666,7 +13675,7 @@ "gsnapl.sse42": 12, "gsnd": 106, "gsort": 5, - "gss-client": 5916, + "gss-client": 5919, "gss-server": 2, "gst-completion-helper": 1, "gst-device-monitor-1.0": 241, @@ -13855,7 +13864,7 @@ "gw-merge_topologies.py": 1, "gw-partial_tempering.py": 1, "gwes_plot.r": 1, - "gwh": 6, + "gwh": 7, "gx": 1, "gx-fastq-combiner": 2, "gx-fastq-filter": 2, @@ -13885,45 +13894,46 @@ "gxwf-viz": 1, "gzexe": 22, "gzip": 22, + "gzrecover": 1, "h-num": 1, "h-num.pl": 3, "h264dec": 12, "h264enc": 12, "h2load": 3929, - "h2ph": 1745, - "h2xs": 1745, - "h4_ncdump": 128, - "h4_ncgen": 128, - "h4cc": 128, - "h4redeploy": 128, - "h52gif": 572, - "h5c++": 572, - "h5cc": 577, - "h5clear": 556, - "h5copy": 572, - "h5debug": 572, - "h5delete": 112, - "h5diff": 572, - "h5dump": 574, - "h5fc": 559, - "h5format_convert": 556, + "h2ph": 1746, + "h2xs": 1746, + "h4_ncdump": 129, + "h4_ncgen": 129, + "h4cc": 129, + "h4redeploy": 129, + "h52gif": 573, + "h5c++": 573, + "h5cc": 578, + "h5clear": 557, + "h5copy": 573, + "h5debug": 573, + "h5delete": 113, + "h5diff": 573, + "h5dump": 575, + "h5fc": 560, + "h5format_convert": 557, "h5fuse": 1, - "h5fuse.sh": 79, - "h5import": 572, - "h5jam": 572, - "h5ls": 572, - "h5mkgrp": 572, + "h5fuse.sh": 80, + "h5import": 573, + "h5jam": 573, + "h5ls": 573, + "h5mkgrp": 573, "h5pcc": 3, "h5perf": 3, - "h5perf_serial": 572, + "h5perf_serial": 573, "h5pfc": 3, - "h5redeploy": 572, - "h5repack": 572, - "h5repart": 572, - "h5stat": 572, - "h5tools_test_utils": 58, - "h5unjam": 572, - "h5watch": 556, + "h5redeploy": 573, + "h5repack": 573, + "h5repart": 573, + "h5stat": 573, + "h5tools_test_utils": 59, + "h5unjam": 573, + "h5watch": 557, "hAMRoaster": 1, "h_num": 1, "haarz.x": 1, @@ -14070,36 +14080,36 @@ "haystack_pipeline": 1, "haystack_run_test": 1, "haystack_tf_activity_plane": 1, - "hb-info": 315, - "hb-ot-shape-closure": 5116, - "hb-shape": 5116, - "hb-subset": 4680, - "hb-view": 5073, + "hb-info": 318, + "hb-ot-shape-closure": 5119, + "hb-shape": 5119, + "hb-subset": 4683, + "hb-view": 5076, "hbvblast.sh": 1, "hca-matrix-downloader": 1, "hca-mtx-to-10x": 1, "hclust2.py": 3, "hcluster_pangenome_matrix.sh": 1, "hcluster_sg": 1, - "hcp_getpdb": 6, + "hcp_getpdb": 7, "hdStat": 1, - "hdf24to8": 128, - "hdf2gif": 128, - "hdf2jpeg": 128, + "hdf24to8": 129, + "hdf2gif": 129, + "hdf2jpeg": 129, "hdf2tf.py": 5, "hdf5tobam": 1, "hdf5tobam_dir": 1, - "hdf8to24": 128, - "hdfcomp": 128, - "hdfed": 128, - "hdfimport": 128, - "hdfls": 128, - "hdfpack": 128, - "hdftopal": 128, - "hdftor8": 128, - "hdfunpac": 128, - "hdiff": 128, - "hdp": 128, + "hdf8to24": 129, + "hdfcomp": 129, + "hdfed": 129, + "hdfimport": 129, + "hdfls": 129, + "hdfpack": 129, + "hdftopal": 129, + "hdftor8": 129, + "hdfunpac": 129, + "hdiff": 129, + "hdp": 129, "hdrcopy": 1, "head": 86, "headPolishes": 3, @@ -14314,6 +14324,7 @@ "hmr_rep": 1, "hmtnote": 1, "hocort": 1, + "hole": 1, "holoviews": 2, "homGeneMapping": 16, "homePage.Rmd": 1, @@ -14355,7 +14366,7 @@ "hpc-blast": 1, "hpc_profile.py": 1, "hpcrunner.pl": 1, - "hrepack": 128, + "hrepack": 129, "hrepeat": 1, "hs-blastn": 3, "hsc2hs": 1, @@ -14452,21 +14463,21 @@ "humann_unpack_pathways": 1, "humid": 1, "hv-pipeline.py": 1, - "hwloc-annotate": 94, + "hwloc-annotate": 95, "hwloc-assembler": 2, "hwloc-assembler-remote": 2, - "hwloc-bind": 94, - "hwloc-calc": 94, - "hwloc-compress-dir": 94, - "hwloc-diff": 94, + "hwloc-bind": 95, + "hwloc-calc": 95, + "hwloc-compress-dir": 95, + "hwloc-diff": 95, "hwloc-distances": 2, - "hwloc-distrib": 94, - "hwloc-gather-cpuid": 92, - "hwloc-gather-topology": 94, - "hwloc-info": 94, - "hwloc-ls": 94, - "hwloc-patch": 94, - "hwloc-ps": 94, + "hwloc-distrib": 95, + "hwloc-gather-cpuid": 93, + "hwloc-gather-topology": 95, + "hwloc-info": 95, + "hwloc-ls": 95, + "hwloc-patch": 95, + "hwloc-ps": 95, "hyb_analyze": 1, "hyb_check": 1, "hyb_eval": 1, @@ -14534,9 +14545,9 @@ "ichar": 1, "icon-font-to-png": 2, "iconv": 5462, - "icu-config": 5926, - "icuexportdata": 2138, - "icuinfo": 5926, + "icu-config": 5929, + "icuexportdata": 2141, + "icuinfo": 5929, "id": 86, "id_conserved_regions.pl": 1, "idba": 10, @@ -14570,11 +14581,11 @@ "idfetch": 1, "idiag-socket-details": 14, "idle": 334, - "idle3": 3496, + "idle3": 3499, "idle3.10": 834, "idle3.11": 283, - "idle3.12": 292, - "idle3.13": 12, + "idle3.12": 293, + "idle3.13": 14, "idle3.4": 6, "idle3.5": 103, "idle3.6": 344, @@ -14711,6 +14722,7 @@ "imgcmp": 7, "imginfo": 7, "imgsize": 63, + "immers": 1, "immune-ml": 1, "immune-ml-quickstart": 1, "imod_imode": 1, @@ -14794,11 +14806,11 @@ "infoalign": 27, "infoassembly": 27, "infobase": 27, - "infocmp": 7895, + "infocmp": 7898, "inforesidue": 27, "informant.py": 1, "infoseq": 27, - "infotocap": 7895, + "infotocap": 7898, "ini2xml": 39, "init_Trinotate_sqlite_db.pl": 1, "init_db.sh": 1, @@ -14838,7 +14850,7 @@ "install": 86, "install.db.tables.r": 5, "install.pl": 2, - "installBiocDataPackage.sh": 297, + "installBiocDataPackage.sh": 298, "installMetaphyler.pl": 1, "installPackages.R": 1, "install_archived_sybilSBML.sh": 1, @@ -14860,7 +14872,7 @@ "installpackages.R": 1, "installvst": 16, "instance_events": 29, - "instmodsh": 1745, + "instmodsh": 1746, "int_seqs_to_char_strings.py": 60, "intake": 1, "intake-server": 1, @@ -14963,8 +14975,8 @@ "ipopt": 1, "ipopt_sens": 1, "ipostproc": 1, - "ippeveprinter": 214, - "ipptool": 214, + "ippeveprinter": 216, + "ipptool": 216, "ipr_update_gff": 1, "iprocdic": 1, "iprscan2gff3": 1, @@ -15215,12 +15227,12 @@ "joint-parsimony": 1, "jp.py": 106, "jpackage": 134, - "jpeg2hdf": 128, - "jpegtran": 5855, - "jpgicc": 1058, + "jpeg2hdf": 129, + "jpegtran": 5858, + "jpgicc": 1060, "jpredapi": 1, "jps": 554, - "jq": 310, + "jq": 311, "jronn": 1, "jrunscript": 554, "js-beautify": 1, @@ -15231,7 +15243,7 @@ "json2gff": 1, "json2xml": 228, "json_collect_data_source.py": 1, - "json_pp": 1745, + "json_pp": 1746, "json_xs": 374, "jsondiff": 9, "jsonl2xml": 39, @@ -15239,7 +15251,7 @@ "jsonpath.py": 1, "jsonpath_ng": 1, "jsonpointer": 13, - "jsonschema": 228, + "jsonschema": 229, "jstack": 554, "jstat": 554, "jstatd": 554, @@ -15293,14 +15305,14 @@ "just-top-hits": 19, "just_blast_test.pl": 1, "jwebserver": 50, - "k5srvutil": 5916, + "k5srvutil": 5919, "k8": 170, "k8-Linux": 1, "k_means": 1, "k_means_coefficient": 1, "k_neighbors": 1, "k_neighbors_coefficient": 1, - "kadmin": 5916, + "kadmin": 5919, "kadmin.local": 2, "kadmind": 2, "kaiju": 4, @@ -15395,7 +15407,7 @@ "kdbmeta.3.0.3": 1, "kdbmeta.3.1.0": 1, "kdbmeta.3.1.1": 1, - "kdestroy": 5916, + "kdestroy": 5919, "kea-config": 38, "keep-header": 1, "keep-ribo-periodic": 1, @@ -15406,7 +15418,7 @@ "keggcharter.py": 1, "keggpathway_map.py": 1, "keyFreq": 1, - "keyctl": 2545, + "keyctl": 2548, "keygen": 1, "keyring": 10, "keytool": 554, @@ -15437,7 +15449,7 @@ "kinSimRiboswitch": 1, "king": 1, "kingfisher": 1, - "kinit": 5916, + "kinit": 5919, "kinship-read": 1, "kinshipDecompose": 1, "kinwalker": 56, @@ -15450,7 +15462,7 @@ "kitsch": 10, "kitsune": 1, "kleborate": 1, - "klist": 5916, + "klist": 5919, "kma": 19, "kma_index": 19, "kma_shm": 19, @@ -15540,7 +15552,7 @@ "kp1mer_to_kmer.py": 1, "kp2np.py": 1, "kpal": 2, - "kpasswd": 5916, + "kpasswd": 5919, "kpileup.py": 1, "kprop": 2, "kpropd": 2, @@ -15587,7 +15599,7 @@ "krakenuniq-report": 1, "krakenuniq-translate": 1, "krakmeopen": 1, - "krb5-config": 5916, + "krb5-config": 5919, "krb5-send-pr": 2, "krb5kdc": 2, "kreport2krona.py": 3, @@ -15603,9 +15615,9 @@ "kseq_split": 1, "ksnp": 1, "kssd": 1, - "ksu": 5916, + "ksu": 5919, "ksw": 1, - "kswitch": 5916, + "kswitch": 5919, "ktClassifyBLAST": 17, "ktClassifyHits": 13, "ktGetContigMagnitudes": 17, @@ -15636,12 +15648,12 @@ "ktserver": 2, "kttimedmgr": 2, "kttimedtest": 2, - "ktutil": 5916, + "ktutil": 5919, "ktutilmgr": 2, "ktutilserv": 2, "ktutiltest": 2, "kubectl": 1, - "kvno": 5916, + "kvno": 5919, "kwip": 2, "kwip-stats": 2, "l4p-tmpl": 32, @@ -15650,12 +15662,14 @@ "label-orfs": 2, "label_analysis_run_post_install_tests.bats": 1, "label_analysis_run_post_install_tests.sh": 1, + "labqpt": 1, "lalign36": 7, "lamassemble": 2, "lambda": 1, "lambda2": 1, "lambda_indexer": 1, "lame": 47, + "lamp": 1, "langford-number": 2, "largeb_despair": 1, "largeb_idespair": 1, @@ -15742,6 +15756,17 @@ "ld.awk": 1, "ld.bfd": 8, "ld.gold": 8, + "ldapadd": 2, + "ldapcompare": 2, + "ldapdelete": 2, + "ldapexop": 2, + "ldapmodify": 2, + "ldapmodrdn": 2, + "ldappasswd": 2, + "ldapsearch": 2, + "ldapurl": 2, + "ldapvc": 2, + "ldapwhoami": 2, "ldc-build-runtime": 17, "ldc-profdata": 17, "ldc-prune-cache": 17, @@ -15799,8 +15824,8 @@ "libclair3.cpython-36m-x86_64-linux-gnu.so": 1, "libclair3.o": 1, "libclair3.so": 1, - "libdeflate-gunzip": 4232, - "libdeflate-gzip": 4232, + "libdeflate-gunzip": 4235, + "libdeflate-gzip": 4235, "libdrawgram.so": 5, "libdrawtree.so": 5, "libfile.pl": 1, @@ -15809,9 +15834,9 @@ "libiomp5md.dll": 1, "liblist.pl": 1, "liblist.pl.bak": 1, - "libnetcfg": 1745, - "libpng-config": 5974, - "libpng16-config": 5974, + "libnetcfg": 1746, + "libpng-config": 5977, + "libpng16-config": 5977, "libpypy-c.so": 1, "libpypy-c.so.debug": 1, "libpypy3-c.so.debug": 3, @@ -15864,14 +15889,14 @@ "lingenome": 1, "linguist": 257, "linguist-qt4": 3, - "linguist6": 1, + "linguist6": 3, "linguistic_sequence_complexity.py": 1, "link": 86, "link_bin_sequences.py": 2, "link_ssv.py": 1, "linkage2allegro": 1, "linkhsp_unit_test": 5, - "linkicc": 1058, + "linkicc": 1060, "linknets": 2, "links2sql.pl": 7, "linksBed": 280, @@ -16104,6 +16129,7 @@ "low-cov-multisample.py": 1, "lp_solve": 15, "lpconvert": 1, + "lpp_assign_leaflets": 1, "lprodump": 48, "lprsetup.sh": 106, "lpython": 3, @@ -16150,8 +16176,8 @@ "lsmem": 13, "lsns": 13, "lss3": 29, - "lstopo": 94, - "lstopo-no-graphics": 94, + "lstopo": 95, + "lstopo-no-graphics": 95, "ltqnorm.pl": 1, "ltqnorm.pl.bak": 1, "ltr_finder": 3, @@ -16189,21 +16215,21 @@ "lwp-request": 200, "lyner": 1, "lz-ani": 1, - "lz4": 3548, + "lz4": 3549, "lz4_decompress": 2, - "lz4c": 3547, - "lz4cat": 3547, - "lzcat": 7719, - "lzcmp": 7719, - "lzdiff": 7719, - "lzegrep": 7719, - "lzfgrep": 7719, - "lzgrep": 7719, - "lzless": 7719, - "lzma": 7719, - "lzmadec": 7719, - "lzmainfo": 7719, - "lzmore": 7719, + "lz4c": 3548, + "lz4cat": 3548, + "lzcat": 7722, + "lzcmp": 7722, + "lzdiff": 7722, + "lzegrep": 7722, + "lzfgrep": 7722, + "lzgrep": 7722, + "lzless": 7722, + "lzma": 7722, + "lzmadec": 7722, + "lzmainfo": 7722, + "lzmore": 7722, "lzop_build_offset_table.py": 60, "m-party": 1, "m-tx": 1, @@ -16364,7 +16390,7 @@ "main_html_generator.py": 1, "makblk.pl": 4, "makdbs": 4, - "make": 4179, + "make": 4180, "make-barcodes.awk": 1, "make-cluster.R": 1, "make-conf": 2, @@ -16381,7 +16407,7 @@ "make-table": 2, "make-target-from-bam.py": 1, "make4ht": 1, - "makeANG_RST": 6, + "makeANG_RST": 7, "makeAdjustmentFactorsForNumReadsForAStatBasedOnGC": 1, "makeAdjustmentFactorsForNumReadsForAStatBasedOnGC_v2": 1, "makeAlignmentScripts.py": 1, @@ -16391,12 +16417,12 @@ "makeBigWig.pl": 5, "makeBinaryFile.pl": 5, "makeBloom": 1, - "makeCHIR_RST": 3, - "makeCSA_RST.na": 3, + "makeCHIR_RST": 4, + "makeCSA_RST.na": 4, "makeDB.sh": 2, "makeDIP_RST.dna": 3, - "makeDIP_RST.protein": 3, - "makeDIST_RST": 6, + "makeDIP_RST.protein": 4, + "makeDIST_RST": 7, "makeDesignFiles.py": 1, "makeDiff.sh": 1, "makeFastaFileFromScaffolds.pl": 2, @@ -16418,7 +16444,7 @@ "makePairedOutput2UNEQUALfiles.pl": 2, "makePeakMatrix.R": 1, "makeProxOEFile.py": 1, - "makeRIGID_RST": 3, + "makeRIGID_RST": 4, "makeRadiantDB": 1, "makeSCF": 2, "makeSomaticScripts.py": 1, @@ -16445,7 +16471,7 @@ "make_cXp_html.pl": 1, "make_cgi_list.R": 5, "make_coverage_picture.R": 1, - "make_crd_hg": 6, + "make_crd_hg": 7, "make_cufflinks_ids_unique.py": 2, "make_cut_matrix": 1, "make_database.sh": 1, @@ -16494,6 +16520,8 @@ "make_otu_table.py": 1, "make_per_library_sff.py": 1, "make_phylogeny.py": 1, + "make_post2gnu": 1, + "make_post_map": 1, "make_pp_rst_file.py": 1, "make_prefs_file.py": 1, "make_prg": 2, @@ -16519,7 +16547,7 @@ "makechimeras.sh": 31, "makeclusterdb": 5, "makecontaminatedgenomes.sh": 31, - "makeconv": 5926, + "makeconv": 5929, "makedtx": 1, "makefasta.awk": 1, "makegeo": 39, @@ -16891,6 +16919,7 @@ "md5sum": 86, "md5sum-lite": 535, "md_coords": 12, + "mda_hole": 1, "mdasim": 1, "mdassembler": 16, "mdb01_makeblastdb.sh": 1, @@ -16898,7 +16927,7 @@ "mdb03_add_to_db.py": 1, "mdbrebase": 16, "mdconvert": 1, - "mdgx": 6, + "mdgx": 7, "mdinspect": 1, "mdmcleaner": 1, "mdnab": 6, @@ -16908,8 +16937,8 @@ "mdoc-export-msxdoc": 16, "mdoc-update": 16, "mdoc-validate": 16, - "mdout2pymbar.pl": 6, - "mdout_analyzer.py": 6, + "mdout2pymbar.pl": 7, + "mdout_analyzer.py": 7, "mdpocket": 3, "mdrun": 4, "mdust": 2, @@ -17011,7 +17040,7 @@ "meme2images": 13, "meme2meme": 13, "meme_xml_to_html": 13, - "memembed": 6, + "memembed": 7, "memote": 1, "memprotmd_sim": 1, "memprotmd_sim_list": 1, @@ -17222,7 +17251,7 @@ "metagraph_DNA": 1, "metagraph_Protein": 1, "metalign.py": 1, - "metalpdb2mol2.py": 6, + "metalpdb2mol2.py": 7, "metamaps": 1, "metamate": 1, "metameta": 1, @@ -17231,6 +17260,7 @@ "metamlst.py": 1, "metamobilepicker": 1, "metanovo.sh": 1, + "metaobjectdump.py": 2, "metaphlan": 4, "metaphlan2.py": 4, "metaphlan2krona.py": 4, @@ -17256,7 +17286,7 @@ "metaseq-cli": 1, "metaspades.py": 49, "metatree": 1, - "metatwist": 6, + "metatwist": 7, "metaviralspades.py": 12, "metawatt": 1, "metawrap": 1, @@ -17541,9 +17571,9 @@ "mltree": 1, "mm-alignments.pl": 1, "mm2gv": 203, - "mm_pbsa.pl": 6, - "mm_pbsa_nabnmode": 6, - "mm_pbsa_statistics.pl": 6, + "mm_pbsa.pl": 7, + "mm_pbsa_nabnmode": 7, + "mm_pbsa_statistics.pl": 7, "mmannot": 1, "mmapConvert": 6, "mmcif": 1, @@ -17554,8 +17584,8 @@ "mmlong2-lite.smk": 1, "mmlong2-proc-config.yaml": 1, "mmlong2-proc.smk": 1, - "mmpbsa_py_energy": 6, - "mmpbsa_py_nabnmode": 6, + "mmpbsa_py_energy": 7, + "mmpbsa_py_nabnmode": 7, "mmquant": 1, "mmseqs": 49, "mmseqs-server": 1, @@ -17606,7 +17636,7 @@ "mogrify": 76, "mojo": 6, "mokapot": 3, - "mol2rtf.py": 6, + "mol2rtf.py": 7, "moleculeSize.py": 1, "molsurf": 6, "molvs": 1, @@ -17726,8 +17756,8 @@ "mqtt5_canary": 55, "mqtt5canary": 55, "mquad": 1, - "mrcfile-header": 3, - "mrcfile-validate": 3, + "mrcfile-header": 4, + "mrcfile-validate": 4, "mreps": 2, "mrsfast": 1, "ms": 2, @@ -17943,7 +17973,7 @@ "my_imports.py": 1, "my_maker_functional_fasta": 1, "my_maker_functional_gff": 1, - "my_print_defaults": 106, + "my_print_defaults": 107, "mydbfinder.py": 1, "mygene_utils.py": 1, "myisam_ftdump": 10, @@ -17963,7 +17993,7 @@ "mysql.server": 5, "mysql_client_test": 7, "mysql_client_test_embedded": 2, - "mysql_config": 106, + "mysql_config": 107, "mysql_config_editor": 5, "mysql_convert_table_format": 5, "mysql_embedded": 2, @@ -18047,13 +18077,13 @@ "nasm": 1, "nasp": 1, "native2ascii": 112, - "natsort": 170, + "natsort": 171, "nb-classify": 1, "nb-train": 1, "nbmodel_stan2.py": 1, - "nc-config": 132, - "nc3tonc4": 10, - "nc4tonc3": 10, + "nc-config": 133, + "nc3tonc4": 11, + "nc4tonc3": 11, "ncbi-acc-download": 1, "ncbi-genome-download": 12, "ncbi-gtdb_map.py": 1, @@ -18066,12 +18096,12 @@ "ncbi_genetic_codes.py": 1, "ncbisort": 1, "ncbitax2lin": 1, - "nccopy": 132, - "ncdump": 132, + "nccopy": 133, + "ncdump": 133, "ncfp": 1, - "ncgen": 132, - "ncgen3": 132, - "ncinfo": 10, + "ncgen": 133, + "ncgen3": 133, + "ncinfo": 11, "ncm.py": 1, "ncm_fastq.py": 1, "ncoils": 1, @@ -18089,9 +18119,19 @@ "ncrf_to_bed": 2, "ncrf_to_bed.py": 2, "ncurses5-config": 565, - "ncurses6-config": 7188, + "ncurses6-config": 7191, "ncursesw5-config": 703, - "ncursesw6-config": 7189, + "ncursesw6-config": 7192, + "ndfes": 1, + "ndfes-AvgFESs.py": 1, + "ndfes-CheckEquil.py": 1, + "ndfes-CombineMetafiles.py": 1, + "ndfes-FTSM-PrepareAnalysis.py": 1, + "ndfes-FTSM-PrepareGuess.py": 1, + "ndfes-FTSM-PrepareSims.py": 1, + "ndfes-PrepareAmberData.py": 1, + "ndfes-PrintFES.py": 1, + "ndfes-PrintStringFES.py": 1, "ndg_httpclient": 2, "ndisasm": 1, "ndmetis": 60, @@ -18103,7 +18143,7 @@ "nedbit-features-calculator": 1, "needle": 28, "needleall": 27, - "nef_to_RST": 6, + "nef_to_RST": 7, "negative_training_sampler": 1, "neighbor": 10, "neighborFilter": 1, @@ -18172,7 +18212,7 @@ "nextflow": 16, "nextflow.bak": 15, "nextstrain": 1, - "nf-config": 8, + "nf-config": 9, "nf-core": 1, "nf-ct-add": 14, "nf-ct-events": 14, @@ -18184,7 +18224,7 @@ "nf-monitor": 14, "nf-queue": 14, "nf-test": 1, - "nfe-umbrella-slice": 6, + "nfe-umbrella-slice": 7, "ngd": 12, "ngettext": 5322, "ngg_barabasi_albert": 2, @@ -18196,9 +18236,9 @@ "ngg_newman_watts_strogatz": 2, "ngg_path": 2, "ngg_ring_lattice": 2, - "nghttp": 4572, - "nghttpd": 4572, - "nghttpx": 4572, + "nghttp": 4574, + "nghttpd": 4574, + "nghttpx": 4574, "ngless": 2, "ngless-wrapped": 1, "nglview": 2, @@ -18306,7 +18346,7 @@ "nmds.py": 1, "nmerge": 6, "nmica2meme": 13, - "nmode": 6, + "nmode": 7, "nmrml2isa": 1, "nnrFilter": 1, "noah": 1, @@ -18342,7 +18382,7 @@ "normalize_multicov.pl": 1, "normalize_oneD.R": 1, "normalize_table.py": 1, - "normalizer": 515, + "normalizer": 517, "normandcorrectwrapper.sh": 1, "nose2": 1, "nose2-2.7": 1, @@ -18451,7 +18491,7 @@ "number-lines": 1, "numfmt": 86, "numlines": 1, - "numpy-config": 70, + "numpy-config": 71, "nunit-console": 10, "nunit-console2": 10, "nunit-console4": 10, @@ -18705,7 +18745,7 @@ "oncotator": 1, "one_field_per_line.py": 60, "onehot2seq": 1, - "onig-config": 310, + "onig-config": 311, "onnxruntime_test": 3, "ontime": 1, "ontocount": 27, @@ -18736,12 +18776,12 @@ "openslide-quickhash1sum": 2, "openslide-show-properties": 2, "openslide-write-png": 2, - "openssl": 7963, + "openssl": 7966, "opentargets_validator": 1, "operation.py": 1, - "opj_compress": 699, - "opj_decompress": 699, - "opj_dump": 699, + "opj_compress": 701, + "opj_decompress": 701, + "opj_dump": 701, "opl2ofm": 1, "opsin": 1, "opt": 6, @@ -18947,8 +18987,8 @@ "package-stash-conflicts": 135, "package_output.py": 1, "packagemanager": 1, - "packmol": 6, - "packmol-memgen": 6, + "packmol": 7, + "packmol-memgen": 7, "pacmd": 25, "pactl": 49, "padaligner": 7, @@ -18983,11 +19023,11 @@ "pairtools": 3, "pairwise_comparison": 1, "pal2nal.pl": 9, - "pal2rgb": 5327, + "pal2rgb": 5330, "pal_finder": 1, "paladin": 2, "palindrome": 27, - "paltohdf": 128, + "paltohdf": 129, "pam": 1, "pamon": 49, "pamp": 73, @@ -19032,10 +19072,10 @@ "panfeed-plot": 1, "pangenome_variants_to_treeWAS.pl": 1, "pango-collapse": 1, - "pango-list": 4039, + "pango-list": 4040, "pango-querymodules": 10, - "pango-segmentation": 2864, - "pango-view": 4842, + "pango-segmentation": 2865, + "pango-view": 4843, "pangoLEARN": 1, "pango_designation": 1, "pangolearn.smk": 1, @@ -19108,7 +19148,7 @@ "paralleltask": 3, "paralog_matchtable.pl": 1, "paralogs_to_Rtab.pl": 1, - "paramfit": 6, + "paramfit": 7, "paramspace.py": 1, "paraphase": 1, "parascopy": 1, @@ -19124,9 +19164,9 @@ "parkill": 14, "parl": 1, "parldyn": 1, - "parmcal": 6, - "parmchk2": 6, - "parmed": 9, + "parmcal": 7, + "parmchk2": 7, + "parmed": 10, "parmed_cpinutil": 1, "parmed_hmassrepartition": 1, "parmetis": 1, @@ -19262,7 +19302,7 @@ "pbsEncode": 2, "pbsScoreMatrix": 2, "pbsTrain": 2, - "pbsa": 6, + "pbsa": 7, "pbservice": 2, "pbsim": 2, "pbsrunner.pl": 1, @@ -19288,11 +19328,11 @@ "pcoaPlot.py": 2, "pcor": 1, "pcre-config": 4952, - "pcre2-config": 3767, + "pcre2-config": 3770, "pcre2_jit_test": 3685, - "pcre2grep": 3767, + "pcre2grep": 3770, "pcre2posix_test": 113, - "pcre2test": 3767, + "pcre2test": 3770, "pcregrep": 4952, "pcretest": 4952, "pct2rgb": 1, @@ -19317,7 +19357,7 @@ "pdb2pqr_cli": 2, "pdb2ss": 1, "pdb2xyz": 1, - "pdb4amber": 6, + "pdb4amber": 7, "pdb4amber_run": 1, "pdbAtomName": 1, "pdb_b": 2, @@ -19499,7 +19539,7 @@ "perf": 1, "perfect-square": 2, "perform_controls.pl": 1, - "perl": 1745, + "perl": 1746, "perl-doc": 2, "perl-reversion": 9, "perl5.22.0": 55, @@ -19507,17 +19547,17 @@ "perl5.26.2": 369, "perl5.30.3": 5, "perl5.32.0": 64, - "perl5.32.1": 1252, - "perlbug": 1745, - "perldoc": 1745, - "perlivp": 1745, + "perl5.32.1": 1253, + "perlbug": 1746, + "perldoc": 1746, + "perlivp": 1746, "perltex": 1, - "perlthanks": 1745, + "perlthanks": 1746, "permuteGPAT++": 32, "permuteSmooth": 32, "permute_structure.pl": 1, "permview": 16, - "perror": 106, + "perror": 107, "petl": 1, "peverify": 16, "pf2afm": 106, @@ -19555,7 +19595,7 @@ "pg_build_idx": 1, "pg_build_sdb": 1, "pg_checksums": 42, - "pg_config": 154, + "pg_config": 156, "pg_controldata": 48, "pg_ctl": 48, "pg_dedup": 1, @@ -19869,7 +19909,7 @@ "pickle_cat.py": 1, "pickorientation.awk": 1, "pickout": 1, - "piconv": 1745, + "piconv": 1746, "picopore": 1, "picopore-realtime": 1, "picopore-rename": 1, @@ -19908,10 +19948,10 @@ "pints_caller": 1, "pints_normalizer": 1, "pints_visualizer": 1, - "pip": 3830, + "pip": 3833, "pip2": 1, "pip2.7": 1, - "pip3": 2753, + "pip3": 2756, "pipdeptree": 1, "pipelign": 1, "pipeline.py": 3, @@ -19944,7 +19984,7 @@ "pixelator": 1, "pixeltool": 257, "pixeltool-qt4": 3, - "pixeltool6": 1, + "pixeltool6": 3, "pizzly": 1, "pizzly_flatten_json.py": 1, "pizzly_flatten_json.py.bak": 1, @@ -20064,13 +20104,13 @@ "pkfix-helper": 1, "pkg-config": 78, "pkg-config.bin": 78, - "pkgdata": 5926, + "pkgdata": 5929, "pkginfo": 10, "pkill": 1, "pktogf": 1, "pktype": 1, "pl2bat.pl": 6, - "pl2pm": 1745, + "pl2pm": 1746, "plaScope.sh": 1, "plac_runner.py": 70, "place_orient1.smk": 1, @@ -20271,22 +20311,22 @@ "pmxmutate": 1, "pn2pdf": 1, "pneumo-typer": 1, - "png-fix-itxt": 5974, + "png-fix-itxt": 5977, "pngcp": 89, - "pngfix": 5974, + "pngfix": 5977, "pngtogd": 243, "pngtogd2": 243, "pnps-gen": 1, "poa": 24, "pocheck": 1, "poclcc": 3, - "pod2html": 1745, - "pod2man": 1745, - "pod2text": 1745, - "pod2usage": 1745, + "pod2html": 1746, + "pod2man": 1746, + "pod2text": 1746, + "pod2usage": 1746, "pod5": 1, "pod_cover": 12, - "podchecker": 1745, + "podchecker": 1746, "podselect": 438, "poetry": 6, "pointwise_datasets_concatenator.py": 1, @@ -20394,7 +20434,7 @@ "ppi2html": 2, "pplacer": 22, "ppltotf": 1, - "ppm2tiff": 5327, + "ppm2tiff": 5330, "pprodigal": 2, "pprof": 2, "pprof-symbolize": 1, @@ -20486,7 +20526,7 @@ "prepare_transcripts": 2, "preparseGenome.pl": 5, "prepend_to_fasta_header.py": 2, - "prepgen": 6, + "prepgen": 7, "preprocess": 1, "preprocess.py": 1, "preprocess_dataset": 1, @@ -20590,10 +20630,10 @@ "process_iseq.py": 1, "process_kmer_to_graph.py": 1, "process_mdout": 1, - "process_mdout.perl": 6, + "process_mdout.perl": 7, "process_merged_nodup.sh": 22, "process_minout": 1, - "process_minout.perl": 6, + "process_minout.perl": 7, "process_old_merged_nodup.sh": 22, "process_qseq.py": 1, "process_radtags": 1, @@ -20625,6 +20665,7 @@ "progressiveMauve": 7, "progressiveMauveStatic": 4, "proj": 47, + "project.py": 2, "project.sh": 1, "project.sh.orig": 1, "projectAndStrip": 4, @@ -20777,7 +20818,7 @@ "protxml_to_table.rb": 1, "prov-compare": 9, "prov-convert": 9, - "prove": 1745, + "prove": 1746, "provean": 1, "provean.sh": 1, "provis": 1, @@ -20825,7 +20866,7 @@ "psiblast": 350, "psiblast_iteration_unit_test": 5, "psiblast_unit_test": 5, - "psicc": 1058, + "psicc": 1060, "psiclass": 1, "psiphi": 27, "psirc": 1, @@ -20883,9 +20924,9 @@ "pt2to3": 76, "ptGAUL.sh": 1, "ptangle": 1, - "ptar": 1745, - "ptardiff": 1745, - "ptargrep": 1745, + "ptar": 1746, + "ptardiff": 1746, + "ptargrep": 1746, "ptdump": 76, "ptest": 1, "ptex": 1, @@ -21031,7 +21072,7 @@ "pySelectMotifsFromGTF.py": 1, "pyTMB.py": 1, "py_fasta_validator": 1, - "py_resp.py": 3, + "py_resp.py": 4, "pyadam": 1, "pyami_sendmail": 29, "pyaml": 3, @@ -21065,12 +21106,12 @@ "pydemult": 1, "pydicom": 1, "pydna_repeatfinder": 1, - "pydoc": 3829, - "pydoc3": 3496, + "pydoc": 3832, + "pydoc3": 3499, "pydoc3.10": 834, "pydoc3.11": 283, - "pydoc3.12": 292, - "pydoc3.13": 12, + "pydoc3.12": 293, + "pydoc3.13": 14, "pydoc3.4": 6, "pydoc3.5": 103, "pydoc3.6": 344, @@ -21091,8 +21132,8 @@ "pyflyte-execute": 1, "pyflyte-fast-execute": 1, "pyflyte-map-execute": 1, - "pyftmerge": 444, - "pyftsubset": 444, + "pyftmerge": 446, + "pyftsubset": 446, "pygal_gen.py": 2, "pygcap": 1, "pygenetic_code": 1, @@ -21152,6 +21193,7 @@ "pyrad": 1, "pyrcc4": 8, "pyrcc5": 221, + "pyresp_gen.py": 1, "pyreverse": 11, "pyro4-check-config": 2, "pyro4-flameserver": 2, @@ -21186,6 +21228,8 @@ "pyside2-lupdate": 2, "pyside2-rcc": 2, "pyside2-uic": 2, + "pyside6-rcc": 2, + "pyside6-uic": 2, "pyside_tool.py": 2, "pyslices": 6, "pyslicesshell": 6, @@ -21200,8 +21244,8 @@ "pytest": 151, "pytest-benchmark": 1, "pythia8-config": 1, - "python": 3830, - "python-argcomplete-check-easy-install-script": 347, + "python": 3833, + "python-argcomplete-check-easy-install-script": 348, "python-argcomplete-tcsh": 191, "python-build": 2, "python-config": 334, @@ -21211,17 +21255,17 @@ "python2.5-config": 1, "python2.7": 333, "python2.7-config": 316, - "python3": 3497, - "python3-config": 3496, - "python3.1": 1421, + "python3": 3500, + "python3-config": 3499, + "python3.1": 1424, "python3.10": 834, "python3.10-config": 834, "python3.11": 283, "python3.11-config": 283, - "python3.12": 292, - "python3.12-config": 292, - "python3.13": 12, - "python3.13-config": 12, + "python3.12": 293, + "python3.12-config": 293, + "python3.13": 14, + "python3.13-config": 14, "python3.4": 6, "python3.4-config": 6, "python3.4m": 6, @@ -21278,64 +21322,65 @@ "qcli_make_script": 3, "qcollectiongenerator": 257, "qcollectiongenerator-qt4": 3, - "qconvex": 48, + "qconvex": 50, "qcp": 2, "qcreporter.py": 1, "qcs": 2, "qd-config": 3, "qdbus": 255, "qdbus-qt4": 3, - "qdbus6": 1, + "qdbus6": 3, "qdbuscpp2xml": 255, "qdbuscpp2xml-qt4": 3, "qdbusviewer": 255, "qdbusviewer-qt4": 3, - "qdbusviewer6": 1, + "qdbusviewer6": 3, "qdbusxml2cpp": 255, "qdbusxml2cpp-qt4": 3, - "qdelaunay": 48, + "qdelaunay": 50, "qdistancefieldgenerator": 141, - "qdistancefieldgenerator6": 1, + "qdistancefieldgenerator6": 3, "qdoc": 229, "qdoc3": 9, "qdoc3-qt4": 3, - "qdoc6": 1, + "qdoc6": 3, "qfilt": 1, "qfy.py": 1, "qgltf": 189, "qgrs": 1, - "qhalf": 48, + "qhalf": 50, "qhelpconverter": 116, "qhelpconverter-qt4": 3, "qhelpgenerator": 257, "qhelpgenerator-qt4": 3, "qhery": 1, - "qhull": 48, + "qhull": 50, "qiime2lefse.py": 1, "qiimeToMaaslin.py": 1, "qiskit-xyz2pdb": 1, "qlalr": 248, "qmake": 257, "qmake-qt4": 3, - "qmake6": 1, + "qmake6": 3, "qmer-filter": 2, "qml": 248, - "qml6": 1, + "qml.py": 2, + "qml6": 3, "qmlcachegen": 189, "qmleasing": 248, - "qmleasing6": 1, + "qmleasing6": 3, "qmlformat": 48, "qmlimportscanner": 248, "qmllint": 248, - "qmlls6": 1, + "qmlls6": 3, "qmlmin": 248, "qmlplugindump": 257, "qmlplugindump-qt4": 3, "qmlpreview": 141, - "qmlpreview6": 1, + "qmlpreview6": 3, "qmlprofiler": 248, "qmlscene": 248, - "qmlscene6": 1, + "qmlscene6": 3, "qmltestrunner": 248, "qmltime": 48, "qmltyperegistrar": 48, @@ -21358,8 +21403,10 @@ "qpff3base": 1, "qpfmv": 1, "qpfstats": 1, + "qplot": 1, "qpmix": 1, "qpreroot": 1, + "qpt_conv": 1, "qs": 2, "qscores_from_summary": 1, "qscxmlc": 189, @@ -21371,20 +21418,21 @@ "qt.conf": 259, "qt3to4": 9, "qt3to4-qt4": 3, - "qt6.conf": 1, + "qt6.conf": 3, "qtattributionsscanner": 189, "qtconfig": 9, "qtconfig-qt4": 3, "qtdiag": 248, - "qtdiag6": 1, + "qtdiag6": 3, "qtip": 1, "qtlplot": 1, "qtlseq": 1, "qtofpeakpicker": 1, "qtpaths": 248, "qtplugininfo": 248, - "qtplugininfo6": 1, + "qtplugininfo6": 3, "qtpy": 6, + "qtpy2cpp.py": 2, "qttracereplay": 9, "qttracereplay-qt4": 3, "quake.py": 2, @@ -21431,6 +21479,7 @@ "query_testlists": 2, "querydata_unit_test": 5, "queryinfo_unit_test": 5, + "quick": 1, "quick_hierarchical_clustering": 1, "quickmerge": 1, "quicktree": 6, @@ -21452,13 +21501,13 @@ "qvinaw": 1, "qvinaw_split": 1, "qvkgen": 141, - "qvoronoi": 48, + "qvoronoi": 50, "qwebengine_convert_dict": 141, "r-seurat-scripts-post-install-tests.bats": 2, "r-seurat-scripts-post-install-tests.sh": 2, "r2r": 3, "r2r_msa_comply.pl": 2, - "r8tohdf": 128, + "r8tohdf": 129, "rCRS.fasta": 1, "rMETL": 1, "r_sample_int": 1, @@ -21564,7 +21613,7 @@ "ratt": 2, "rav1e": 12, "raven": 4, - "raw2tiff": 5327, + "raw2tiff": 5330, "raw_n50": 10, "raw_n50.o": 10, "raw_vcf_parse.py": 1, @@ -21592,7 +21641,7 @@ "rbhtfinder": 1, "rblist": 2, "rbmoegrid": 2, - "rbox": 48, + "rbox": 50, "rbpbench": 1, "rbrms": 1, "rbs": 9, @@ -21632,7 +21681,7 @@ "rdfgraphisomorphism": 34, "rdfpipe": 34, "rdfs2dot": 34, - "rdjpgcom": 5855, + "rdjpgcom": 5858, "rdkit2fps": 1, "rdma_client": 25, "rdma_server": 25, @@ -21764,7 +21813,7 @@ "redbuild": 1, "redepth.pl": 4, "redoalignment_unit_test": 5, - "reduce": 7, + "reduce": 8, "reduce-alignment": 13, "reduce-kmers": 1, "reduce-qmers": 1, @@ -21826,7 +21875,7 @@ "refseqget": 27, "refseqsplit.py": 2, "regenie": 1, - "register-python-argcomplete": 347, + "register-python-argcomplete": 348, "regression_neural_network": 1, "regression_predict": 1, "regtools": 1, @@ -22090,6 +22139,7 @@ "repstopdf": 1, "requantAlignedValues.py": 1, "request": 1, + "requirements-android.txt": 2, "requirements.txt": 1, "rert": 1, "rerunMultiTest": 2, @@ -22102,7 +22152,7 @@ "reseek": 1, "reseq": 1, "reseq-prepare-names.py": 1, - "reset": 7895, + "reset": 7898, "resetFragLibrary": 2, "reset_array.pl": 1, "reset_experiment.pl": 1, @@ -22110,7 +22160,7 @@ "resgen2": 16, "residc03.pdb": 1, "residc03n.pdb": 1, - "residuegen": 6, + "residuegen": 7, "resis_parser.py": 1, "resistify": 1, "resizePosFile.pl": 5, @@ -22121,8 +22171,8 @@ "resolve_trio.sh": 1, "resolveip": 7, "resolvenhap.py": 1, - "resp": 6, - "respgen": 6, + "resp": 7, + "respgen": 7, "rest-ids-ali.pl": 1, "restclient": 1, "restdist": 10, @@ -22221,11 +22271,11 @@ "ripser": 1, "ripser-coeff": 1, "ripser-debug": 1, - "rism1d": 6, - "rism3d.orave": 6, - "rism3d.snglpnt": 6, - "rism3d.thermo": 6, - 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"xander_customized_hmmer_version_for_prepare_gene.sh": 1, "xargs": 4, @@ -26882,8 +26939,8 @@ "xhmm": 1, "xinteract": 2, "xjc": 117, - "xkbcli": 100, - "xleap": 6, + "xkbcli": 102, + "xleap": 7, "xlsx2json.py": 1, "xmatchview-conifer.py": 1, "xmatchview.py": 1, @@ -26891,7 +26948,7 @@ "xmfa2maf": 4, "xmfa2maf.pl": 1, "xml": 1, - "xml2-config": 5454, + "xml2-config": 5457, "xml2-config.bak": 34, "xml2dcm": 1, "xml2dsr": 1, @@ -26904,17 +26961,17 @@ "xml_spellcheck": 64, "xml_split": 64, "xml_to_bas.pl": 3, - "xmlcatalog": 5454, + "xmlcatalog": 5457, "xmlget": 23, "xmlindent": 1, - "xmllint": 5454, + "xmllint": 5457, "xmlpatterns": 255, "xmlpatterns-qt4": 3, "xmlpatternsvalidator": 255, "xmlpatternsvalidator-qt4": 3, "xmltext": 23, "xmlvalid": 1, - "xmlwf": 2410, + "xmlwf": 2412, "xparmed": 7, "xpath": 61, "xpclr": 1, @@ -26926,7 +26983,7 @@ "xpore": 1, "xpore-dataprep": 1, "xpore-diffmod": 1, - "xq": 298, + "xq": 299, "xrdacctest": 1, "xrdadler32": 1, "xrdcopy": 1, @@ -26944,12 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"zipdetails": 1746, "zipgrep": 25, "zipinfo": 25, - "zipmerge": 96, + "zipmerge": 97, "zipnote": 3, "zipsplit": 3, - "ziptool": 96, + "ziptool": 97, "zless": 5, "zlib.net.dll": 4, "zlib_decompress": 5, @@ -27069,10 +27126,10 @@ "zrun": 3, "zsh": 3, "zsh-5.8": 3, - "zstd": 5346, - "zstdcat": 5346, - "zstdgrep": 5144, - "zstdless": 5144, - "zstdmt": 5346, + "zstd": 5349, + "zstdcat": 5349, + "zstdgrep": 5147, + "zstdless": 5147, + "zstdmt": 5349, "ztr_dump": 2 } \ No newline at end of file diff --git a/quay.io/biocontainers/b/biobb_mem:5.0.1--pyhdfd78af_0.json b/quay.io/biocontainers/b/biobb_mem:5.0.1--pyhdfd78af_0.json new file mode 100644 index 0000000..22697a9 --- /dev/null +++ b/quay.io/biocontainers/b/biobb_mem:5.0.1--pyhdfd78af_0.json @@ -0,0 +1,512 @@ +{ + "2to3": "/usr/local/bin/2to3", + "2to3-3.12": "/usr/local/bin/2to3-3.12", + "AddToBox": "/usr/local/bin/AddToBox", + "CartHess2FC.py": "/usr/local/bin/CartHess2FC.py", + "ChBox": "/usr/local/bin/ChBox", + "FEW.pl": 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"/usr/local/bin/makeCHIR_RST", + "makeCSA_RST.na": "/usr/local/bin/makeCSA_RST.na", + "makeDIP_RST.protein": "/usr/local/bin/makeDIP_RST.protein", + "makeDIST_RST": "/usr/local/bin/makeDIST_RST", + "makeRIGID_RST": "/usr/local/bin/makeRIGID_RST", + "make_crd_hg": "/usr/local/bin/make_crd_hg", + "make_post2gnu": "/usr/local/bin/make_post2gnu", + "make_post_map": "/usr/local/bin/make_post_map", + "makeconv": "/usr/local/bin/makeconv", + "mda_hole": "/usr/local/bin/mda_hole", + "mdgx": "/usr/local/bin/mdgx", + "mdout2pymbar.pl": "/usr/local/bin/mdout2pymbar.pl", + "mdout_analyzer.py": "/usr/local/bin/mdout_analyzer.py", + "memembed": "/usr/local/bin/memembed", + "metalpdb2mol2.py": "/usr/local/bin/metalpdb2mol2.py", + "metaobjectdump.py": "/usr/local/bin/metaobjectdump.py", + "metatwist": "/usr/local/bin/metatwist", + "mm_pbsa.pl": "/usr/local/bin/mm_pbsa.pl", + "mm_pbsa_nabnmode": "/usr/local/bin/mm_pbsa_nabnmode", + "mm_pbsa_statistics.pl": "/usr/local/bin/mm_pbsa_statistics.pl", + "mmpbsa_py_energy": "/usr/local/bin/mmpbsa_py_energy", + "mmpbsa_py_nabnmode": "/usr/local/bin/mmpbsa_py_nabnmode", + "mol2rtf.py": "/usr/local/bin/mol2rtf.py", + "mrcfile-header": "/usr/local/bin/mrcfile-header", + "mrcfile-validate": "/usr/local/bin/mrcfile-validate", + "nc-config": "/usr/local/bin/nc-config", + "nc3tonc4": "/usr/local/bin/nc3tonc4", + "nc4tonc3": "/usr/local/bin/nc4tonc3", + "nccopy": "/usr/local/bin/nccopy", + "ncdump": "/usr/local/bin/ncdump", + "ncgen": "/usr/local/bin/ncgen", + "ncgen3": "/usr/local/bin/ncgen3", + "ncinfo": "/usr/local/bin/ncinfo", + "ncurses6-config": "/usr/local/bin/ncurses6-config", + "ncursesw6-config": "/usr/local/bin/ncursesw6-config", + "ndfes": "/usr/local/bin/ndfes", + "ndfes-AvgFESs.py": "/usr/local/bin/ndfes-AvgFESs.py", + "ndfes-CheckEquil.py": "/usr/local/bin/ndfes-CheckEquil.py", + "ndfes-CombineMetafiles.py": "/usr/local/bin/ndfes-CombineMetafiles.py", + "ndfes-FTSM-PrepareAnalysis.py": "/usr/local/bin/ndfes-FTSM-PrepareAnalysis.py", + "ndfes-FTSM-PrepareGuess.py": "/usr/local/bin/ndfes-FTSM-PrepareGuess.py", + "ndfes-FTSM-PrepareSims.py": "/usr/local/bin/ndfes-FTSM-PrepareSims.py", + "ndfes-PrepareAmberData.py": "/usr/local/bin/ndfes-PrepareAmberData.py", + "ndfes-PrintFES.py": "/usr/local/bin/ndfes-PrintFES.py", + "ndfes-PrintStringFES.py": "/usr/local/bin/ndfes-PrintStringFES.py", + "nef_to_RST": "/usr/local/bin/nef_to_RST", + "nf-config": "/usr/local/bin/nf-config", + "nfe-umbrella-slice": "/usr/local/bin/nfe-umbrella-slice", + "nghttp": "/usr/local/bin/nghttp", + "nghttpd": "/usr/local/bin/nghttpd", + "nghttpx": "/usr/local/bin/nghttpx", + "nmode": "/usr/local/bin/nmode", + "normalizer": "/usr/local/bin/normalizer", + "openssl": "/usr/local/bin/openssl", + "opj_compress": "/usr/local/bin/opj_compress", + "opj_decompress": "/usr/local/bin/opj_decompress", + "opj_dump": "/usr/local/bin/opj_dump", + "packmol": "/usr/local/bin/packmol", + "packmol-memgen": "/usr/local/bin/packmol-memgen", + "pal2rgb": "/usr/local/bin/pal2rgb", + "paltohdf": "/usr/local/bin/paltohdf", + "paramfit": "/usr/local/bin/paramfit", + "parmcal": "/usr/local/bin/parmcal", + "parmchk2": "/usr/local/bin/parmchk2", + "parmed": "/usr/local/bin/parmed", + "pbsa": "/usr/local/bin/pbsa", + "pcre2-config": "/usr/local/bin/pcre2-config", + "pcre2grep": "/usr/local/bin/pcre2grep", + "pcre2test": "/usr/local/bin/pcre2test", + "pdb4amber": "/usr/local/bin/pdb4amber", + "perl": "/usr/local/bin/perl", + "perl5.32.1": "/usr/local/bin/perl5.32.1", + "perlbug": "/usr/local/bin/perlbug", + "perldoc": "/usr/local/bin/perldoc", + "perlivp": "/usr/local/bin/perlivp", + "perlthanks": "/usr/local/bin/perlthanks", + "pg_config": "/usr/local/bin/pg_config", + "piconv": "/usr/local/bin/piconv", + "pip": "/usr/local/bin/pip", + "pip3": "/usr/local/bin/pip3", + "pixeltool6": "/usr/local/bin/pixeltool6", + "pkgdata": "/usr/local/bin/pkgdata", + "pl2pm": "/usr/local/bin/pl2pm", + "png-fix-itxt": "/usr/local/bin/png-fix-itxt", + "pngfix": "/usr/local/bin/pngfix", + "pod2html": "/usr/local/bin/pod2html", + "pod2man": "/usr/local/bin/pod2man", + "pod2text": "/usr/local/bin/pod2text", + "pod2usage": "/usr/local/bin/pod2usage", + "podchecker": "/usr/local/bin/podchecker", + "ppm2tiff": "/usr/local/bin/ppm2tiff", + "prepgen": "/usr/local/bin/prepgen", + "process_mdout.perl": "/usr/local/bin/process_mdout.perl", + "process_minout.perl": "/usr/local/bin/process_minout.perl", + "project.py": "/usr/local/bin/project.py", + "prove": "/usr/local/bin/prove", + "psicc": "/usr/local/bin/psicc", + "ptar": "/usr/local/bin/ptar", + "ptardiff": "/usr/local/bin/ptardiff", + "ptargrep": "/usr/local/bin/ptargrep", + "py_resp.py": "/usr/local/bin/py_resp.py", + "pydoc": "/usr/local/bin/pydoc", + "pydoc3": "/usr/local/bin/pydoc3", + "pydoc3.12": "/usr/local/bin/pydoc3.12", + "pyftmerge": "/usr/local/bin/pyftmerge", + "pyftsubset": "/usr/local/bin/pyftsubset", + "pyresp_gen.py": "/usr/local/bin/pyresp_gen.py", + "pyside6-rcc": "/usr/local/bin/pyside6-rcc", + "pyside6-uic": "/usr/local/bin/pyside6-uic", + "python": "/usr/local/bin/python", + "python3": "/usr/local/bin/python3", + "python3-config": "/usr/local/bin/python3-config", + "python3.1": "/usr/local/bin/python3.1", + "python3.12": "/usr/local/bin/python3.12", + "python3.12-config": "/usr/local/bin/python3.12-config", + "qconvex": "/usr/local/bin/qconvex", + "qdbus6": "/usr/local/bin/qdbus6", + "qdbusviewer6": "/usr/local/bin/qdbusviewer6", + "qdelaunay": "/usr/local/bin/qdelaunay", + "qdistancefieldgenerator6": "/usr/local/bin/qdistancefieldgenerator6", + "qdoc6": "/usr/local/bin/qdoc6", + "qhalf": "/usr/local/bin/qhalf", + "qhull": "/usr/local/bin/qhull", + "qmake6": "/usr/local/bin/qmake6", + "qml.py": "/usr/local/bin/qml.py", + "qml6": "/usr/local/bin/qml6", + "qmleasing6": "/usr/local/bin/qmleasing6", + "qmlls6": "/usr/local/bin/qmlls6", + "qmlpreview6": "/usr/local/bin/qmlpreview6", + "qmlscene6": "/usr/local/bin/qmlscene6", + "qplot": "/usr/local/bin/qplot", + "qpt_conv": "/usr/local/bin/qpt_conv", + "qt6.conf": "/usr/local/bin/qt6.conf", + "qtdiag6": "/usr/local/bin/qtdiag6", + "qtplugininfo6": "/usr/local/bin/qtplugininfo6", + "qtpy2cpp.py": "/usr/local/bin/qtpy2cpp.py", + "quick": "/usr/local/bin/quick", + "qvoronoi": "/usr/local/bin/qvoronoi", + "r8tohdf": "/usr/local/bin/r8tohdf", + "raw2tiff": "/usr/local/bin/raw2tiff", + "rbox": "/usr/local/bin/rbox", + "rdjpgcom": "/usr/local/bin/rdjpgcom", + "reduce": "/usr/local/bin/reduce", + "requirements-android.txt": "/usr/local/bin/requirements-android.txt", + "reset": "/usr/local/bin/reset", + "residuegen": "/usr/local/bin/residuegen", + "resp": "/usr/local/bin/resp", + "respgen": "/usr/local/bin/respgen", + "rism1d": "/usr/local/bin/rism1d", + "rism3d.orave": "/usr/local/bin/rism3d.orave", + "rism3d.snglpnt": "/usr/local/bin/rism3d.snglpnt", + "rism3d.thermo": "/usr/local/bin/rism3d.thermo", + "ristosds": "/usr/local/bin/ristosds", + "sander": "/usr/local/bin/sander", + "sander.LES": "/usr/local/bin/sander.LES", + "saxs_md": "/usr/local/bin/saxs_md", + "saxs_rism": "/usr/local/bin/saxs_rism", + "sclient": "/usr/local/bin/sclient", + "senergy": "/usr/local/bin/senergy", + "sgldinfo.sh": "/usr/local/bin/sgldinfo.sh", + "sgldwt.sh": "/usr/local/bin/sgldwt.sh", + "shasum": "/usr/local/bin/shasum", + "shiboken6": "/usr/local/bin/shiboken6", + "shiboken_tool.py": "/usr/local/bin/shiboken_tool.py", + "sim_client": "/usr/local/bin/sim_client", + "simplepbsa": "/usr/local/bin/simplepbsa", + "softcore_setup.py": "/usr/local/bin/softcore_setup.py", + "sos_triangle": "/usr/local/bin/sos_triangle", + "sph_process": "/usr/local/bin/sph_process", + "splain": "/usr/local/bin/splain", + "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer", + "sqm": "/usr/local/bin/sqm", + "streamzip": "/usr/local/bin/streamzip", + "sviol": "/usr/local/bin/sviol", + "sviol2": "/usr/local/bin/sviol2", + "tabs": "/usr/local/bin/tabs", + "tclsh": "/usr/local/bin/tclsh", + "tclsh8.6": "/usr/local/bin/tclsh8.6", + "teLeap": "/usr/local/bin/teLeap", + "test-api": "/usr/local/bin/test-api", + "tic": "/usr/local/bin/tic", + "tiff2bw": "/usr/local/bin/tiff2bw", + "tiff2pdf": "/usr/local/bin/tiff2pdf", + "tiff2ps": "/usr/local/bin/tiff2ps", + "tiff2rgba": "/usr/local/bin/tiff2rgba", + "tiffcmp": "/usr/local/bin/tiffcmp", + "tiffcp": "/usr/local/bin/tiffcp", + "tiffcrop": "/usr/local/bin/tiffcrop", + "tiffdither": "/usr/local/bin/tiffdither", + "tiffdump": "/usr/local/bin/tiffdump", + "tiffinfo": "/usr/local/bin/tiffinfo", + "tiffmedian": "/usr/local/bin/tiffmedian", + "tiffset": "/usr/local/bin/tiffset", + "tiffsplit": "/usr/local/bin/tiffsplit", + "tificc": "/usr/local/bin/tificc", + "tinker_to_amber": "/usr/local/bin/tinker_to_amber", + "tjbench": "/usr/local/bin/tjbench", + "tleap": "/usr/local/bin/tleap", + "toe": "/usr/local/bin/toe", + "tput": "/usr/local/bin/tput", + "tqdm": "/usr/local/bin/tqdm", + "transicc": "/usr/local/bin/transicc", + "tset": "/usr/local/bin/tset", + "ttx": "/usr/local/bin/ttx", + "ucpp": "/usr/local/bin/ucpp", + "unlz4": "/usr/local/bin/unlz4", + "unlzma": "/usr/local/bin/unlzma", + "unxz": "/usr/local/bin/unxz", + "unzstd": "/usr/local/bin/unzstd", + "uuclient": "/usr/local/bin/uuclient", + "vdwdot": "/usr/local/bin/vdwdot", + "vmake": "/usr/local/bin/vmake", + "vmd_triangles_to_lines": "/usr/local/bin/vmd_triangles_to_lines", + "vshow": "/usr/local/bin/vshow", + "wayland-scanner": "/usr/local/bin/wayland-scanner", + "wheel": "/usr/local/bin/wheel", + "wish": "/usr/local/bin/wish", + "wish8.6": "/usr/local/bin/wish8.6", + "wrjpgcom": "/usr/local/bin/wrjpgcom", + "x86_64-conda-linux-gnu-ld": "/usr/local/bin/x86_64-conda-linux-gnu-ld", + "x86_64-conda_cos6-linux-gnu-ld": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-ld", + "xaLeap": "/usr/local/bin/xaLeap", + "xkbcli": "/usr/local/bin/xkbcli", + "xleap": "/usr/local/bin/xleap", + "xml2-config": "/usr/local/bin/xml2-config", + "xmlcatalog": "/usr/local/bin/xmlcatalog", + "xmllint": "/usr/local/bin/xmllint", + "xmlwf": "/usr/local/bin/xmlwf", + "xslt-config": "/usr/local/bin/xslt-config", + "xsltproc": "/usr/local/bin/xsltproc", + "xsubpp": "/usr/local/bin/xsubpp", + "xz": "/usr/local/bin/xz", + "xzcat": "/usr/local/bin/xzcat", + "xzcmp": "/usr/local/bin/xzcmp", + "xzdec": "/usr/local/bin/xzdec", + "xzdiff": "/usr/local/bin/xzdiff", + "xzegrep": "/usr/local/bin/xzegrep", + "xzfgrep": "/usr/local/bin/xzfgrep", + "xzgrep": "/usr/local/bin/xzgrep", + "xzless": "/usr/local/bin/xzless", + "xzmore": "/usr/local/bin/xzmore", + "zipcmp": "/usr/local/bin/zipcmp", + "zipdetails": "/usr/local/bin/zipdetails", + "zipmerge": "/usr/local/bin/zipmerge", + "ziptool": "/usr/local/bin/ziptool", + "zstd": "/usr/local/bin/zstd", + "zstdcat": "/usr/local/bin/zstdcat", + "zstdgrep": "/usr/local/bin/zstdgrep", + "zstdless": "/usr/local/bin/zstdless", + "zstdmt": "/usr/local/bin/zstdmt" +} \ No newline at end of file diff --git a/quay.io/biocontainers/g/gzrt:0.8--he4a0461_0.json b/quay.io/biocontainers/g/gzrt:0.8--he4a0461_0.json new file mode 100644 index 0000000..739d094 --- /dev/null +++ b/quay.io/biocontainers/g/gzrt:0.8--he4a0461_0.json @@ -0,0 +1,3 @@ +{ + "gzrecover": "/usr/local/bin/gzrecover" +} \ No newline at end of file diff --git a/quay.io/biocontainers/l/lamps:1.0.3--pyhdfd78af_0.json b/quay.io/biocontainers/l/lamps:1.0.3--pyhdfd78af_0.json new file mode 100644 index 0000000..e47c869 --- /dev/null +++ b/quay.io/biocontainers/l/lamps:1.0.3--pyhdfd78af_0.json @@ -0,0 +1,240 @@ +{ + "android_deploy.py": "/usr/local/bin/android_deploy.py", + "androiddeployqt6": "/usr/local/bin/androiddeployqt6", + "aserver": "/usr/local/bin/aserver", + "assistant6": "/usr/local/bin/assistant6", + "brotli": "/usr/local/bin/brotli", + "bunzip2": "/usr/local/bin/bunzip2", + "bzcat": "/usr/local/bin/bzcat", + "bzcmp": "/usr/local/bin/bzcmp", + "bzdiff": "/usr/local/bin/bzdiff", + "bzegrep": "/usr/local/bin/bzegrep", + "bzfgrep": "/usr/local/bin/bzfgrep", + "bzgrep": "/usr/local/bin/bzgrep", + "bzip2": "/usr/local/bin/bzip2", + "bzip2recover": "/usr/local/bin/bzip2recover", + "bzless": "/usr/local/bin/bzless", + "bzmore": "/usr/local/bin/bzmore", + "c_rehash": "/usr/local/bin/c_rehash", + "cairo-trace": "/usr/local/bin/cairo-trace", + "captoinfo": "/usr/local/bin/captoinfo", + "cjpeg": "/usr/local/bin/cjpeg", + "clear": "/usr/local/bin/clear", + "compile_et": "/usr/local/bin/compile_et", + "cups-config": "/usr/local/bin/cups-config", + "dbus-cleanup-sockets": "/usr/local/bin/dbus-cleanup-sockets", + "dbus-daemon": "/usr/local/bin/dbus-daemon", + "dbus-launch": "/usr/local/bin/dbus-launch", + "dbus-monitor": "/usr/local/bin/dbus-monitor", + "dbus-run-session": "/usr/local/bin/dbus-run-session", + "dbus-send": "/usr/local/bin/dbus-send", + "dbus-test-tool": "/usr/local/bin/dbus-test-tool", + "dbus-update-activation-environment": "/usr/local/bin/dbus-update-activation-environment", + "dbus-uuidgen": "/usr/local/bin/dbus-uuidgen", + "deploy.py": "/usr/local/bin/deploy.py", + "derb": "/usr/local/bin/derb", + "designer6": "/usr/local/bin/designer6", + "djpeg": "/usr/local/bin/djpeg", + "f2py": "/usr/local/bin/f2py", + "fax2ps": "/usr/local/bin/fax2ps", + "fax2tiff": "/usr/local/bin/fax2tiff", + "fc-cache": "/usr/local/bin/fc-cache", + "fc-cat": "/usr/local/bin/fc-cat", + "fc-conflist": "/usr/local/bin/fc-conflist", + "fc-list": "/usr/local/bin/fc-list", + "fc-match": "/usr/local/bin/fc-match", + "fc-pattern": "/usr/local/bin/fc-pattern", + "fc-query": "/usr/local/bin/fc-query", + "fc-scan": "/usr/local/bin/fc-scan", + "fc-validate": "/usr/local/bin/fc-validate", + "fonttools": "/usr/local/bin/fonttools", + "freetype-config": "/usr/local/bin/freetype-config", + "genbrk": "/usr/local/bin/genbrk", + "gencfu": "/usr/local/bin/gencfu", + "gencnval": "/usr/local/bin/gencnval", + "gendict": "/usr/local/bin/gendict", + "genrb": "/usr/local/bin/genrb", + "gss-client": "/usr/local/bin/gss-client", + "hb-info": "/usr/local/bin/hb-info", + "hb-ot-shape-closure": "/usr/local/bin/hb-ot-shape-closure", + "hb-shape": "/usr/local/bin/hb-shape", + "hb-subset": "/usr/local/bin/hb-subset", + "hb-view": "/usr/local/bin/hb-view", + "icu-config": "/usr/local/bin/icu-config", + "icuexportdata": "/usr/local/bin/icuexportdata", + "icuinfo": "/usr/local/bin/icuinfo", + "idle3": "/usr/local/bin/idle3", + "idle3.13": "/usr/local/bin/idle3.13", + "infocmp": "/usr/local/bin/infocmp", + "infotocap": "/usr/local/bin/infotocap", + "ippeveprinter": "/usr/local/bin/ippeveprinter", + "ipptool": "/usr/local/bin/ipptool", + "jpegtran": "/usr/local/bin/jpegtran", + "jpgicc": "/usr/local/bin/jpgicc", + "k5srvutil": "/usr/local/bin/k5srvutil", + "kadmin": "/usr/local/bin/kadmin", + "kdestroy": "/usr/local/bin/kdestroy", + "keyctl": "/usr/local/bin/keyctl", + "kinit": "/usr/local/bin/kinit", + "klist": "/usr/local/bin/klist", + "kpasswd": "/usr/local/bin/kpasswd", + "krb5-config": "/usr/local/bin/krb5-config", + "ksu": "/usr/local/bin/ksu", + "kswitch": "/usr/local/bin/kswitch", + "ktutil": "/usr/local/bin/ktutil", + "kvno": "/usr/local/bin/kvno", + "lamp": "/usr/local/bin/lamp", + "ldapadd": "/usr/local/bin/ldapadd", + "ldapcompare": "/usr/local/bin/ldapcompare", + "ldapdelete": "/usr/local/bin/ldapdelete", + "ldapexop": "/usr/local/bin/ldapexop", + "ldapmodify": "/usr/local/bin/ldapmodify", + "ldapmodrdn": "/usr/local/bin/ldapmodrdn", + "ldappasswd": "/usr/local/bin/ldappasswd", + "ldapsearch": "/usr/local/bin/ldapsearch", + "ldapurl": "/usr/local/bin/ldapurl", + "ldapvc": "/usr/local/bin/ldapvc", + "ldapwhoami": "/usr/local/bin/ldapwhoami", + "libdeflate-gunzip": "/usr/local/bin/libdeflate-gunzip", + "libdeflate-gzip": "/usr/local/bin/libdeflate-gzip", + "libpng-config": "/usr/local/bin/libpng-config", + "libpng16-config": "/usr/local/bin/libpng16-config", + "linguist6": "/usr/local/bin/linguist6", + "linkicc": "/usr/local/bin/linkicc", + "lzcat": "/usr/local/bin/lzcat", + "lzcmp": "/usr/local/bin/lzcmp", + "lzdiff": "/usr/local/bin/lzdiff", + "lzegrep": "/usr/local/bin/lzegrep", + "lzfgrep": "/usr/local/bin/lzfgrep", + "lzgrep": "/usr/local/bin/lzgrep", + "lzless": "/usr/local/bin/lzless", + "lzma": "/usr/local/bin/lzma", + "lzmadec": "/usr/local/bin/lzmadec", + "lzmainfo": "/usr/local/bin/lzmainfo", + "lzmore": "/usr/local/bin/lzmore", + "makeconv": "/usr/local/bin/makeconv", + "metaobjectdump.py": "/usr/local/bin/metaobjectdump.py", + "natsort": "/usr/local/bin/natsort", + "ncurses6-config": "/usr/local/bin/ncurses6-config", + "ncursesw6-config": "/usr/local/bin/ncursesw6-config", + "normalizer": "/usr/local/bin/normalizer", + "numpy-config": "/usr/local/bin/numpy-config", + "openssl": "/usr/local/bin/openssl", + "opj_compress": "/usr/local/bin/opj_compress", + "opj_decompress": "/usr/local/bin/opj_decompress", + "opj_dump": "/usr/local/bin/opj_dump", + "pal2rgb": "/usr/local/bin/pal2rgb", + "pcre2-config": "/usr/local/bin/pcre2-config", + "pcre2grep": "/usr/local/bin/pcre2grep", + "pcre2test": "/usr/local/bin/pcre2test", + "pg_config": "/usr/local/bin/pg_config", + "pip": "/usr/local/bin/pip", + "pip3": "/usr/local/bin/pip3", + "pixeltool6": "/usr/local/bin/pixeltool6", + "pkgdata": "/usr/local/bin/pkgdata", + "png-fix-itxt": "/usr/local/bin/png-fix-itxt", + "pngfix": "/usr/local/bin/pngfix", + "ppm2tiff": "/usr/local/bin/ppm2tiff", + "project.py": "/usr/local/bin/project.py", + "psicc": "/usr/local/bin/psicc", + "pydoc": "/usr/local/bin/pydoc", + "pydoc3": "/usr/local/bin/pydoc3", + "pydoc3.13": "/usr/local/bin/pydoc3.13", + "pyftmerge": "/usr/local/bin/pyftmerge", + "pyftsubset": "/usr/local/bin/pyftsubset", + "pyside6-rcc": "/usr/local/bin/pyside6-rcc", + "pyside6-uic": "/usr/local/bin/pyside6-uic", + "python": "/usr/local/bin/python", + "python3": "/usr/local/bin/python3", + "python3-config": "/usr/local/bin/python3-config", + "python3.1": "/usr/local/bin/python3.1", + "python3.13": "/usr/local/bin/python3.13", + "python3.13-config": "/usr/local/bin/python3.13-config", + "qconvex": "/usr/local/bin/qconvex", + "qdbus6": "/usr/local/bin/qdbus6", + "qdbusviewer6": "/usr/local/bin/qdbusviewer6", + "qdelaunay": "/usr/local/bin/qdelaunay", + "qdistancefieldgenerator6": "/usr/local/bin/qdistancefieldgenerator6", + "qdoc6": "/usr/local/bin/qdoc6", + "qhalf": "/usr/local/bin/qhalf", + "qhull": "/usr/local/bin/qhull", + "qmake6": "/usr/local/bin/qmake6", + "qml.py": "/usr/local/bin/qml.py", + "qml6": "/usr/local/bin/qml6", + "qmleasing6": "/usr/local/bin/qmleasing6", + "qmlls6": "/usr/local/bin/qmlls6", + "qmlpreview6": "/usr/local/bin/qmlpreview6", + "qmlscene6": "/usr/local/bin/qmlscene6", + "qt6.conf": "/usr/local/bin/qt6.conf", + "qtdiag6": "/usr/local/bin/qtdiag6", + "qtplugininfo6": "/usr/local/bin/qtplugininfo6", + "qtpy2cpp.py": "/usr/local/bin/qtpy2cpp.py", + "qvoronoi": "/usr/local/bin/qvoronoi", + "raw2tiff": "/usr/local/bin/raw2tiff", + "rbox": "/usr/local/bin/rbox", + "rdjpgcom": "/usr/local/bin/rdjpgcom", + "requirements-android.txt": "/usr/local/bin/requirements-android.txt", + "reset": "/usr/local/bin/reset", + "runxlrd.py": "/usr/local/bin/runxlrd.py", + "sclient": "/usr/local/bin/sclient", + "shiboken6": "/usr/local/bin/shiboken6", + "shiboken_tool.py": "/usr/local/bin/shiboken_tool.py", + "sim_client": "/usr/local/bin/sim_client", + "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer", + "tabs": "/usr/local/bin/tabs", + "tclsh": "/usr/local/bin/tclsh", + "tclsh8.6": "/usr/local/bin/tclsh8.6", + "tic": "/usr/local/bin/tic", + "tiff2bw": "/usr/local/bin/tiff2bw", + "tiff2pdf": "/usr/local/bin/tiff2pdf", + "tiff2ps": "/usr/local/bin/tiff2ps", + "tiff2rgba": "/usr/local/bin/tiff2rgba", + "tiffcmp": "/usr/local/bin/tiffcmp", + "tiffcp": "/usr/local/bin/tiffcp", + "tiffcrop": "/usr/local/bin/tiffcrop", + "tiffdither": "/usr/local/bin/tiffdither", + "tiffdump": "/usr/local/bin/tiffdump", + "tiffinfo": "/usr/local/bin/tiffinfo", + "tiffmedian": "/usr/local/bin/tiffmedian", + "tiffset": "/usr/local/bin/tiffset", + "tiffsplit": "/usr/local/bin/tiffsplit", + "tificc": "/usr/local/bin/tificc", + "tjbench": "/usr/local/bin/tjbench", + "toe": "/usr/local/bin/toe", + "tput": "/usr/local/bin/tput", + "transicc": "/usr/local/bin/transicc", + "tset": "/usr/local/bin/tset", + "ttx": "/usr/local/bin/ttx", + "unlzma": "/usr/local/bin/unlzma", + "unxz": "/usr/local/bin/unxz", + "unzstd": "/usr/local/bin/unzstd", + "uuclient": "/usr/local/bin/uuclient", + "wayland-scanner": "/usr/local/bin/wayland-scanner", + "wish": "/usr/local/bin/wish", + "wish8.6": "/usr/local/bin/wish8.6", + "wrjpgcom": "/usr/local/bin/wrjpgcom", + "x86_64-conda-linux-gnu-ld": "/usr/local/bin/x86_64-conda-linux-gnu-ld", + "x86_64-conda_cos6-linux-gnu-ld": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-ld", + "xkbcli": "/usr/local/bin/xkbcli", + "xml2-config": "/usr/local/bin/xml2-config", + "xmlcatalog": "/usr/local/bin/xmlcatalog", + "xmllint": "/usr/local/bin/xmllint", + "xmlwf": "/usr/local/bin/xmlwf", + "xslt-config": "/usr/local/bin/xslt-config", + "xsltproc": "/usr/local/bin/xsltproc", + "xz": "/usr/local/bin/xz", + "xzcat": "/usr/local/bin/xzcat", + "xzcmp": "/usr/local/bin/xzcmp", + "xzdec": "/usr/local/bin/xzdec", + "xzdiff": "/usr/local/bin/xzdiff", + "xzegrep": "/usr/local/bin/xzegrep", + "xzfgrep": "/usr/local/bin/xzfgrep", + "xzgrep": "/usr/local/bin/xzgrep", + "xzless": "/usr/local/bin/xzless", + "xzmore": "/usr/local/bin/xzmore", + "zstd": "/usr/local/bin/zstd", + "zstdcat": "/usr/local/bin/zstdcat", + "zstdgrep": "/usr/local/bin/zstdgrep", + "zstdless": "/usr/local/bin/zstdless", + "zstdmt": "/usr/local/bin/zstdmt" +} \ No newline at end of file diff --git a/quay.io/biocontainers/r/r-remapenrich:0.99.0--r43hdfd78af_0.json b/quay.io/biocontainers/r/r-remapenrich:0.99.0--r43hdfd78af_0.json new file mode 100644 index 0000000..06b87be --- /dev/null +++ b/quay.io/biocontainers/r/r-remapenrich:0.99.0--r43hdfd78af_0.json @@ -0,0 +1,251 @@ +{ + "R": "/usr/local/bin/R", + "Rscript": "/usr/local/bin/Rscript", + "activate-global-python-argcomplete": "/usr/local/bin/activate-global-python-argcomplete", + "adig": "/usr/local/bin/adig", + "ahost": "/usr/local/bin/ahost", + "bunzip2": "/usr/local/bin/bunzip2", + "bzcat": "/usr/local/bin/bzcat", + "bzcmp": "/usr/local/bin/bzcmp", + "bzdiff": "/usr/local/bin/bzdiff", + "bzegrep": "/usr/local/bin/bzegrep", + "bzfgrep": "/usr/local/bin/bzfgrep", + "bzgrep": "/usr/local/bin/bzgrep", + "bzip2": "/usr/local/bin/bzip2", + "bzip2recover": "/usr/local/bin/bzip2recover", + "bzless": "/usr/local/bin/bzless", + "bzmore": "/usr/local/bin/bzmore", + "c_rehash": "/usr/local/bin/c_rehash", + "cairo-trace": "/usr/local/bin/cairo-trace", + "captoinfo": "/usr/local/bin/captoinfo", + "cjpeg": "/usr/local/bin/cjpeg", + "clear": "/usr/local/bin/clear", + "compile_et": "/usr/local/bin/compile_et", + "curl": "/usr/local/bin/curl", + "curl-config": "/usr/local/bin/curl-config", + "derb": "/usr/local/bin/derb", + "djpeg": "/usr/local/bin/djpeg", + "fax2ps": "/usr/local/bin/fax2ps", + "fax2tiff": "/usr/local/bin/fax2tiff", + "fc-cache": "/usr/local/bin/fc-cache", + "fc-cat": "/usr/local/bin/fc-cat", + "fc-conflist": "/usr/local/bin/fc-conflist", + "fc-list": "/usr/local/bin/fc-list", + "fc-match": "/usr/local/bin/fc-match", + "fc-pattern": "/usr/local/bin/fc-pattern", + "fc-query": "/usr/local/bin/fc-query", + "fc-scan": "/usr/local/bin/fc-scan", + "fc-validate": "/usr/local/bin/fc-validate", + "freetype-config": "/usr/local/bin/freetype-config", + "fribidi": "/usr/local/bin/fribidi", + "genbrk": "/usr/local/bin/genbrk", + "gencfu": "/usr/local/bin/gencfu", + "gencnval": "/usr/local/bin/gencnval", + "gendict": "/usr/local/bin/gendict", + "genrb": "/usr/local/bin/genrb", + "gsl-config": "/usr/local/bin/gsl-config", + "gsl-histogram": "/usr/local/bin/gsl-histogram", + "gsl-randist": "/usr/local/bin/gsl-randist", + "gss-client": "/usr/local/bin/gss-client", + "hb-info": "/usr/local/bin/hb-info", + "hb-ot-shape-closure": "/usr/local/bin/hb-ot-shape-closure", + "hb-shape": "/usr/local/bin/hb-shape", + "hb-subset": "/usr/local/bin/hb-subset", + "hb-view": "/usr/local/bin/hb-view", + "icu-config": "/usr/local/bin/icu-config", + "icuexportdata": "/usr/local/bin/icuexportdata", + "icuinfo": "/usr/local/bin/icuinfo", + "idle3": "/usr/local/bin/idle3", + "idle3.13": "/usr/local/bin/idle3.13", + "infocmp": "/usr/local/bin/infocmp", + "infotocap": "/usr/local/bin/infotocap", + "installBiocDataPackage.sh": "/usr/local/bin/installBiocDataPackage.sh", + "jpegtran": "/usr/local/bin/jpegtran", + "jq": "/usr/local/bin/jq", + "k5srvutil": "/usr/local/bin/k5srvutil", + "kadmin": "/usr/local/bin/kadmin", + "kdestroy": "/usr/local/bin/kdestroy", + "keyctl": "/usr/local/bin/keyctl", + "kinit": "/usr/local/bin/kinit", + "klist": "/usr/local/bin/klist", + "kpasswd": "/usr/local/bin/kpasswd", + "krb5-config": "/usr/local/bin/krb5-config", + "ksu": "/usr/local/bin/ksu", + "kswitch": "/usr/local/bin/kswitch", + "ktutil": "/usr/local/bin/ktutil", + "kvno": "/usr/local/bin/kvno", + "libdeflate-gunzip": "/usr/local/bin/libdeflate-gunzip", + "libdeflate-gzip": "/usr/local/bin/libdeflate-gzip", + "libpng-config": "/usr/local/bin/libpng-config", + "libpng16-config": "/usr/local/bin/libpng16-config", + "lzcat": "/usr/local/bin/lzcat", + "lzcmp": "/usr/local/bin/lzcmp", + "lzdiff": "/usr/local/bin/lzdiff", + "lzegrep": "/usr/local/bin/lzegrep", + "lzfgrep": "/usr/local/bin/lzfgrep", + "lzgrep": "/usr/local/bin/lzgrep", + "lzless": "/usr/local/bin/lzless", + "lzma": "/usr/local/bin/lzma", + "lzmadec": "/usr/local/bin/lzmadec", + "lzmainfo": "/usr/local/bin/lzmainfo", + "lzmore": "/usr/local/bin/lzmore", + "make": "/usr/local/bin/make", + "makeconv": "/usr/local/bin/makeconv", + "my_print_defaults": "/usr/local/bin/my_print_defaults", + "mysql_config": "/usr/local/bin/mysql_config", + "ncurses6-config": "/usr/local/bin/ncurses6-config", + "ncursesw6-config": "/usr/local/bin/ncursesw6-config", + "nghttp": "/usr/local/bin/nghttp", + "nghttpd": "/usr/local/bin/nghttpd", + "nghttpx": "/usr/local/bin/nghttpx", + "onig-config": "/usr/local/bin/onig-config", + "openssl": "/usr/local/bin/openssl", + "pal2rgb": "/usr/local/bin/pal2rgb", + "pango-list": "/usr/local/bin/pango-list", + "pango-segmentation": "/usr/local/bin/pango-segmentation", + "pango-view": "/usr/local/bin/pango-view", + "pcre2-config": "/usr/local/bin/pcre2-config", + "pcre2grep": "/usr/local/bin/pcre2grep", + "pcre2test": "/usr/local/bin/pcre2test", + "perror": "/usr/local/bin/perror", + "pip": "/usr/local/bin/pip", + "pip3": "/usr/local/bin/pip3", + "pkgdata": "/usr/local/bin/pkgdata", + "png-fix-itxt": "/usr/local/bin/png-fix-itxt", + "pngfix": "/usr/local/bin/pngfix", + "ppm2tiff": "/usr/local/bin/ppm2tiff", + "pydoc": "/usr/local/bin/pydoc", + "pydoc3": "/usr/local/bin/pydoc3", + "pydoc3.13": "/usr/local/bin/pydoc3.13", + "python": "/usr/local/bin/python", + "python-argcomplete-check-easy-install-script": "/usr/local/bin/python-argcomplete-check-easy-install-script", + "python3": "/usr/local/bin/python3", + "python3-config": "/usr/local/bin/python3-config", + "python3.1": "/usr/local/bin/python3.1", + "python3.13": "/usr/local/bin/python3.13", + "python3.13-config": "/usr/local/bin/python3.13-config", + "raw2tiff": "/usr/local/bin/raw2tiff", + "rdjpgcom": "/usr/local/bin/rdjpgcom", + "register-python-argcomplete": "/usr/local/bin/register-python-argcomplete", + "reset": "/usr/local/bin/reset", + "sclient": "/usr/local/bin/sclient", + "sed": "/usr/local/bin/sed", + "sim_client": "/usr/local/bin/sim_client", + "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer", + "tabs": "/usr/local/bin/tabs", + "tclsh": "/usr/local/bin/tclsh", + "tclsh8.6": "/usr/local/bin/tclsh8.6", + "tic": "/usr/local/bin/tic", + "tiff2bw": "/usr/local/bin/tiff2bw", + "tiff2pdf": "/usr/local/bin/tiff2pdf", + "tiff2ps": "/usr/local/bin/tiff2ps", + "tiff2rgba": "/usr/local/bin/tiff2rgba", + "tiffcmp": "/usr/local/bin/tiffcmp", + "tiffcp": "/usr/local/bin/tiffcp", + "tiffcrop": "/usr/local/bin/tiffcrop", + "tiffdither": "/usr/local/bin/tiffdither", + "tiffdump": "/usr/local/bin/tiffdump", + "tiffinfo": "/usr/local/bin/tiffinfo", + "tiffmedian": "/usr/local/bin/tiffmedian", + "tiffset": "/usr/local/bin/tiffset", + "tiffsplit": "/usr/local/bin/tiffsplit", + "tjbench": "/usr/local/bin/tjbench", + "toe": "/usr/local/bin/toe", + "tomlq": "/usr/local/bin/tomlq", + "tput": "/usr/local/bin/tput", + "tset": "/usr/local/bin/tset", + "unlzma": "/usr/local/bin/unlzma", + "unxz": "/usr/local/bin/unxz", + "unzstd": "/usr/local/bin/unzstd", + "uuclient": "/usr/local/bin/uuclient", + "wish": "/usr/local/bin/wish", + "wish8.6": "/usr/local/bin/wish8.6", + "wrjpgcom": "/usr/local/bin/wrjpgcom", + "x86_64-conda-linux-gnu-addr2line": "/usr/local/bin/x86_64-conda-linux-gnu-addr2line", + "x86_64-conda-linux-gnu-ar": "/usr/local/bin/x86_64-conda-linux-gnu-ar", + "x86_64-conda-linux-gnu-as": "/usr/local/bin/x86_64-conda-linux-gnu-as", + "x86_64-conda-linux-gnu-c++": "/usr/local/bin/x86_64-conda-linux-gnu-c++", + "x86_64-conda-linux-gnu-c++filt": "/usr/local/bin/x86_64-conda-linux-gnu-c++filt", + "x86_64-conda-linux-gnu-c89": "/usr/local/bin/x86_64-conda-linux-gnu-c89", + "x86_64-conda-linux-gnu-c99": "/usr/local/bin/x86_64-conda-linux-gnu-c99", + "x86_64-conda-linux-gnu-cc": "/usr/local/bin/x86_64-conda-linux-gnu-cc", + "x86_64-conda-linux-gnu-cpp": "/usr/local/bin/x86_64-conda-linux-gnu-cpp", + "x86_64-conda-linux-gnu-dwp": "/usr/local/bin/x86_64-conda-linux-gnu-dwp", + "x86_64-conda-linux-gnu-elfedit": "/usr/local/bin/x86_64-conda-linux-gnu-elfedit", + "x86_64-conda-linux-gnu-f95": "/usr/local/bin/x86_64-conda-linux-gnu-f95", + "x86_64-conda-linux-gnu-g++": "/usr/local/bin/x86_64-conda-linux-gnu-g++", + "x86_64-conda-linux-gnu-gcc": "/usr/local/bin/x86_64-conda-linux-gnu-gcc", + "x86_64-conda-linux-gnu-gcc-ar": "/usr/local/bin/x86_64-conda-linux-gnu-gcc-ar", + "x86_64-conda-linux-gnu-gcc-nm": "/usr/local/bin/x86_64-conda-linux-gnu-gcc-nm", + "x86_64-conda-linux-gnu-gcc-ranlib": "/usr/local/bin/x86_64-conda-linux-gnu-gcc-ranlib", + "x86_64-conda-linux-gnu-gcov": "/usr/local/bin/x86_64-conda-linux-gnu-gcov", + "x86_64-conda-linux-gnu-gcov-dump": "/usr/local/bin/x86_64-conda-linux-gnu-gcov-dump", + "x86_64-conda-linux-gnu-gcov-tool": "/usr/local/bin/x86_64-conda-linux-gnu-gcov-tool", + "x86_64-conda-linux-gnu-gfortran": "/usr/local/bin/x86_64-conda-linux-gnu-gfortran", + "x86_64-conda-linux-gnu-gprof": "/usr/local/bin/x86_64-conda-linux-gnu-gprof", + "x86_64-conda-linux-gnu-ld": "/usr/local/bin/x86_64-conda-linux-gnu-ld", + "x86_64-conda-linux-gnu-ld.bfd": "/usr/local/bin/x86_64-conda-linux-gnu-ld.bfd", + "x86_64-conda-linux-gnu-ld.gold": "/usr/local/bin/x86_64-conda-linux-gnu-ld.gold", + "x86_64-conda-linux-gnu-nm": "/usr/local/bin/x86_64-conda-linux-gnu-nm", + "x86_64-conda-linux-gnu-objcopy": "/usr/local/bin/x86_64-conda-linux-gnu-objcopy", + "x86_64-conda-linux-gnu-objdump": "/usr/local/bin/x86_64-conda-linux-gnu-objdump", + "x86_64-conda-linux-gnu-ranlib": "/usr/local/bin/x86_64-conda-linux-gnu-ranlib", + "x86_64-conda-linux-gnu-readelf": "/usr/local/bin/x86_64-conda-linux-gnu-readelf", + "x86_64-conda-linux-gnu-size": "/usr/local/bin/x86_64-conda-linux-gnu-size", + "x86_64-conda-linux-gnu-strings": "/usr/local/bin/x86_64-conda-linux-gnu-strings", + "x86_64-conda-linux-gnu-strip": "/usr/local/bin/x86_64-conda-linux-gnu-strip", + "x86_64-conda-linux-gnu.cfg": "/usr/local/bin/x86_64-conda-linux-gnu.cfg", + "x86_64-conda_cos6-linux-gnu-addr2line": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-addr2line", + "x86_64-conda_cos6-linux-gnu-ar": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-ar", + "x86_64-conda_cos6-linux-gnu-as": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-as", + "x86_64-conda_cos6-linux-gnu-c++": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-c++", + "x86_64-conda_cos6-linux-gnu-c++filt": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-c++filt", + "x86_64-conda_cos6-linux-gnu-c89": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-c89", + "x86_64-conda_cos6-linux-gnu-c99": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-c99", + "x86_64-conda_cos6-linux-gnu-cc": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-cc", + "x86_64-conda_cos6-linux-gnu-cpp": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-cpp", + "x86_64-conda_cos6-linux-gnu-dwp": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-dwp", + "x86_64-conda_cos6-linux-gnu-elfedit": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-elfedit", + "x86_64-conda_cos6-linux-gnu-f95": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-f95", + "x86_64-conda_cos6-linux-gnu-g++": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-g++", + "x86_64-conda_cos6-linux-gnu-gcc": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gcc", + "x86_64-conda_cos6-linux-gnu-gcc-ar": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gcc-ar", + "x86_64-conda_cos6-linux-gnu-gcc-nm": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gcc-nm", + "x86_64-conda_cos6-linux-gnu-gcc-ranlib": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gcc-ranlib", + "x86_64-conda_cos6-linux-gnu-gcov": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gcov", + "x86_64-conda_cos6-linux-gnu-gcov-dump": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gcov-dump", + "x86_64-conda_cos6-linux-gnu-gcov-tool": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gcov-tool", + "x86_64-conda_cos6-linux-gnu-gfortran": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gfortran", + "x86_64-conda_cos6-linux-gnu-gprof": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-gprof", + "x86_64-conda_cos6-linux-gnu-ld": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-ld", + "x86_64-conda_cos6-linux-gnu-ld.bfd": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-ld.bfd", + "x86_64-conda_cos6-linux-gnu-ld.gold": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-ld.gold", + "x86_64-conda_cos6-linux-gnu-nm": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-nm", + "x86_64-conda_cos6-linux-gnu-objcopy": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-objcopy", + "x86_64-conda_cos6-linux-gnu-objdump": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-objdump", + "x86_64-conda_cos6-linux-gnu-ranlib": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-ranlib", + "x86_64-conda_cos6-linux-gnu-readelf": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-readelf", + "x86_64-conda_cos6-linux-gnu-size": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-size", + "x86_64-conda_cos6-linux-gnu-strings": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-strings", + "x86_64-conda_cos6-linux-gnu-strip": "/usr/local/bin/x86_64-conda_cos6-linux-gnu-strip", + "xml2-config": "/usr/local/bin/xml2-config", + "xmlcatalog": "/usr/local/bin/xmlcatalog", + "xmllint": "/usr/local/bin/xmllint", + "xq": "/usr/local/bin/xq", + "xz": "/usr/local/bin/xz", + "xzcat": "/usr/local/bin/xzcat", + "xzcmp": "/usr/local/bin/xzcmp", + "xzdec": "/usr/local/bin/xzdec", + "xzdiff": "/usr/local/bin/xzdiff", + "xzegrep": "/usr/local/bin/xzegrep", + "xzfgrep": "/usr/local/bin/xzfgrep", + "xzgrep": "/usr/local/bin/xzgrep", + "xzless": "/usr/local/bin/xzless", + "xzmore": "/usr/local/bin/xzmore", + "yq": "/usr/local/bin/yq", + "zstd": "/usr/local/bin/zstd", + "zstdcat": "/usr/local/bin/zstdcat", + "zstdgrep": "/usr/local/bin/zstdgrep", + "zstdless": "/usr/local/bin/zstdless", + "zstdmt": "/usr/local/bin/zstdmt" +} \ No newline at end of file diff --git a/quay.io/biocontainers/t/teloscope:0.0.2--hdcf5f25_0.json b/quay.io/biocontainers/t/teloscope:0.0.2--hdcf5f25_0.json new file mode 100644 index 0000000..4e1709e --- /dev/null +++ b/quay.io/biocontainers/t/teloscope:0.0.2--hdcf5f25_0.json @@ -0,0 +1,3 @@ +{ + "teloscope": "/usr/local/bin/teloscope" +} \ No newline at end of file