diff --git a/counts.json b/counts.json
index 2a1970c..9f0414c 100644
--- a/counts.json
+++ b/counts.json
@@ -2326,16 +2326,16 @@
     "2csfastq_1csfastq": 1,
     "2ft": 2,
     "2ndscore": 1,
-    "2to3": 3695,
-    "2to3-3.10": 818,
-    "2to3-3.11": 269,
-    "2to3-3.12": 215,
+    "2to3": 3709,
+    "2to3-3.10": 819,
+    "2to3-3.11": 270,
+    "2to3-3.12": 226,
     "2to3-3.4": 6,
     "2to3-3.5": 103,
     "2to3-3.6": 342,
     "2to3-3.7": 383,
     "2to3-3.8": 577,
-    "2to3-3.9": 651,
+    "2to3-3.9": 652,
     "3EdgeTests": 1,
     "3_1_filter_mapQ_for_sam.pl": 1,
     "3seq": 1,
@@ -2985,10 +2985,10 @@
     "FastK": 2,
     "FastML_Wrapper.pl": 1,
     "FastRemap": 1,
-    "FastTree": 64,
+    "FastTree": 65,
     "FastTree-2.1.10.c": 25,
     "FastTree.c": 2,
-    "FastTreeMP": 61,
+    "FastTreeMP": 62,
     "FastaIndex": 2,
     "FastaIndex.py": 1,
     "FastaInfo": 1,
@@ -3696,6 +3696,8 @@
     "OutputScaffolds": 2,
     "OutputTranscriptInfo": 1,
     "Overlap": 17,
+    "PACU": 1,
+    "PACU_map": 1,
     "PARTS": 5,
     "PARalyzer": 1,
     "PASS": 1,
@@ -3841,6 +3843,8 @@
     "PneumoCaT.py": 1,
     "PolarityCalculation": 1,
     "PolyATrimmer": 1,
+    "PoolSNP.sh": 1,
+    "PoolSnp.py": 1,
     "PopBubbles": 17,
     "PreProcess.pl": 1,
     "PreProcessR": 1,
@@ -3925,7 +3929,7 @@
     "QueueingSystem.dll": 1,
     "QuickDeconvolution": 1,
     "QuickSNP.py": 1,
-    "R": 4661,
+    "R": 4666,
     "R-scape": 2,
     "R-scape-sim": 2,
     "R-scape-sim-nobps": 2,
@@ -4162,6 +4166,43 @@
     "RabbitQCPlus": 1,
     "RangeFinder.py": 1,
     "RankMotifs": 2,
+    "RapidShapes": 1,
+    "RapidShapes_kbest_macrostate": 1,
+    "RapidShapes_kbest_microstate": 1,
+    "RapidShapes_kbest_nodangle": 1,
+    "RapidShapes_kbest_overdangle": 1,
+    "RapidShapes_pfall_macrostate": 1,
+    "RapidShapes_pfall_microstate": 1,
+    "RapidShapes_pfall_nodangle": 1,
+    "RapidShapes_pfall_overdangle": 1,
+    "RapidShapes_sample_macrostate": 1,
+    "RapidShapes_sample_microstate": 1,
+    "RapidShapes_sample_nodangle": 1,
+    "RapidShapes_sample_overdangle": 1,
+    "RapidShapes_subopt_macrostate": 1,
+    "RapidShapes_subopt_microstate": 1,
+    "RapidShapes_subopt_nodangle": 1,
+    "RapidShapes_subopt_overdangle": 1,
+    "RapidShapes_tdm_macrostate_1": 1,
+    "RapidShapes_tdm_macrostate_2": 1,
+    "RapidShapes_tdm_macrostate_3": 1,
+    "RapidShapes_tdm_macrostate_4": 1,
+    "RapidShapes_tdm_macrostate_5": 1,
+    "RapidShapes_tdm_microstate_1": 1,
+    "RapidShapes_tdm_microstate_2": 1,
+    "RapidShapes_tdm_microstate_3": 1,
+    "RapidShapes_tdm_microstate_4": 1,
+    "RapidShapes_tdm_microstate_5": 1,
+    "RapidShapes_tdm_nodangle_1": 1,
+    "RapidShapes_tdm_nodangle_2": 1,
+    "RapidShapes_tdm_nodangle_3": 1,
+    "RapidShapes_tdm_nodangle_4": 1,
+    "RapidShapes_tdm_nodangle_5": 1,
+    "RapidShapes_tdm_overdangle_1": 1,
+    "RapidShapes_tdm_overdangle_2": 1,
+    "RapidShapes_tdm_overdangle_3": 1,
+    "RapidShapes_tdm_overdangle_4": 1,
+    "RapidShapes_tdm_overdangle_5": 1,
     "Ratatosk": 1,
     "Ray": 1,
     "Rcmd": 1,
@@ -4223,7 +4264,7 @@
     "Rprof": 1,
     "Rsample": 5,
     "Rsample-smp": 5,
-    "Rscript": 4662,
+    "Rscript": 4667,
     "RunTHetA.py": 1,
     "SAGE": 1,
     "SAMMPileUpReader.py": 1,
@@ -5020,7 +5061,7 @@
     "acdvalid": 25,
     "ace.pl": 56,
     "ace2contig": 2,
-    "ace2sam": 515,
+    "ace2sam": 517,
     "aci": 1,
     "aclocal.bak": 11,
     "acountry": 4272,
@@ -5034,7 +5075,7 @@
     "actc": 1,
     "action_report.py": 1,
     "activate": 1343,
-    "activate-global-python-argcomplete": 340,
+    "activate-global-python-argcomplete": 344,
     "acyclic": 199,
     "adVNTR-Filtering": 1,
     "ada_model_builder_ntChange.R": 1,
@@ -5059,7 +5100,7 @@
     "addInternalData.pl": 5,
     "addNH": 1,
     "addOligos.pl": 5,
-    "addRNAoptions.pl": 5,
+    "addRNAoptions.pl": 6,
     "addReadMetrics.pl": 1,
     "addReadsToUnitigs": 3,
     "addSurrogatesToFrgCtgFile": 1,
@@ -5114,7 +5155,7 @@
     "addtit.pl": 2,
     "adf_checker.pl": 1,
     "adhocfilelist": 1,
-    "adig": 4538,
+    "adig": 4548,
     "adjustPeakFile.pl": 5,
     "adjustRedunGroupFile.pl": 5,
     "adjustScanRankerScoreByGroup": 2,
@@ -5220,7 +5261,7 @@
     "aggregateBinDepths.pl": 6,
     "aggregateContigOverlapsByBin.pl": 6,
     "aggregate_align_metrics.py": 1,
-    "aggregate_profile.pl": 72,
+    "aggregate_profile.pl": 73,
     "aggregate_scores_in_intervals.py": 59,
     "agouti": 1,
     "agp2amos": 2,
@@ -5230,7 +5271,7 @@
     "agrvate": 1,
     "agtsampleinforw.dll": 2,
     "ahmm-s": 1,
-    "ahost": 4538,
+    "ahost": 4548,
     "airr-tools": 5,
     "akita_data.py": 1,
     "akita_data_read.py": 1,
@@ -5501,7 +5542,7 @@
     "annembed": 1,
     "annonars": 1,
     "annosine2": 1,
-    "annot-tsv": 37,
+    "annot-tsv": 40,
     "annot_blast_btop2.pl": 7,
     "annotate": 251,
     "annotate-partitions.py": 7,
@@ -5896,7 +5937,7 @@
     "ase-gui": 3,
     "ase-info": 3,
     "ase-run": 3,
-    "aserver": 441,
+    "aserver": 444,
     "asession": 3,
     "asgal": 1,
     "asgal_BitVector.py": 1,
@@ -5959,7 +6000,7 @@
     "assign_eggnog_funccats.pl": 1,
     "assign_taxonomy.py": 1,
     "assign_taxonomy_by_blast_result.py": 1,
-    "assistant": 249,
+    "assistant": 250,
     "assistant-qt4": 3,
     "assistant6": 1,
     "astalavista": 1,
@@ -5981,7 +6022,7 @@
     "atropos": 2,
     "atst": 2,
     "attotree": 1,
-    "attr": 43,
+    "attr": 44,
     "augment-bam": 1,
     "augur": 1,
     "augustify.py": 9,
@@ -6028,7 +6069,7 @@
     "autometa-taxonomy-majority-vote": 2,
     "autometa-unclustered-recruitment": 2,
     "autometa-update-databases": 2,
-    "autopoint": 5295,
+    "autopoint": 5297,
     "autoreconf.bak": 10,
     "autoscan.bak": 10,
     "autoupdate.bak": 10,
@@ -6042,7 +6083,7 @@
     "avgEpsGrid": 2,
     "aviary": 1,
     "avro": 13,
-    "awk": 99,
+    "awk": 100,
     "aws": 6,
     "aws-create-elastic-blast-janitor-role.sh": 1,
     "aws-delete-elastic-blast-janitor-role.sh": 1,
@@ -6118,6 +6159,7 @@
     "bactopia-summary": 1,
     "bactopia-teton": 1,
     "bactopia-variants": 1,
+    "bad-sites.py": 1,
     "badread": 2,
     "baf2sql_c.dll": 2,
     "bagit.py": 9,
@@ -6131,7 +6173,7 @@
     "bali-phy-pkg": 1,
     "bali-subsample": 1,
     "balrog": 1,
-    "balsam": 42,
+    "balsam": 43,
     "baltic.py": 1,
     "bam": 1,
     "bam-extractor": 2,
@@ -6507,7 +6549,7 @@
     "bcbio-variation": 1,
     "bcbio-variation-recall": 1,
     "bcbio_monitor": 1,
-    "bcftools": 179,
+    "bcftools": 180,
     "bcl_to_fastq": 1,
     "bcomps": 199,
     "bcool": 2,
@@ -6637,7 +6679,7 @@
     "bgenFileInfo": 1,
     "bgenix": 1,
     "bgreat": 4,
-    "bgzip": 711,
+    "bgzip": 714,
     "bgzip.pl": 4,
     "bgziptabix": 31,
     "bialign.py": 1,
@@ -6822,7 +6864,7 @@
     "blast2lca": 1,
     "blast2rma": 1,
     "blast2sam": 1,
-    "blast2sam.pl": 515,
+    "blast2sam.pl": 517,
     "blastMapAnalyzer2.pl": 1,
     "blastMining": 1,
     "blastMining_lca.sh": 1,
@@ -6909,7 +6951,7 @@
     "bogusness": 3,
     "bohra": 1,
     "boink": 1,
-    "bokeh": 68,
+    "bokeh": 69,
     "bold2utax.py": 1,
     "bold_identification": 1,
     "bolt": 2,
@@ -6935,17 +6977,17 @@
     "bowtie-inspect": 41,
     "bowtie-inspect-l": 36,
     "bowtie-inspect-s": 36,
-    "bowtie2": 113,
-    "bowtie2-align-l": 113,
-    "bowtie2-align-s": 113,
-    "bowtie2-build": 113,
-    "bowtie2-build-l": 113,
-    "bowtie2-build-s": 113,
-    "bowtie2-inspect": 113,
-    "bowtie2-inspect-l": 113,
-    "bowtie2-inspect-s": 113,
+    "bowtie2": 114,
+    "bowtie2-align-l": 114,
+    "bowtie2-align-s": 114,
+    "bowtie2-build": 114,
+    "bowtie2-build-l": 114,
+    "bowtie2-build-s": 114,
+    "bowtie2-inspect": 114,
+    "bowtie2-inspect-l": 114,
+    "bowtie2-inspect-s": 114,
     "bowtie2_stuff.py": 2,
-    "bowtie2sam.pl": 515,
+    "bowtie2sam.pl": 517,
     "bowtie_PE_separate_then_join.pl": 1,
     "bowtie_mapper.sh": 1,
     "box": 1,
@@ -7109,7 +7151,7 @@
     "broad_utils.py": 1,
     "brockman_pipeline": 1,
     "brooklyn_plot": 1,
-    "brotli": 428,
+    "brotli": 434,
     "browse": 18,
     "bs_call": 2,
     "bs_seeker2-align.py": 1,
@@ -7210,7 +7252,7 @@
     "bundlelinks": 2,
     "bundler": 19,
     "bunwarpj": 4,
-    "bunzip2": 6660,
+    "bunzip2": 6676,
     "burden_test_vase": 1,
     "burst_linux_DB12": 1,
     "burst_linux_DB15": 1,
@@ -7219,7 +7261,7 @@
     "buscolite": 1,
     "bustools": 2,
     "bvop": 1,
-    "bwa": 167,
+    "bwa": 168,
     "bwa-mem2": 7,
     "bwa-mem2.avx": 7,
     "bwa-mem2.avx2": 7,
@@ -7261,16 +7303,16 @@
     "bxStats.py": 1,
     "bxcl_seqqc": 1,
     "bxtools": 1,
-    "bzcat": 6660,
-    "bzcmp": 6660,
-    "bzdiff": 6660,
-    "bzegrep": 6660,
-    "bzfgrep": 6660,
-    "bzgrep": 6660,
-    "bzip2": 6660,
-    "bzip2recover": 6660,
-    "bzless": 6660,
-    "bzmore": 6660,
+    "bzcat": 6676,
+    "bzcmp": 6676,
+    "bzdiff": 6676,
+    "bzegrep": 6676,
+    "bzfgrep": 6676,
+    "bzgrep": 6676,
+    "bzip2": 6676,
+    "bzip2recover": 6676,
+    "bzless": 6676,
+    "bzmore": 6676,
     "c++": 5,
     "c++filt": 8,
     "c-index-test": 8,
@@ -7287,7 +7329,7 @@
     "cPecanLibTests": 1,
     "cPecanModifyHmm": 1,
     "cPecanRealign": 1,
-    "c_rehash": 7809,
+    "c_rehash": 7823,
     "ca2ace.pl": 3,
     "ca2ctg": 2,
     "ca2mates": 2,
@@ -7361,7 +7403,7 @@
     "cage-classify.py": 1,
     "cagee": 1,
     "cai": 26,
-    "cairo-trace": 5133,
+    "cairo-trace": 5140,
     "cairosvg": 6,
     "cal": 13,
     "calD": 1,
@@ -7434,7 +7476,7 @@
     "campyagainst": 1,
     "campygstyper": 1,
     "canal": 2,
-    "canbusutil": 181,
+    "canbusutil": 182,
     "canda": 1,
     "candf": 1,
     "candidate_variants_finder": 1,
@@ -7465,7 +7507,7 @@
     "capnpc-capnp": 56,
     "capnpc-cython": 1,
     "capri_eval": 1,
-    "captoinfo": 7740,
+    "captoinfo": 7755,
     "captus_assembly": 1,
     "caqc.pl": 3,
     "caqc_help.ini": 3,
@@ -7477,6 +7519,7 @@
     "cargo-fmt": 1,
     "carna": 1,
     "carna.pl": 1,
+    "carpedeam": 1,
     "cartesian-heart": 2,
     "carve": 1,
     "cas": 1,
@@ -7552,7 +7595,7 @@
     "cbSeurat": 1,
     "cbTool": 1,
     "cbUpgrade": 1,
-    "cbc": 102,
+    "cbc": 103,
     "cbi": 1,
     "cblaster": 1,
     "cbrunsli": 23,
@@ -7659,7 +7702,7 @@
     "cert2spc": 15,
     "certmgr": 15,
     "certtool": 31,
-    "certutil": 176,
+    "certutil": 177,
     "cesar": 1,
     "cestat-cov": 2,
     "cestats": 6,
@@ -7905,7 +7948,7 @@
     "cit2pmid": 27,
     "civicpy": 1,
     "cjk-gs-integrate": 1,
-    "cjpeg": 5775,
+    "cjpeg": 5786,
     "ckeygen": 1,
     "cksum": 84,
     "claMLST": 1,
@@ -8016,7 +8059,7 @@
     "cleanup-coverage.py": 2,
     "cleanup-stale-gcp-resources.py": 1,
     "cleanup.py": 1,
-    "clear": 7740,
+    "clear": 7755,
     "clearCNV": 1,
     "clearcut": 1,
     "cleric": 1,
@@ -8070,7 +8113,7 @@
     "closest_residues": 1,
     "cloudgene.yaml": 1,
     "clove": 1,
-    "clp": 103,
+    "clp": 104,
     "clsify": 1,
     "clstr2tree.pl": 46,
     "clstr2txt.pl": 46,
@@ -8258,7 +8301,7 @@
     "collectl": 2,
     "collectstats": 1,
     "colmux": 2,
-    "color-chrs.pl": 166,
+    "color-chrs.pl": 167,
     "colorJunction": 1,
     "color_defs.pl": 7,
     "color_palette.py": 1,
@@ -8266,7 +8309,7 @@
     "colorcet": 3,
     "colord": 1,
     "colored-matrix": 2,
-    "coloredlogs": 74,
+    "coloredlogs": 75,
     "colorid_bv": 1,
     "colorinterpolate": 2,
     "colorrna.pl": 1,
@@ -8385,7 +8428,7 @@
     "compileSpliceCands": 12,
     "compile_STARE_Linux.sh": 1,
     "compile_STARE_macOS.sh": 1,
-    "compile_et": 5822,
+    "compile_et": 5833,
     "compiled_table.py": 1,
     "compleasm": 1,
     "complementBed": 274,
@@ -8689,7 +8732,7 @@
     "core_diversity_analyses.py": 1,
     "core_methods.py": 1,
     "core_overlap_plot.py": 1,
-    "corelist": 1706,
+    "corelist": 1711,
     "corepack": 12,
     "coreprocess.pl": 3,
     "coresnpfilter": 1,
@@ -8745,6 +8788,7 @@
     "count_mismatches": 1,
     "count_pep_prot.py": 1,
     "count_qmers": 1,
+    "count_recombinations_per_gene.py": 1,
     "count_seq": 1,
     "count_seqs.py": 1,
     "count_table_fields.pl": 1,
@@ -8795,7 +8839,7 @@
     "cp2k_run": 1,
     "cp2k_shell.ssmp": 1,
     "cpack": 11,
-    "cpan": 1706,
+    "cpan": 1711,
     "cpancover": 6,
     "cpanm": 244,
     "cpat.py": 1,
@@ -8986,7 +9030,7 @@
     "cstacks": 1,
     "cstag": 1,
     "cstranslate": 4,
-    "csv-import": 61,
+    "csv-import": 64,
     "csv2kml": 1,
     "csv2rdf": 33,
     "csv2tsv": 1,
@@ -9031,7 +9075,7 @@
     "cuffquant": 2,
     "cuppa": 1,
     "cuppa-chart": 1,
-    "cups-config": 196,
+    "cups-config": 199,
     "curare": 1,
     "curare_wizard": 1,
     "curate_chemical_data": 1,
@@ -9039,8 +9083,8 @@
     "curate_spatial_data": 1,
     "curate_universe": 1,
     "curesim": 2,
-    "curl": 5118,
-    "curl-config": 5935,
+    "curl": 5123,
+    "curl-config": 5945,
     "curlywhirly": 1,
     "curve_keygen": 70,
     "cusp": 25,
@@ -9112,7 +9156,7 @@
     "cytocad": 2,
     "cytoscape.sh": 14,
     "cytosnake": 1,
-    "cyvcf2": 29,
+    "cyvcf2": 30,
     "d4tools": 1,
     "dDocent": 2,
     "dDocent_filters": 2,
@@ -9155,16 +9199,16 @@
     "dash-generate-components": 13,
     "dash-update-components": 5,
     "dashing": 8,
-    "dask": 21,
+    "dask": 22,
     "dask scheduler": 1,
     "dask ssh": 1,
     "dask worker": 1,
     "dask-mpi": 4,
     "dask-remote": 5,
-    "dask-scheduler": 47,
-    "dask-ssh": 47,
+    "dask-scheduler": 48,
+    "dask-ssh": 48,
     "dask-submit": 5,
-    "dask-worker": 47,
+    "dask-worker": 48,
     "dask_utils.py": 1,
     "data.py": 1,
     "data_classes.py": 1,
@@ -9253,16 +9297,16 @@
     "dbscan": 1,
     "dbsnp_iit": 11,
     "dbtell": 25,
-    "dbus-cleanup-sockets": 253,
-    "dbus-daemon": 253,
+    "dbus-cleanup-sockets": 254,
+    "dbus-daemon": 254,
     "dbus-daemon-launch-helper": 1,
-    "dbus-launch": 253,
-    "dbus-monitor": 253,
-    "dbus-run-session": 253,
-    "dbus-send": 253,
-    "dbus-test-tool": 253,
-    "dbus-update-activation-environment": 253,
-    "dbus-uuidgen": 253,
+    "dbus-launch": 254,
+    "dbus-monitor": 254,
+    "dbus-run-session": 254,
+    "dbus-send": 254,
+    "dbus-test-tool": 254,
+    "dbus-update-activation-environment": 254,
+    "dbus-uuidgen": 254,
     "dbxcompress": 25,
     "dbxedam": 25,
     "dbxfasta": 25,
@@ -9398,8 +9442,8 @@
     "deepbgc": 1,
     "deepbinner": 1,
     "deepdirect": 1,
-    "deeplc": 3,
-    "deeplc-gui": 3,
+    "deeplc": 4,
+    "deeplc-gui": 4,
     "deepmeiv1": 1,
     "deepnog": 1,
     "deepsig": 1,
@@ -9459,7 +9503,7 @@
     "demuxlet": 1,
     "dendro.R": 1,
     "dendrogram": 1,
-    "dendropy-format": 49,
+    "dendropy-format": 50,
     "deno": 1,
     "denoise_wrapper.py": 1,
     "denoiser.py": 1,
@@ -9483,7 +9527,7 @@
     "depth_calc.py": 1,
     "depth_estim_from_vcf.sh": 1,
     "depythontex": 1,
-    "derb": 5850,
+    "derb": 5862,
     "derep_stuff.py": 2,
     "deripcal": 1,
     "derna": 1,
@@ -9509,7 +9553,7 @@
     "design_edit_metric_tags.py": 1,
     "design_large.py": 1,
     "design_naively.py": 2,
-    "designer": 249,
+    "designer": 250,
     "designer-qt4": 3,
     "designer6": 1,
     "desman": 1,
@@ -9649,7 +9693,7 @@
     "django-admin": 4,
     "django-admin.py": 3,
     "django-admin.pyc": 1,
-    "djpeg": 5775,
+    "djpeg": 5786,
     "dkfzbiasfilter.py": 1,
     "dkfzbiasfilter_summarize.py": 1,
     "dlcoal_to_dlcpar": 1,
@@ -9670,7 +9714,7 @@
     "dmesg": 13,
     "dmr": 1,
     "dmtools": 1,
-    "dmypy": 2,
+    "dmypy": 3,
     "dna-to-aa": 3,
     "dna_averages": 1,
     "dna_bimodality": 1,
@@ -9720,7 +9764,7 @@
     "docker_test_script": 1,
     "docking_py": 1,
     "docopt.py": 1,
-    "docutils": 84,
+    "docutils": 85,
     "dodge": 1,
     "dodgedists": 1,
     "doesitcache": 46,
@@ -9986,7 +10030,7 @@
     "dumpmates": 2,
     "dumppdf.py": 1,
     "dumpreads": 2,
-    "dumpsexp": 33,
+    "dumpsexp": 34,
     "dumpsolv": 24,
     "dunamai": 13,
     "dunovo.py": 1,
@@ -10143,7 +10187,7 @@
     "eggnog_to_sqlite3.py": 2,
     "egrep": 21,
     "ehhbin": 1,
-    "eido": 10,
+    "eido": 11,
     "eigenstrat": 1,
     "eigenstratQTL": 1,
     "eigenstrat_database_tools": 1,
@@ -10166,10 +10210,10 @@
     "elandresult2bed": 1,
     "elastic-blast": 1,
     "elasticluster": 1,
-    "elasticurl": 53,
-    "elasticurl_cpp": 53,
-    "elastipubsub": 53,
-    "elastipubsub5": 42,
+    "elasticurl": 56,
+    "elasticurl_cpp": 56,
+    "elastipubsub": 56,
+    "elastipubsub5": 45,
     "elb-cost.py": 1,
     "elbadmin": 29,
     "elector": 1,
@@ -10215,8 +10259,8 @@
     "enano": 1,
     "enasearch": 1,
     "enc": 1,
-    "enc2xs": 1706,
-    "encguess": 1706,
+    "enc2xs": 1711,
+    "encguess": 1711,
     "encode2var": 1,
     "encode_dir": 1,
     "encode_exclude_loci": 1,
@@ -10250,22 +10294,22 @@
     "env": 84,
     "env-execute": 6843,
     "env.yml": 1,
-    "env_parallel": 103,
-    "env_parallel.ash": 103,
-    "env_parallel.bash": 103,
-    "env_parallel.csh": 103,
-    "env_parallel.dash": 103,
-    "env_parallel.fish": 103,
-    "env_parallel.ksh": 103,
-    "env_parallel.mksh": 103,
-    "env_parallel.pdksh": 103,
-    "env_parallel.sh": 103,
-    "env_parallel.tcsh": 103,
-    "env_parallel.zsh": 103,
+    "env_parallel": 104,
+    "env_parallel.ash": 104,
+    "env_parallel.bash": 104,
+    "env_parallel.csh": 104,
+    "env_parallel.dash": 104,
+    "env_parallel.fish": 104,
+    "env_parallel.ksh": 104,
+    "env_parallel.mksh": 104,
+    "env_parallel.pdksh": 104,
+    "env_parallel.sh": 104,
+    "env_parallel.tcsh": 104,
+    "env_parallel.zsh": 104,
     "environment.yml": 1,
     "envpath": 3,
     "envset.cmd": 1,
-    "envsubst": 5295,
+    "envsubst": 5297,
     "eoulsan.sh": 1,
     "epa-ng": 4,
     "epestfind": 25,
@@ -10324,6 +10368,7 @@
     "esearch": 303,
     "esh": 1,
     "esimsa": 1,
+    "eskrim": 1,
     "esl-afetch": 171,
     "esl-alidepair.pl": 2,
     "esl-alimanip": 169,
@@ -10377,7 +10422,7 @@
     "estimate_insert_size.pl.bak": 1,
     "estimate_observation_richness.py": 1,
     "estimate_sequencing_error_effects.py": 1,
-    "estimator_ckpt_converter": 53,
+    "estimator_ckpt_converter": 54,
     "estpost.entropy": 1,
     "estscan": 1,
     "estwise": 3,
@@ -10386,7 +10431,7 @@
     "esvee": 1,
     "etandem": 25,
     "ete": 2,
-    "ete3": 60,
+    "ete3": 61,
     "eternafold": 1,
     "etex": 1,
     "etraining": 15,
@@ -10482,7 +10527,7 @@
     "exporTPP.pl": 2,
     "export-itol.pl": 1,
     "export2graphlan.py": 1,
-    "export2sam.pl": 515,
+    "export2sam.pl": 517,
     "exportTools.sh": 1,
     "export_mitochondrial_contigs.py": 1,
     "export_norm_data": 1,
@@ -10581,7 +10626,7 @@
     "extract_gene_seq": 1,
     "extract_genes.py": 1,
     "extract_genome_region": 1,
-    "extract_gubbins_clade.py": 1,
+    "extract_gubbins_clade.py": 2,
     "extract_hbv_from_fasta.sh": 1,
     "extract_heteroatoms": 1,
     "extract_interpop_chars.pl": 1,
@@ -10644,16 +10689,16 @@
     "ezez4makefile_v4.pl": 1,
     "ezez4qsub_vx1.pl": 1,
     "ezez_vx1.pl": 1,
-    "f2py": 2075,
+    "f2py": 2084,
     "f2py2": 135,
     "f2py2.7": 135,
-    "f2py3": 1594,
+    "f2py3": 1595,
     "f2py3.10": 446,
     "f2py3.11": 110,
     "f2py3.6": 126,
     "f2py3.7": 257,
     "f2py3.8": 246,
-    "f2py3.9": 409,
+    "f2py3.9": 410,
     "f4ratio": 2,
     "f5c": 1,
     "f77": 1,
@@ -10770,7 +10815,7 @@
     "fasta-most": 13,
     "fasta-nr": 4,
     "fasta-re-match": 8,
-    "fasta-sanitize.pl": 314,
+    "fasta-sanitize.pl": 316,
     "fasta-shuffle-letters": 13,
     "fasta-splitter": 1,
     "fasta-strip-identifier": 2,
@@ -11068,7 +11113,7 @@
     "fastspar_pvalues": 2,
     "fastspar_reduce": 2,
     "fasttext": 1,
-    "fasttree": 68,
+    "fasttree": 69,
     "fasttreeMP": 7,
     "fasttree_pipeline": 1,
     "fastuniq": 2,
@@ -11102,15 +11147,15 @@
     "fax2tiff": 5296,
     "fba": 1,
     "fc": 1,
-    "fc-cache": 5335,
-    "fc-cat": 5335,
-    "fc-conflist": 4852,
-    "fc-list": 5335,
-    "fc-match": 5335,
-    "fc-pattern": 5335,
-    "fc-query": 5335,
-    "fc-scan": 5335,
-    "fc-validate": 5335,
+    "fc-cache": 5342,
+    "fc-cat": 5342,
+    "fc-conflist": 4859,
+    "fc-list": 5342,
+    "fc-match": 5342,
+    "fc-pattern": 5342,
+    "fc-query": 5342,
+    "fc-scan": 5342,
+    "fc-validate": 5342,
     "fc_actg_coordinate": 1,
     "fc_calc_cutoff": 1,
     "fc_consensus": 1,
@@ -11249,7 +11294,7 @@
     "fig2ps2tex": 2,
     "fig4latex": 1,
     "figaro.py": 1,
-    "figtree": 1,
+    "figtree": 2,
     "figure1calcs": 1,
     "fil": 1,
     "file": 5,
@@ -11603,10 +11648,10 @@
     "fixfrg": 2,
     "fixgaps.sh": 29,
     "fixlib": 2,
-    "fixqt4headers.pl": 240,
+    "fixqt4headers.pl": 241,
     "fixremdcouts.py": 6,
     "fkitsch": 2,
-    "flac": 46,
+    "flac": 47,
     "flag_circular.py": 2,
     "flagstats-quickbam": 1,
     "flaimapper": 1,
@@ -11618,7 +11663,7 @@
     "flash": 16,
     "flash2": 5,
     "flask": 49,
-    "flatc": 13,
+    "flatc": 14,
     "flattenGTF": 5,
     "flex": 5,
     "flex++": 5,
@@ -11676,7 +11721,7 @@
     "font-awesome-to-png": 2,
     "font2c": 3,
     "fontinst": 1,
-    "fonttools": 402,
+    "fonttools": 408,
     "fop": 1,
     "forceOneClusterPerPairMem.py": 1,
     "forest.py": 1,
@@ -11768,7 +11813,7 @@
     "freec": 1,
     "freec2bed.pl": 1,
     "freec2circos.pl": 1,
-    "freetype-config": 5838,
+    "freetype-config": 5849,
     "freeze_graph": 25,
     "freq2group.pl": 5,
     "frequency.py": 1,
@@ -11782,7 +11827,7 @@
     "frg2fastq": 2,
     "frg2ta": 2,
     "frgs2clones": 3,
-    "fribidi": 4016,
+    "fribidi": 4021,
     "frictionless": 1,
     "frm_admin": 1,
     "frm_purged": 1,
@@ -11926,7 +11971,7 @@
     "fusion_report": 1,
     "fusioncatcher-to-CG": 2,
     "fusionsam2junc_filteranchor_newfmt": 1,
-    "futurize": 238,
+    "futurize": 240,
     "fuzznuc": 25,
     "fuzzpro": 25,
     "fuzztran": 25,
@@ -12151,7 +12196,7 @@
     "gapFilling.py": 1,
     "gapPlacer.pl": 1,
     "gapShifter": 3,
-    "gapc": 6,
+    "gapc": 7,
     "gapcleaner": 1,
     "gapfill": 1,
     "gapinfo_unit_test": 5,
@@ -12159,7 +12204,7 @@
     "gapless.sh": 1,
     "gapmm2": 1,
     "gappa": 2,
-    "gapplication": 2351,
+    "gapplication": 2352,
     "gapseq": 1,
     "garnett_check_markers.R": 1,
     "garnett_classify_cells.R": 1,
@@ -12179,21 +12224,21 @@
     "gatekeeper": 3,
     "gatekeeperbench": 3,
     "gather_coverage": 1,
-    "gatk": 16,
+    "gatk": 17,
     "gatk-framework": 1,
     "gatk-register": 5,
     "gatk3": 5,
     "gatk3-register": 3,
     "gatk_to_gvcf": 1,
-    "gawk": 99,
+    "gawk": 100,
     "gawk-4.1.3": 1,
     "gawk-4.2.1": 2,
     "gawk-5.0.0": 1,
     "gawk-5.0.1": 6,
     "gawk-5.1.0": 64,
     "gawk-5.2.2": 1,
-    "gawk-5.3.0": 24,
-    "gawkbug": 25,
+    "gawk-5.3.0": 25,
+    "gawkbug": 26,
     "gb2fas": 1,
     "gb2fasta": 1,
     "gbSmallDNA2gff.pl": 14,
@@ -12302,8 +12347,8 @@
     "gdbm_dump": 25,
     "gdbm_load": 25,
     "gdbmtool": 25,
-    "gdbus": 1658,
-    "gdbus-codegen": 1656,
+    "gdbus": 1659,
+    "gdbus-codegen": 1657,
     "gdc-client": 1,
     "gdcmpgif": 237,
     "gddiag": 22,
@@ -12356,17 +12401,17 @@
     "genbank_to": 1,
     "genblastG": 1,
     "genbox": 1,
-    "genbrk": 5850,
-    "gencfu": 5850,
+    "genbrk": 5862,
+    "gencfu": 5862,
     "genclust": 1,
-    "gencnval": 5850,
+    "gencnval": 5862,
     "gencode_extract_relevant_gtf_exons.pl": 1,
     "gencode_singleton_unit_test": 5,
     "genconf": 1,
     "gencore": 1,
     "gencove": 1,
     "gendb": 13,
-    "gendict": 5850,
+    "gendict": 5862,
     "gendist": 10,
     "gene2protein.db3": 2,
     "gene2range": 203,
@@ -12420,6 +12465,9 @@
     "generate_DNAcopyout_len_vs_scores_histogram_bin0.5.sh": 1,
     "generate_batch_cmd_for_Cogent_family_finding.py": 1,
     "generate_batch_cmd_for_Cogent_reconstruction.py": 1,
+    "generate_bd": 1,
+    "generate_bdei": 1,
+    "generate_bdss": 1,
     "generate_bin_scores.py": 2,
     "generate_bv": 4,
     "generate_cog_color_template": 1,
@@ -12427,6 +12475,7 @@
     "generate_config.sh": 1,
     "generate_expr_matrix_from_rsem": 1,
     "generate_expr_matrix_from_stringtie": 1,
+    "generate_files_for_clade_analysis.py": 1,
     "generate_freebayes_region_scripts.sh": 27,
     "generate_fusiongene_convert_coordinate_trim": 1,
     "generate_fusiongene_convert_coordinate_trim_dRanger": 1,
@@ -12440,6 +12489,7 @@
     "generate_linkers.py": 1,
     "generate_map.smk": 1,
     "generate_motif_pos.py": 1,
+    "generate_mtbd": 1,
     "generate_params_from_workflow.py": 1,
     "generate_plot": 3,
     "generate_plot.py": 5,
@@ -12451,7 +12501,7 @@
     "generate_report.pyc.bak": 1,
     "generate_run_scripts.py": 1,
     "generate_sepia_reference.py": 2,
-    "generate_ska_alignment.py": 1,
+    "generate_ska_alignment.py": 2,
     "generate_training_data": 1,
     "generate_transcripts_gff.py": 1,
     "generate_var2pep_only.py": 1,
@@ -12522,7 +12572,7 @@
     "genotyphi.py": 1,
     "genpcz": 2,
     "genpept2gsi.pl": 2,
-    "genrb": 5850,
+    "genrb": 5862,
     "genreflex": 3,
     "genremdinputs.py": 6,
     "genrestr": 4,
@@ -12676,7 +12726,7 @@
     "get_gc_content.py": 1,
     "get_general_stats.pl": 1,
     "get_genes_table.pl": 3,
-    "get_gprof": 10,
+    "get_gprof": 11,
     "get_homologues-est.pl": 1,
     "get_homologues.pl": 1,
     "get_homology.pl": 1,
@@ -12689,7 +12739,7 @@
     "get_lowest_common_ancestor.pl": 1,
     "get_mirdeep2_precursors.pl": 1,
     "get_mpilup_from_id_list.py": 2,
-    "get_objgraph": 60,
+    "get_objgraph": 61,
     "get_objgraph.py": 1,
     "get_obsolete_term_id_vs_def_in_go.pl": 1,
     "get_obsolete_term_id_vs_name_in_go.pl": 1,
@@ -12772,7 +12822,7 @@
     "getdepth_min": 1,
     "getdepth_min_dir": 1,
     "getfastq.sh": 1,
-    "getfattr": 43,
+    "getfattr": 44,
     "getfeatures.py": 2,
     "getfilesToTaxNodes": 1,
     "getgenomealigndepth": 1,
@@ -12797,9 +12847,9 @@
     "getscu": 1,
     "getsize": 13,
     "getsnvfreq_by_interval": 1,
-    "gettext": 5295,
-    "gettext.sh": 5295,
-    "gettextize": 5295,
+    "gettext": 5297,
+    "gettext.sh": 5297,
+    "gettextize": 5297,
     "getuniqgenomealign": 1,
     "getuniqgenomealign_interval": 1,
     "getuniqgenomealign_sample_names": 1,
@@ -12832,7 +12882,7 @@
     "gff2bed.py": 1,
     "gff2embl": 1,
     "gff2gbSmallDNA.pl": 14,
-    "gff2gff.py": 64,
+    "gff2gff.py": 65,
     "gff2pos.pl": 5,
     "gff2ps_mycustom": 14,
     "gff2seq": 2,
@@ -12876,7 +12926,7 @@
     "gffutils-cli": 34,
     "gfinisher": 1,
     "gflags2man.py": 3,
-    "gflags_completions.sh": 70,
+    "gflags_completions.sh": 73,
     "gfmix": 1,
     "gfmix.yaml": 1,
     "gfmix_mammal.smk": 1,
@@ -12896,23 +12946,23 @@
     "ghmm-config": 3,
     "ghostx": 3,
     "ghostz": 1,
-    "gi-compile-repository": 12,
-    "gi-decompile-typelib": 12,
-    "gi-inspect-typelib": 12,
+    "gi-compile-repository": 13,
+    "gi-decompile-typelib": 13,
+    "gi-inspect-typelib": 13,
     "gi2ancestors.sh": 30,
     "gi2taxid.sh": 30,
     "gid-taxid": 1,
     "gie": 41,
-    "gif2h5": 545,
+    "gif2h5": 547,
     "gif2hdf": 125,
-    "gif2rgb": 753,
+    "gif2rgb": 756,
     "gif2tiff": 189,
     "gif2webp": 354,
-    "gifbuild": 753,
-    "gifclrmp": 753,
+    "gifbuild": 756,
+    "gifclrmp": 756,
     "gifecho": 39,
     "giffilter": 25,
-    "giffix": 753,
+    "giffix": 756,
     "gifinto": 39,
     "gifmaker.py": 20,
     "gifrop": 1,
@@ -12923,18 +12973,18 @@
     "gifrop_pannotate.R": 1,
     "gifrop_plots.R": 1,
     "gifsponge": 25,
-    "giftext": 753,
+    "giftext": 756,
     "giftogd2": 237,
-    "giftool": 753,
+    "giftool": 756,
     "gigrnd.py": 1,
     "gil2bin": 1,
     "gimbleprep": 1,
     "gimme": 4,
     "gimme_taxa.py": 7,
     "ginsi": 105,
-    "gio": 1546,
+    "gio": 1547,
     "gio-launch-desktop": 668,
-    "gio-querymodules": 1658,
+    "gio-querymodules": 1659,
     "git": 30,
     "git-clang-format": 7,
     "git-cvsserver": 30,
@@ -12962,11 +13012,11 @@
     "glam2scan": 13,
     "glam2scan2html": 13,
     "glewinfo": 1,
-    "glib-compile-resources": 1656,
-    "glib-compile-schemas": 1658,
-    "glib-genmarshal": 1656,
-    "glib-gettextize": 1656,
-    "glib-mkenums": 1656,
+    "glib-compile-resources": 1657,
+    "glib-compile-schemas": 1659,
+    "glib-genmarshal": 1657,
+    "glib-gettextize": 1657,
+    "glib-mkenums": 1657,
     "glim-diff.awk": 2,
     "glimmer3": 2,
     "glimmerhmm": 16,
@@ -12977,7 +13027,7 @@
     "glnexus_cli": 1,
     "glob_res.pl": 1,
     "global.json": 1,
-    "glpsol": 231,
+    "glpsol": 235,
     "glsearch36": 7,
     "gm": 2,
     "gm2ranges": 27,
@@ -13094,7 +13144,7 @@
     "goalign": 1,
     "goalign_test.sh": 1,
     "goat-cli": 1,
-    "gobject-query": 1656,
+    "gobject-query": 1657,
     "goblin": 1,
     "gocr": 2,
     "gocr.tcl": 2,
@@ -13135,7 +13185,7 @@
     "gomo_highlight": 13,
     "goname": 25,
     "google-api": 1,
-    "google-oauthlib-tool": 60,
+    "google-oauthlib-tool": 61,
     "google_accounts_daemon": 1,
     "google_clock_skew_daemon": 1,
     "google_instance_setup": 1,
@@ -13166,13 +13216,13 @@
     "gpg-agent": 2,
     "gpg-card": 2,
     "gpg-connect-agent": 2,
-    "gpg-error": 33,
+    "gpg-error": 34,
     "gpg-error-config": 4,
     "gpg-wks-client": 2,
     "gpg-wks-server": 2,
     "gpgconf": 2,
     "gpgparsemail": 2,
-    "gpgrt-config": 33,
+    "gpgrt-config": 34,
     "gpgscm": 2,
     "gpgsm": 2,
     "gpgsplit": 2,
@@ -13227,7 +13277,7 @@
     "grep": 21,
     "grep.py": 1,
     "grepf": 1,
-    "gresource": 1658,
+    "gresource": 1659,
     "gretel": 1,
     "gretel-snpper": 1,
     "grf-alignment": 5,
@@ -13278,13 +13328,13 @@
     "group_significance.py": 1,
     "groups": 84,
     "grow-readbank": 2,
-    "grpc_cpp_plugin": 146,
-    "grpc_csharp_plugin": 146,
-    "grpc_node_plugin": 146,
-    "grpc_objective_c_plugin": 146,
-    "grpc_php_plugin": 146,
-    "grpc_python_plugin": 146,
-    "grpc_ruby_plugin": 146,
+    "grpc_cpp_plugin": 152,
+    "grpc_csharp_plugin": 152,
+    "grpc_node_plugin": 152,
+    "grpc_objective_c_plugin": 152,
+    "grpc_php_plugin": 152,
+    "grpc_python_plugin": 152,
+    "grpc_ruby_plugin": 152,
     "gs": 105,
     "gsbj": 105,
     "gscat": 2,
@@ -13294,13 +13344,13 @@
     "gsea": 1,
     "gsea-cli": 1,
     "gseapy": 4,
-    "gsettings": 1658,
+    "gsettings": 1659,
     "gsf": 1,
     "gsf-office-thumbnailer": 1,
     "gsf-vba-dump": 1,
-    "gsl-config": 4552,
-    "gsl-histogram": 4552,
-    "gsl-randist": 4552,
+    "gsl-config": 4558,
+    "gsl-histogram": 4558,
+    "gsl-randist": 4558,
     "gslj": 105,
     "gslp": 105,
     "gsnap": 11,
@@ -13311,18 +13361,18 @@
     "gsnapl.sse42": 11,
     "gsnd": 105,
     "gsort": 5,
-    "gss-client": 5822,
+    "gss-client": 5833,
     "gss-server": 2,
     "gst-completion-helper": 1,
-    "gst-device-monitor-1.0": 233,
-    "gst-discoverer-1.0": 233,
-    "gst-inspect-1.0": 247,
-    "gst-launch-1.0": 247,
-    "gst-play-1.0": 233,
+    "gst-device-monitor-1.0": 234,
+    "gst-discoverer-1.0": 234,
+    "gst-inspect-1.0": 248,
+    "gst-launch-1.0": 248,
+    "gst-play-1.0": 234,
     "gst-plugin-scanner": 1,
     "gst-ptp-helper": 1,
-    "gst-stats-1.0": 247,
-    "gst-typefind-1.0": 247,
+    "gst-stats-1.0": 248,
+    "gst-typefind-1.0": 248,
     "gstacks": 1,
     "gsutil": 11,
     "gt": 12,
@@ -13331,8 +13381,8 @@
     "gtdb_to_taxdump.py": 1,
     "gtdbtk": 2,
     "gtest": 3,
-    "gtester": 1656,
-    "gtester-report": 1656,
+    "gtester": 1657,
+    "gtester-report": 1657,
     "gtf-to-bed12": 3,
     "gtf2aa.pl": 12,
     "gtf2bed": 15,
@@ -13452,9 +13502,9 @@
     "gtt-swap-ids": 1,
     "gtt-test.sh": 1,
     "gtt-update-ncbi-taxonomy": 1,
-    "gubbins": 5,
-    "gubbins_alignment_checker.py": 1,
-    "guess-ploidy.py": 156,
+    "gubbins": 6,
+    "gubbins_alignment_checker.py": 2,
+    "guess-ploidy.py": 157,
     "guess_baits.py": 2,
     "guess_ill_instrument": 1,
     "guessprotocol": 1,
@@ -13535,39 +13585,39 @@
     "h264dec": 10,
     "h264enc": 10,
     "h2load": 3929,
-    "h2ph": 1706,
-    "h2xs": 1706,
+    "h2ph": 1711,
+    "h2xs": 1711,
     "h4_ncdump": 125,
     "h4_ncgen": 125,
     "h4cc": 125,
     "h4redeploy": 125,
-    "h52gif": 545,
-    "h5c++": 545,
-    "h5cc": 550,
-    "h5clear": 529,
-    "h5copy": 545,
-    "h5debug": 545,
-    "h5delete": 86,
-    "h5diff": 545,
-    "h5dump": 547,
-    "h5fc": 532,
-    "h5format_convert": 529,
-    "h5fuse.sh": 54,
-    "h5import": 545,
-    "h5jam": 545,
-    "h5ls": 545,
-    "h5mkgrp": 545,
+    "h52gif": 547,
+    "h5c++": 547,
+    "h5cc": 552,
+    "h5clear": 531,
+    "h5copy": 547,
+    "h5debug": 547,
+    "h5delete": 88,
+    "h5diff": 547,
+    "h5dump": 549,
+    "h5fc": 534,
+    "h5format_convert": 531,
+    "h5fuse.sh": 56,
+    "h5import": 547,
+    "h5jam": 547,
+    "h5ls": 547,
+    "h5mkgrp": 547,
     "h5pcc": 3,
     "h5perf": 3,
-    "h5perf_serial": 545,
+    "h5perf_serial": 547,
     "h5pfc": 3,
-    "h5redeploy": 545,
-    "h5repack": 545,
-    "h5repart": 545,
-    "h5stat": 545,
-    "h5tools_test_utils": 34,
-    "h5unjam": 545,
-    "h5watch": 529,
+    "h5redeploy": 547,
+    "h5repack": 547,
+    "h5repart": 547,
+    "h5stat": 547,
+    "h5tools_test_utils": 36,
+    "h5unjam": 547,
+    "h5watch": 531,
     "hAMRoaster": 1,
     "h_num": 1,
     "haarz.x": 1,
@@ -13709,11 +13759,11 @@
     "haystack_pipeline": 1,
     "haystack_run_test": 1,
     "haystack_tf_activity_plane": 1,
-    "hb-info": 281,
-    "hb-ot-shape-closure": 5076,
-    "hb-shape": 5076,
-    "hb-subset": 4640,
-    "hb-view": 5033,
+    "hb-info": 288,
+    "hb-ot-shape-closure": 5083,
+    "hb-shape": 5083,
+    "hb-subset": 4647,
+    "hb-view": 5040,
     "hbvblast.sh": 1,
     "hca-matrix-downloader": 1,
     "hca-mtx-to-10x": 1,
@@ -13896,7 +13946,7 @@
     "hlp-xtract.txt": 73,
     "hlso": 1,
     "hm_cluster_predict.py": 1,
-    "hmac256": 33,
+    "hmac256": 34,
     "hmaptool": 4,
     "hmm-assembler.pl": 2,
     "hmm-info": 2,
@@ -14018,7 +14068,7 @@
     "htseq-count": 22,
     "htseq-count-barcodes": 14,
     "htseq-qa": 22,
-    "htsfile": 707,
+    "htsfile": 710,
     "htsget": 2,
     "htsinfer": 1,
     "httpcfg": 15,
@@ -14032,7 +14082,7 @@
     "huge-split.pl": 1,
     "huggingface-cli": 2,
     "hulk": 1,
-    "humanfriendly": 105,
+    "humanfriendly": 107,
     "humann": 1,
     "humann2": 2,
     "humann2_associate": 1,
@@ -14081,21 +14131,21 @@
     "humann_unpack_pathways": 1,
     "humid": 1,
     "hv-pipeline.py": 1,
-    "hwloc-annotate": 70,
+    "hwloc-annotate": 72,
     "hwloc-assembler": 2,
     "hwloc-assembler-remote": 2,
-    "hwloc-bind": 70,
-    "hwloc-calc": 70,
-    "hwloc-compress-dir": 70,
-    "hwloc-diff": 70,
+    "hwloc-bind": 72,
+    "hwloc-calc": 72,
+    "hwloc-compress-dir": 72,
+    "hwloc-diff": 72,
     "hwloc-distances": 2,
-    "hwloc-distrib": 70,
-    "hwloc-gather-cpuid": 68,
-    "hwloc-gather-topology": 70,
-    "hwloc-info": 70,
-    "hwloc-ls": 70,
-    "hwloc-patch": 70,
-    "hwloc-ps": 70,
+    "hwloc-distrib": 72,
+    "hwloc-gather-cpuid": 70,
+    "hwloc-gather-topology": 72,
+    "hwloc-info": 72,
+    "hwloc-ls": 72,
+    "hwloc-patch": 72,
+    "hwloc-ps": 72,
     "hyb_analyze": 1,
     "hyb_check": 1,
     "hyb_eval": 1,
@@ -14162,9 +14212,9 @@
     "ichar": 1,
     "icon-font-to-png": 2,
     "iconv": 5462,
-    "icu-config": 5850,
-    "icuexportdata": 2065,
-    "icuinfo": 5850,
+    "icu-config": 5862,
+    "icuexportdata": 2077,
+    "icuinfo": 5862,
     "id": 84,
     "id_conserved_regions.pl": 1,
     "idba": 10,
@@ -14195,16 +14245,16 @@
     "idfetch": 1,
     "idiag-socket-details": 13,
     "idle": 332,
-    "idle3": 3364,
-    "idle3.10": 818,
-    "idle3.11": 269,
-    "idle3.12": 215,
+    "idle3": 3378,
+    "idle3.10": 819,
+    "idle3.11": 270,
+    "idle3.12": 226,
     "idle3.4": 6,
     "idle3.5": 103,
     "idle3.6": 342,
     "idle3.7": 383,
     "idle3.8": 577,
-    "idle3.9": 651,
+    "idle3.9": 652,
     "idlj": 117,
     "idmatrix.sh": 30,
     "idn": 30,
@@ -14275,7 +14325,7 @@
     "igor": 1,
     "igor-compute_pgen": 1,
     "igphyml": 1,
-    "igraph": 43,
+    "igraph": 44,
     "igraph_extract_clusters.R": 1,
     "igv_jasmine": 1,
     "igvtools": 5,
@@ -14310,6 +14360,7 @@
     "illuminate": 1,
     "illumiprocessor": 2,
     "ilp-rrrmt": 1,
+    "im2deep": 1,
     "imagecodecs": 23,
     "imageio_download_bin": 25,
     "imageio_remove_bin": 25,
@@ -14349,7 +14400,7 @@
     "import_expression_and_DE_results.pl": 1,
     "import_expression_matrix.pl": 1,
     "import_igenome": 2,
-    "import_pb_to_tensorboard": 36,
+    "import_pb_to_tensorboard": 37,
     "import_samples_n_expression_matrix.pl": 1,
     "import_samples_only.pl": 1,
     "import_transcript_annotations.pl": 1,
@@ -14413,11 +14464,11 @@
     "infoalign": 25,
     "infoassembly": 25,
     "infobase": 25,
-    "infocmp": 7740,
+    "infocmp": 7755,
     "inforesidue": 25,
     "informant.py": 1,
     "infoseq": 25,
-    "infotocap": 7740,
+    "infotocap": 7755,
     "ini2xml": 27,
     "init_Trinotate_sqlite_db.pl": 1,
     "init_db.sh": 1,
@@ -14457,7 +14508,7 @@
     "install": 84,
     "install.db.tables.r": 5,
     "install.pl": 2,
-    "installBiocDataPackage.sh": 291,
+    "installBiocDataPackage.sh": 295,
     "installMetaphyler.pl": 1,
     "installPackages.R": 1,
     "install_archived_sybilSBML.sh": 1,
@@ -14479,7 +14530,7 @@
     "installpackages.R": 1,
     "installvst": 15,
     "instance_events": 29,
-    "instmodsh": 1706,
+    "instmodsh": 1711,
     "int_seqs_to_char_strings.py": 59,
     "intake": 1,
     "intake-server": 1,
@@ -14510,7 +14561,7 @@
     "interop_plot_qscore_histogram": 4,
     "interop_plot_sample_qc": 4,
     "interop_summary": 4,
-    "interpolate_sam.pl": 515,
+    "interpolate_sam.pl": 517,
     "interprophet.rb": 1,
     "interproscan.sh": 1,
     "intersect": 5,
@@ -14580,8 +14631,8 @@
     "ipkdump-dna": 1,
     "ipopt": 1,
     "ipopt_sens": 1,
-    "ippeveprinter": 196,
-    "ipptool": 196,
+    "ippeveprinter": 199,
+    "ipptool": 199,
     "ipr_update_gff": 1,
     "iprscan2gff3": 1,
     "iptest": 53,
@@ -14594,8 +14645,8 @@
     "ipython3.10": 1,
     "ipython3.9": 4,
     "iqkm": 1,
-    "iqtree": 30,
-    "iqtree2": 19,
+    "iqtree": 31,
+    "iqtree2": 20,
     "ir": 1,
     "irb": 30,
     "irescue": 1,
@@ -14747,8 +14798,8 @@
     "jamo-normalize": 1,
     "jannovar": 1,
     "jaotc": 310,
-    "jar": 540,
-    "jarsigner": 540,
+    "jar": 542,
+    "jarsigner": 542,
     "jasmine": 3,
     "jasmine.jar": 1,
     "jasmine_igv.jar": 1,
@@ -14759,43 +14810,43 @@
     "jaspscan": 25,
     "jass": 1,
     "jass_preprocessing": 1,
-    "java": 540,
+    "java": 542,
     "java-rmi.cgi": 112,
-    "javac": 540,
-    "javadoc": 540,
+    "javac": 542,
+    "javadoc": 542,
     "javah": 112,
-    "javap": 540,
+    "javap": 542,
     "javareconf": 1,
     "jbig2dec": 1,
     "jbrowse": 1,
     "jcast": 1,
-    "jcmd": 540,
-    "jconsole": 540,
-    "jdb": 540,
-    "jdeprscan": 431,
-    "jdeps": 539,
+    "jcmd": 542,
+    "jconsole": 542,
+    "jdb": 542,
+    "jdeprscan": 433,
+    "jdeps": 541,
     "je": 2,
-    "jellyfish": 46,
+    "jellyfish": 47,
     "jemalloc-config": 14,
     "jemalloc.sh": 15,
     "jembossctl": 25,
     "jeprof": 14,
     "jf_aligner": 1,
-    "jfr": 375,
+    "jfr": 377,
     "jgiDwnld": 2,
     "jgi_gc": 1,
     "jgi_summarize_bam_contig_depths": 6,
     "jgoslin": 1,
     "jhat": 112,
-    "jhsdb": 431,
-    "jimage": 431,
-    "jinfo": 540,
+    "jhsdb": 433,
+    "jimage": 433,
+    "jinfo": 542,
     "jiv": 5,
     "jjs": 420,
-    "jlink": 431,
+    "jlink": 433,
     "jlpm": 3,
-    "jmap": 540,
-    "jmod": 431,
+    "jmap": 542,
+    "jmod": 433,
     "jmztab-m": 1,
     "job-shop": 1,
     "jobTreeKill": 2,
@@ -14826,25 +14877,25 @@
     "joingenes": 15,
     "joint-indels": 1,
     "joint-parsimony": 1,
-    "jp.py": 100,
-    "jpackage": 121,
+    "jp.py": 101,
+    "jpackage": 123,
     "jpeg2hdf": 125,
-    "jpegtran": 5775,
-    "jpgicc": 1001,
+    "jpegtran": 5786,
+    "jpgicc": 1007,
     "jpredapi": 1,
-    "jps": 540,
-    "jq": 303,
+    "jps": 542,
+    "jq": 307,
     "jronn": 1,
-    "jrunscript": 540,
+    "jrunscript": 542,
     "js-beautify": 1,
     "jsadebugd": 112,
     "jscan": 1,
     "jsearch": 1,
-    "jshell": 431,
+    "jshell": 433,
     "json2gff": 1,
     "json2xml": 215,
     "json_collect_data_source.py": 1,
-    "json_pp": 1706,
+    "json_pp": 1711,
     "json_xs": 361,
     "jsondiff": 9,
     "jsonl2xml": 27,
@@ -14852,10 +14903,10 @@
     "jsonpath.py": 1,
     "jsonpath_ng": 1,
     "jsonpointer": 12,
-    "jsonschema": 214,
-    "jstack": 540,
-    "jstat": 540,
-    "jstatd": 540,
+    "jsonschema": 215,
+    "jstack": 542,
+    "jstat": 542,
+    "jstatd": 542,
     "juicer": 1,
     "juicer_shortform2pairs.pl": 22,
     "julia": 6,
@@ -14874,7 +14925,7 @@
     "junctions_from_sam": 1,
     "junctools": 1,
     "jupiter": 1,
-    "jupyter": 147,
+    "jupyter": 148,
     "jupyter-bundlerextension": 37,
     "jupyter-console": 13,
     "jupyter-contrib": 1,
@@ -14887,7 +14938,7 @@
     "jupyter-lab": 3,
     "jupyter-labextension": 3,
     "jupyter-labhub": 3,
-    "jupyter-migrate": 147,
+    "jupyter-migrate": 148,
     "jupyter-nbclassic": 3,
     "jupyter-nbclassic-bundlerextension": 3,
     "jupyter-nbclassic-extension": 3,
@@ -14900,20 +14951,20 @@
     "jupyter-run": 53,
     "jupyter-server": 6,
     "jupyter-serverextension": 37,
-    "jupyter-troubleshoot": 147,
-    "jupyter-trust": 140,
+    "jupyter-troubleshoot": 148,
+    "jupyter-trust": 141,
     "just-first-key": 20,
     "just-top-hits": 7,
     "just_blast_test.pl": 1,
-    "jwebserver": 39,
-    "k5srvutil": 5822,
-    "k8": 165,
+    "jwebserver": 40,
+    "k5srvutil": 5833,
+    "k8": 166,
     "k8-Linux": 1,
     "k_means": 1,
     "k_means_coefficient": 1,
     "k_neighbors": 1,
     "k_neighbors_coefficient": 1,
-    "kadmin": 5822,
+    "kadmin": 5833,
     "kadmin.local": 2,
     "kadmind": 2,
     "kaiju": 4,
@@ -15007,7 +15058,7 @@
     "kdbmeta.3.0.0": 2,
     "kdbmeta.3.0.3": 1,
     "kdbmeta.3.1.0": 1,
-    "kdestroy": 5822,
+    "kdestroy": 5833,
     "kea-config": 37,
     "keep-header": 1,
     "keep-ribo-periodic": 1,
@@ -15017,10 +15068,10 @@
     "keggcharter.py": 1,
     "keggpathway_map.py": 1,
     "keyFreq": 1,
-    "keyctl": 2452,
+    "keyctl": 2463,
     "keygen": 1,
     "keyring": 10,
-    "keytool": 540,
+    "keytool": 542,
     "kget": 18,
     "kget.2": 18,
     "kget.2.10.0": 1,
@@ -15048,7 +15099,7 @@
     "kinSimRiboswitch": 1,
     "king": 1,
     "kingfisher": 1,
-    "kinit": 5822,
+    "kinit": 5833,
     "kinship-read": 1,
     "kinshipDecompose": 1,
     "kinwalker": 52,
@@ -15061,7 +15112,7 @@
     "kitsch": 10,
     "kitsune": 1,
     "kleborate": 1,
-    "klist": 5822,
+    "klist": 5833,
     "kma": 19,
     "kma_index": 19,
     "kma_shm": 19,
@@ -15149,7 +15200,7 @@
     "kp1mer_to_kmer.py": 1,
     "kp2np.py": 1,
     "kpal": 2,
-    "kpasswd": 5822,
+    "kpasswd": 5833,
     "kpileup.py": 1,
     "kprop": 2,
     "kpropd": 2,
@@ -15196,7 +15247,7 @@
     "krakenuniq-report": 1,
     "krakenuniq-translate": 1,
     "krakmeopen": 1,
-    "krb5-config": 5822,
+    "krb5-config": 5833,
     "krb5-send-pr": 2,
     "krb5kdc": 2,
     "kreport2krona.py": 3,
@@ -15212,9 +15263,9 @@
     "kseq_split": 1,
     "ksnp": 1,
     "kssd": 1,
-    "ksu": 5822,
+    "ksu": 5833,
     "ksw": 1,
-    "kswitch": 5822,
+    "kswitch": 5833,
     "ktClassifyBLAST": 17,
     "ktClassifyHits": 13,
     "ktGetContigMagnitudes": 17,
@@ -15245,12 +15296,12 @@
     "ktserver": 2,
     "kttimedmgr": 2,
     "kttimedtest": 2,
-    "ktutil": 5822,
+    "ktutil": 5833,
     "ktutilmgr": 2,
     "ktutilserv": 2,
     "ktutiltest": 2,
     "kubectl": 1,
-    "kvno": 5822,
+    "kvno": 5833,
     "kwip": 2,
     "kwip-stats": 2,
     "l4p-tmpl": 32,
@@ -15264,7 +15315,7 @@
     "lambda": 1,
     "lambda2": 1,
     "lambda_indexer": 1,
-    "lame": 39,
+    "lame": 40,
     "langford-number": 2,
     "laser": 2,
     "laser-core": 2,
@@ -15339,7 +15390,7 @@
     "lc": 15,
     "lc_approx": 1,
     "lckdo": 3,
-    "lconvert": 249,
+    "lconvert": 250,
     "lconvert-qt4": 3,
     "lcp.bat": 1,
     "ld": 8,
@@ -15402,8 +15453,8 @@
     "libclair3.cpython-36m-x86_64-linux-gnu.so": 1,
     "libclair3.o": 1,
     "libclair3.so": 1,
-    "libdeflate-gunzip": 4143,
-    "libdeflate-gzip": 4143,
+    "libdeflate-gunzip": 4153,
+    "libdeflate-gzip": 4153,
     "libdrawgram.so": 5,
     "libdrawtree.so": 5,
     "libfile.pl": 1,
@@ -15412,9 +15463,9 @@
     "libiomp5md.dll": 1,
     "liblist.pl": 1,
     "liblist.pl.bak": 1,
-    "libnetcfg": 1706,
-    "libpng-config": 5892,
-    "libpng16-config": 5892,
+    "libnetcfg": 1711,
+    "libpng-config": 5903,
+    "libpng16-config": 5903,
     "libpypy-c.so": 1,
     "libpypy-c.so.debug": 1,
     "libpypy3-c.so.debug": 3,
@@ -15464,7 +15515,7 @@
     "linearfold": 1,
     "linearpartition": 1,
     "lingenome": 1,
-    "linguist": 249,
+    "linguist": 250,
     "linguist-qt4": 3,
     "linguist6": 1,
     "linguistic_sequence_complexity.py": 1,
@@ -15473,7 +15524,7 @@
     "link_ssv.py": 1,
     "linkage2allegro": 1,
     "linkhsp_unit_test": 5,
-    "linkicc": 1001,
+    "linkicc": 1007,
     "linknets": 2,
     "links2sql.pl": 7,
     "linksBed": 274,
@@ -15704,7 +15755,7 @@
     "low-cov-multisample.py": 1,
     "lp_solve": 14,
     "lpconvert": 1,
-    "lprodump": 42,
+    "lprodump": 43,
     "lprsetup.sh": 105,
     "lpython": 3,
     "lq_adapt.py": 1,
@@ -15719,8 +15770,8 @@
     "lq_utils.py": 1,
     "lr2gene.pl": 1,
     "lra": 2,
-    "lrelease": 249,
-    "lrelease-pro": 42,
+    "lrelease": 250,
+    "lrelease-pro": 43,
     "lrelease-qt4": 3,
     "lrsim": 1,
     "lrtk": 1,
@@ -15742,8 +15793,8 @@
     "lsmem": 13,
     "lsns": 13,
     "lss3": 29,
-    "lstopo": 70,
-    "lstopo-no-graphics": 70,
+    "lstopo": 72,
+    "lstopo-no-graphics": 72,
     "ltqnorm.pl": 1,
     "ltqnorm.pl.bak": 1,
     "ltr_finder": 3,
@@ -15767,8 +15818,8 @@
     "lumpy_filter": 2,
     "lumpyexpress": 2,
     "lumpyexpress.config": 2,
-    "lupdate": 249,
-    "lupdate-pro": 42,
+    "lupdate": 250,
+    "lupdate-pro": 43,
     "lupdate-qt4": 3,
     "lusstr": 1,
     "lut_pdiffCI.dat": 4,
@@ -15779,21 +15830,21 @@
     "lwp-mirror": 197,
     "lwp-request": 197,
     "lyner": 1,
-    "lz4": 3518,
+    "lz4": 3522,
     "lz4_decompress": 2,
-    "lz4c": 3517,
-    "lz4cat": 3517,
-    "lzcat": 7566,
-    "lzcmp": 7566,
-    "lzdiff": 7566,
-    "lzegrep": 7566,
-    "lzfgrep": 7566,
-    "lzgrep": 7566,
-    "lzless": 7566,
-    "lzma": 7566,
-    "lzmadec": 7566,
-    "lzmainfo": 7566,
-    "lzmore": 7566,
+    "lz4c": 3521,
+    "lz4cat": 3521,
+    "lzcat": 7581,
+    "lzcmp": 7581,
+    "lzdiff": 7581,
+    "lzegrep": 7581,
+    "lzfgrep": 7581,
+    "lzgrep": 7581,
+    "lzless": 7581,
+    "lzma": 7581,
+    "lzmadec": 7581,
+    "lzmainfo": 7581,
+    "lzmore": 7581,
     "lzop_build_offset_table.py": 59,
     "m-party": 1,
     "m-tx": 1,
@@ -15954,7 +16005,7 @@
     "main_html_generator.py": 1,
     "makblk.pl": 4,
     "makdbs": 4,
-    "make": 4154,
+    "make": 4160,
     "make-barcodes.awk": 1,
     "make-cluster.R": 1,
     "make-conf": 2,
@@ -16109,7 +16160,7 @@
     "makechimeras.sh": 30,
     "makeclusterdb": 5,
     "makecontaminatedgenomes.sh": 30,
-    "makeconv": 5850,
+    "makeconv": 5862,
     "makedtx": 1,
     "makefasta.awk": 1,
     "makegeo": 37,
@@ -16224,8 +16275,8 @@
     "mapula": 1,
     "mapview": 44,
     "mapviewToBed.pl": 1,
-    "maq2sam-long": 515,
-    "maq2sam-short": 515,
+    "maq2sam-long": 517,
+    "maq2sam-short": 517,
     "mareymaps_untrimmed.smk": 1,
     "marge": 1,
     "margin_cons": 2,
@@ -16237,8 +16288,8 @@
     "mark_partial_genes.py": 2,
     "mark_productivity": 1,
     "mark_prophage_features.py": 2,
-    "markdown-it": 50,
-    "markdown_py": 121,
+    "markdown-it": 52,
+    "markdown_py": 122,
     "markdups": 1,
     "markermagu": 1,
     "marko": 1,
@@ -16268,7 +16319,7 @@
     "maskFile.pl": 11,
     "maskNregions.pl": 14,
     "mask_and_chain.smk": 1,
-    "mask_gubbins_aln.py": 1,
+    "mask_gubbins_aln.py": 2,
     "mask_quality.py": 59,
     "maskambignuc": 25,
     "maskambigprot": 25,
@@ -16328,6 +16379,7 @@
     "mauveToXMFA": 4,
     "mavis": 1,
     "mawk": 7,
+    "max-cov.py": 1,
     "max_min_picker": 1,
     "maxentscan_score3.pl": 1,
     "maxentscan_score5.pl": 1,
@@ -16465,9 +16517,9 @@
     "md5cp.2.11.0": 10,
     "md5cp.3": 2,
     "md5cp.3.0.0": 2,
-    "md5fa": 515,
+    "md5fa": 517,
     "md5sum": 84,
-    "md5sum-lite": 515,
+    "md5sum-lite": 517,
     "md_coords": 11,
     "mdasim": 1,
     "mdassembler": 15,
@@ -16736,7 +16788,7 @@
     "meryl-simple": 5,
     "merylqury2analysis.py": 1,
     "mesg": 13,
-    "meshdebug": 42,
+    "meshdebug": 43,
     "mess": 1,
     "message-count": 2,
     "message-extract": 2,
@@ -16783,7 +16835,7 @@
     "metadata_conda_debug.yaml": 31,
     "metadata_merger.py": 1,
     "metaeuk": 4,
-    "metaflac": 46,
+    "metaflac": 47,
     "metagene": 3,
     "metagenome_pipeline.py": 1,
     "metagenomics": 1,
@@ -16979,7 +17031,7 @@
     "minigzip": 3,
     "minimap": 1,
     "minimap-lite": 1,
-    "minimap2": 166,
+    "minimap2": 167,
     "minimap2-coverage": 2,
     "minimap2.py": 26,
     "minimap2_genome": 1,
@@ -17135,7 +17187,7 @@
     "mobster": 1,
     "mobster-to-vcf": 1,
     "mobsuiteRepresentativeFasta.pl": 2,
-    "moc": 249,
+    "moc": 250,
     "moc-qt4": 3,
     "moca": 1,
     "mock-cwl-runner": 3,
@@ -17255,25 +17307,25 @@
     "mpest": 1,
     "mpfp++": 1,
     "mpfp++64": 1,
-    "mpg123": 31,
-    "mpg123-id3dump": 31,
-    "mpg123-strip": 31,
+    "mpg123": 32,
+    "mpg123-id3dump": 32,
+    "mpg123-strip": 32,
     "mpi.pl": 1,
-    "mpiCC": 73,
-    "mpic++": 88,
-    "mpicalc": 33,
-    "mpicc": 88,
+    "mpiCC": 74,
+    "mpic++": 89,
+    "mpicalc": 34,
+    "mpicc": 89,
     "mpich2version": 1,
     "mpichversion": 14,
-    "mpicxx": 88,
-    "mpiexec": 88,
+    "mpicxx": 89,
+    "mpiexec": 89,
     "mpiexec.hydra": 15,
-    "mpif77": 88,
-    "mpif90": 88,
-    "mpifort": 87,
+    "mpif77": 89,
+    "mpif90": 89,
+    "mpifort": 88,
     "mpinab2c": 6,
     "mpire-dashboard": 2,
-    "mpirun": 88,
+    "mpirun": 89,
     "mpiswipe": 1,
     "mpivars": 14,
     "mpl_utils.py": 1,
@@ -17284,9 +17336,9 @@
     "mprof-report": 15,
     "mptopdf": 1,
     "mpxstats": 1,
-    "mqtt5_app": 42,
-    "mqtt5_canary": 42,
-    "mqtt5canary": 42,
+    "mqtt5_app": 45,
+    "mqtt5_canary": 45,
+    "mqtt5canary": 45,
     "mrcfile-header": 3,
     "mrcfile-validate": 3,
     "mreps": 2,
@@ -17326,24 +17378,24 @@
     "mseqtools": 1,
     "msformatter": 1,
     "msfragger": 2,
-    "msgattrib": 5295,
-    "msgcat": 5295,
-    "msgcmp": 5295,
-    "msgcomm": 5295,
-    "msgconv": 5295,
-    "msgen": 5295,
-    "msgexec": 5295,
+    "msgattrib": 5297,
+    "msgcat": 5297,
+    "msgcmp": 5297,
+    "msgcomm": 5297,
+    "msgconv": 5297,
+    "msgen": 5297,
+    "msgexec": 5297,
     "msgf2pin": 1,
     "msgf_plus": 3,
-    "msgfilter": 5295,
-    "msgfmt": 5295,
+    "msgfilter": 5297,
+    "msgfmt": 5297,
     "msgfplus_search.rb": 1,
-    "msggrep": 5295,
-    "msginit": 5295,
-    "msgmerge": 5295,
+    "msggrep": 5297,
+    "msginit": 5297,
+    "msgmerge": 5297,
     "msgserv": 1,
-    "msgunfmt": 5295,
-    "msguniq": 5295,
+    "msgunfmt": 5297,
+    "msguniq": 5297,
     "msi": 1,
     "msi_cluster2reads": 1,
     "msi_clustr2map.pl": 1,
@@ -17511,8 +17563,8 @@
     "myps2jpg.bash": 1,
     "myps2pdf.bash": 1,
     "myps2png.bash": 1,
-    "mypy": 2,
-    "mypyc": 2,
+    "mypy": 3,
+    "mypyc": 3,
     "myriad": 2,
     "myrimatch": 2,
     "mysql": 10,
@@ -17603,7 +17655,7 @@
     "nasm": 1,
     "nasp": 1,
     "native2ascii": 112,
-    "natsort": 151,
+    "natsort": 152,
     "nb-classify": 1,
     "nb-train": 1,
     "nbmodel_stan2.py": 1,
@@ -17645,9 +17697,9 @@
     "ncrf_to_bed": 2,
     "ncrf_to_bed.py": 2,
     "ncurses5-config": 565,
-    "ncurses6-config": 7033,
+    "ncurses6-config": 7048,
     "ncursesw5-config": 703,
-    "ncursesw6-config": 7034,
+    "ncursesw6-config": 7049,
     "ndg_httpclient": 2,
     "ndisasm": 1,
     "ndmetis": 58,
@@ -17737,7 +17789,7 @@
     "nf-test": 1,
     "nfe-umbrella-slice": 6,
     "ngd": 9,
-    "ngettext": 5295,
+    "ngettext": 5297,
     "ngg_barabasi_albert": 2,
     "ngg_barbell": 2,
     "ngg_complete": 2,
@@ -17747,9 +17799,9 @@
     "ngg_newman_watts_strogatz": 2,
     "ngg_path": 2,
     "ngg_ring_lattice": 2,
-    "nghttp": 4487,
-    "nghttpd": 4487,
-    "nghttpx": 4487,
+    "nghttp": 4497,
+    "nghttpd": 4497,
+    "nghttpx": 4497,
     "ngless": 2,
     "ngless-wrapped": 1,
     "nglview": 2,
@@ -17802,7 +17854,7 @@
     "nib_intervals_to_fasta.py": 59,
     "nib_length.py": 59,
     "nice": 84,
-    "niceload": 103,
+    "niceload": 104,
     "nighthawk": 1,
     "nii2dcm": 1,
     "nimblegen2adf.pl": 1,
@@ -17890,7 +17942,7 @@
     "normalize_multicov.pl": 1,
     "normalize_oneD.R": 1,
     "normalize_table.py": 1,
-    "normalizer": 474,
+    "normalizer": 477,
     "normandcorrectwrapper.sh": 1,
     "nose2": 1,
     "nose2-2.7": 1,
@@ -17908,7 +17960,7 @@
     "noveliso.py": 1,
     "novo2maq": 1,
     "novo2paf": 2,
-    "novo2sam.pl": 516,
+    "novo2sam.pl": 518,
     "novoBreak": 1,
     "novoalign": 2,
     "novoalign-license-register": 2,
@@ -17938,8 +17990,8 @@
     "nrex": 1,
     "nseg": 6,
     "nsenter": 8,
-    "nspr-config": 176,
-    "nss-config": 176,
+    "nspr-config": 177,
+    "nss-config": 177,
     "ntJoin": 2,
     "ntLink": 3,
     "ntLink_rounds": 3,
@@ -17991,11 +18043,11 @@
     "nullarbor.pl": 1,
     "nulltype_module.py": 1,
     "numCI": 4,
-    "numba": 141,
+    "numba": 145,
     "number-lines": 1,
     "numfmt": 84,
     "numlines": 1,
-    "numpy-config": 14,
+    "numpy-config": 19,
     "nunit-console": 10,
     "nunit-console2": 10,
     "nunit-console4": 10,
@@ -18231,13 +18283,13 @@
     "omero.bat": 3,
     "omfonts": 1,
     "omicsdi": 1,
-    "ompi-clean": 73,
+    "ompi-clean": 74,
     "ompi-dvm": 4,
     "ompi-ps": 4,
-    "ompi-server": 73,
+    "ompi-server": 74,
     "ompi-submit": 1,
     "ompi-top": 4,
-    "ompi_info": 73,
+    "ompi_info": 74,
     "omssa2pepXML": 1,
     "omssa_search.rb": 1,
     "omssacl": 1,
@@ -18247,7 +18299,7 @@
     "oncotator": 1,
     "one_field_per_line.py": 59,
     "onehot2seq": 1,
-    "onig-config": 303,
+    "onig-config": 307,
     "onnxruntime_test": 3,
     "ontime": 1,
     "ontocount": 25,
@@ -18265,7 +18317,7 @@
     "opal.py": 1,
     "opal_stats.py": 1,
     "opal_workflow.py": 1,
-    "opal_wrapper": 73,
+    "opal_wrapper": 74,
     "ope": 2,
     "open-shop": 2,
     "opencv_annotation": 5,
@@ -18278,11 +18330,11 @@
     "openslide-quickhash1sum": 2,
     "openslide-show-properties": 2,
     "openslide-write-png": 2,
-    "openssl": 7809,
+    "openssl": 7823,
     "opentargets_validator": 1,
-    "opj_compress": 651,
-    "opj_decompress": 651,
-    "opj_dump": 651,
+    "opj_compress": 657,
+    "opj_decompress": 657,
+    "opj_dump": 657,
     "opl2ofm": 1,
     "opsin": 1,
     "opt": 6,
@@ -18301,11 +18353,11 @@
     "orator": 1,
     "orbd": 117,
     "orc-bugreport": 14,
-    "orc-contents": 66,
-    "orc-memory": 61,
-    "orc-metadata": 66,
-    "orc-scan": 61,
-    "orc-statistics": 66,
+    "orc-contents": 69,
+    "orc-memory": 64,
+    "orc-metadata": 69,
+    "orc-scan": 64,
+    "orc-statistics": 69,
     "orca-server": 1,
     "orcc": 14,
     "order.smk": 1,
@@ -18319,16 +18371,16 @@
     "org.Mm.eg.db_3.5.0_R_x86_64-pc-linux-gnu.tar.gz": 1,
     "orientagraph": 1,
     "orsum.py": 1,
-    "orte-clean": 73,
+    "orte-clean": 74,
     "orte-dvm": 4,
-    "orte-info": 73,
+    "orte-info": 74,
     "orte-ps": 4,
-    "orte-server": 73,
+    "orte-server": 74,
     "orte-submit": 1,
     "orte-top": 4,
-    "ortecc": 73,
-    "orted": 73,
-    "orterun": 73,
+    "ortecc": 74,
+    "orted": 74,
+    "orterun": 74,
     "orthanq": 1,
     "ortho-latin": 2,
     "orthofinder": 4,
@@ -18375,7 +18427,7 @@
     "otu_filters.py": 1,
     "otu_filters_tpl.html": 1,
     "otu_to_tax_name.py": 1,
-    "out123": 31,
+    "out123": 32,
     "out2summary": 2,
     "out_to_chain.py": 59,
     "outocp": 1,
@@ -18461,9 +18513,9 @@
     "pKiss_subopt_window": 1,
     "pModel": 6,
     "pVst": 31,
-    "pa-info": 43,
+    "pa-info": 44,
     "pacBioToCA": 3,
-    "pacat": 43,
+    "pacat": 44,
     "pacbio-correct": 2,
     "pacbio-correct.3": 2,
     "pacbio-correct.3.0.0": 2,
@@ -18484,9 +18536,9 @@
     "packmol": 6,
     "packmol-memgen": 6,
     "pacmd": 25,
-    "pactl": 43,
+    "pactl": 44,
     "padaligner": 7,
-    "padsp": 43,
+    "padsp": 44,
     "paf2chain.awk": 1,
     "paf2gfa": 1,
     "paf2links.pl": 1,
@@ -18495,7 +18547,7 @@
     "paf_to_barplot.py": 1,
     "paf_to_dotplot.py": 1,
     "paf_to_heatmap.py": 1,
-    "paftools.js": 165,
+    "paftools.js": 166,
     "pager": 1,
     "painter.py": 20,
     "pair2tb": 1,
@@ -18522,7 +18574,7 @@
     "palindrome": 25,
     "paltohdf": 125,
     "pam": 1,
-    "pamon": 43,
+    "pamon": 44,
     "pamp": 69,
     "panISa.py": 1,
     "panX.py": 1,
@@ -18553,10 +18605,10 @@
     "pandaseq-diff": 1,
     "pandaseq-hang": 1,
     "pandaxs": 1,
-    "pandoc": 334,
+    "pandoc": 339,
     "pandoc-citeproc": 63,
-    "pandoc-lua": 9,
-    "pandoc-server": 37,
+    "pandoc-lua": 14,
+    "pandoc-server": 42,
     "pandora": 2,
     "panel": 2,
     "panfeed": 1,
@@ -18564,10 +18616,10 @@
     "panfeed-get-kmers": 1,
     "panfeed-plot": 1,
     "pangenome_variants_to_treeWAS.pl": 1,
-    "pango-list": 4013,
+    "pango-list": 4018,
     "pango-querymodules": 10,
-    "pango-segmentation": 2839,
-    "pango-view": 4816,
+    "pango-segmentation": 2844,
+    "pango-view": 4821,
     "pangoLEARN": 1,
     "pango_designation": 1,
     "pangolearn.smk": 1,
@@ -18596,13 +18648,13 @@
     "papaa_targene_summary_figures.R": 1,
     "papaa_visualize_decisions.py": 1,
     "papaa_within_disease_analysis.py": 1,
-    "paplay": 43,
+    "paplay": 44,
     "paplot": 1,
     "par.pl": 1,
     "paragone": 1,
     "paragraph": 1,
     "paragraph2dot.py": 1,
-    "parallel": 104,
+    "parallel": 105,
     "parallel-fasta": 11,
     "parallel-fastq": 11,
     "parallel-fastq-dump": 1,
@@ -18643,11 +18695,11 @@
     "paraphase": 1,
     "parascopy": 1,
     "paraview-config": 1,
-    "parcat": 103,
+    "parcat": 104,
     "parebrick": 1,
     "parebrick-charts": 1,
-    "parec": 43,
-    "parecord": 43,
+    "parec": 44,
+    "parecord": 44,
     "pargenes-hpc-debug.py": 1,
     "pargenes-hpc.py": 1,
     "pargenes.py": 1,
@@ -18695,13 +18747,13 @@
     "parse_typhi_mykrobe.py": 1,
     "parsec": 1,
     "parsecasm": 2,
-    "parset": 103,
+    "parset": 104,
     "parseval": 1,
     "parsimplify": 1,
     "parsing_functions.py": 1,
     "parsing_hmmscan": 1,
     "parsnp": 2,
-    "parsort": 87,
+    "parsort": 88,
     "partial_least_squares.py": 2,
     "partition": 7,
     "partition-graph.py": 7,
@@ -18719,7 +18771,7 @@
     "pass": 1,
     "paste": 84,
     "pasteseq": 25,
-    "pasteurize": 238,
+    "pasteurize": 240,
     "pastml": 1,
     "pastrami.py": 1,
     "pasty": 1,
@@ -18814,11 +18866,11 @@
     "pcoaPlot.py": 2,
     "pcor": 1,
     "pcre-config": 4947,
-    "pcre2-config": 3720,
+    "pcre2-config": 3727,
     "pcre2_jit_test": 3681,
-    "pcre2grep": 3720,
+    "pcre2grep": 3727,
     "pcre2posix_test": 113,
-    "pcre2test": 3720,
+    "pcre2test": 3727,
     "pcregrep": 4947,
     "pcretest": 4947,
     "pct2rgb.py": 5,
@@ -19018,7 +19070,7 @@
     "perf": 1,
     "perfect-square": 2,
     "perform_controls.pl": 1,
-    "perl": 1706,
+    "perl": 1711,
     "perl-doc": 2,
     "perl-reversion": 9,
     "perl5.22.0": 55,
@@ -19026,12 +19078,12 @@
     "perl5.26.2": 369,
     "perl5.30.3": 5,
     "perl5.32.0": 64,
-    "perl5.32.1": 1213,
-    "perlbug": 1706,
-    "perldoc": 1706,
-    "perlivp": 1706,
+    "perl5.32.1": 1218,
+    "perlbug": 1711,
+    "perldoc": 1711,
+    "perlivp": 1711,
     "perltex": 1,
-    "perlthanks": 1706,
+    "perlthanks": 1711,
     "permuteGPAT++": 31,
     "permuteSmooth": 31,
     "permute_structure.pl": 1,
@@ -19067,7 +19119,7 @@
     "pg_build_idx": 1,
     "pg_build_sdb": 1,
     "pg_checksums": 41,
-    "pg_config": 145,
+    "pg_config": 146,
     "pg_controldata": 47,
     "pg_ctl": 47,
     "pg_dedup": 1,
@@ -19355,7 +19407,7 @@
     "phytime": 5,
     "pia": 1,
     "pic2tpic": 2,
-    "picard": 22,
+    "picard": 23,
     "picard.jar": 1,
     "pickBestPair": 3,
     "pickBestPolish": 3,
@@ -19374,7 +19426,7 @@
     "pickle_cat.py": 1,
     "pickorientation.awk": 1,
     "pickout": 1,
-    "piconv": 1706,
+    "piconv": 1711,
     "picopore": 1,
     "picopore-realtime": 1,
     "picopore-rename": 1,
@@ -19413,10 +19465,10 @@
     "pints_caller": 1,
     "pints_normalizer": 1,
     "pints_visualizer": 1,
-    "pip": 3696,
+    "pip": 3710,
     "pip2": 1,
     "pip2.7": 1,
-    "pip3": 2621,
+    "pip3": 2635,
     "pipdeptree": 1,
     "pipelign": 1,
     "pipeline.py": 2,
@@ -19447,7 +19499,7 @@
     "pispino_seqprep": 2,
     "pivotCSV.py": 1,
     "pixelator": 1,
-    "pixeltool": 249,
+    "pixeltool": 250,
     "pixeltool-qt4": 3,
     "pixeltool6": 1,
     "pizzly": 1,
@@ -19455,7 +19507,7 @@
     "pizzly_flatten_json.py.bak": 1,
     "pizzly_get_fragment_length.py": 1,
     "pizzly_get_fragment_length.py.bak": 1,
-    "pk12util": 176,
+    "pk12util": 177,
     "pk_al": 1,
     "pk_alignment_length": 1,
     "pk_alignment_length_no_gaps": 1,
@@ -19569,15 +19621,15 @@
     "pkfix-helper": 1,
     "pkg-config": 76,
     "pkg-config.bin": 76,
-    "pkgdata": 5850,
+    "pkgdata": 5862,
     "pkginfo": 10,
     "pkill": 1,
     "pktogf": 1,
     "pktype": 1,
     "pl2bat.pl": 6,
-    "pl2pm": 1706,
+    "pl2pm": 1711,
     "plaScope.sh": 1,
-    "plac_runner.py": 62,
+    "plac_runner.py": 63,
     "place_orient1.smk": 1,
     "place_orient2.smk": 1,
     "place_orient3.smk": 1,
@@ -19610,15 +19662,15 @@
     "plip": 1,
     "plncpro": 1,
     "plncpro_format_ff.sh": 1,
-    "plot-ampliconstats": 320,
-    "plot-bamstats": 515,
+    "plot-ampliconstats": 322,
+    "plot-bamstats": 517,
     "plot-bmprobs": 4,
     "plot-cnv": 1,
     "plot-insert-size-distribution": 2,
     "plot-read-length-distribution": 1,
-    "plot-roh.py": 156,
+    "plot-roh.py": 157,
     "plot-tin.py": 1,
-    "plot-vcfstats": 167,
+    "plot-vcfstats": 168,
     "plot.R": 1,
     "plot.pl": 1,
     "plot.py": 2,
@@ -19666,6 +19718,7 @@
     "plot_genomic_kmers.r.bak": 1,
     "plot_gffcmp_stats.py": 1,
     "plot_go_term.py": 10,
+    "plot_gubbins.R": 1,
     "plot_heatmaps.r": 1,
     "plot_histogram.r": 1,
     "plot_histogram.r.bak": 1,
@@ -19769,21 +19822,21 @@
     "pmxmutate": 1,
     "pn2pdf": 1,
     "pneumo-typer": 1,
-    "png-fix-itxt": 5892,
+    "png-fix-itxt": 5903,
     "pngcp": 89,
-    "pngfix": 5892,
+    "pngfix": 5903,
     "pngtogd": 237,
     "pngtogd2": 237,
     "pnps-gen": 1,
     "poa": 21,
     "pocheck": 1,
     "poclcc": 3,
-    "pod2html": 1706,
-    "pod2man": 1706,
-    "pod2text": 1706,
-    "pod2usage": 1706,
+    "pod2html": 1711,
+    "pod2man": 1711,
+    "pod2text": 1711,
+    "pod2usage": 1711,
     "pod_cover": 12,
-    "podchecker": 1706,
+    "podchecker": 1711,
     "podselect": 438,
     "poetry": 6,
     "pointwise_datasets_concatenator.py": 1,
@@ -20091,13 +20144,13 @@
     "prody": 3,
     "prody_anm": 1,
     "prof2class": 1,
-    "profile2mat.pl": 72,
+    "profile2mat.pl": 73,
     "profile2seq.pl": 5,
     "profileCLs.py": 1,
     "profileGottcha.pl": 1,
     "profile_dists": 2,
     "profit": 25,
-    "progressbar": 2,
+    "progressbar": 4,
     "progressiveMauve": 7,
     "progressiveMauveStatic": 4,
     "proj": 44,
@@ -20214,7 +20267,7 @@
     "protmapper": 1,
     "protobuf-net.dll": 2,
     "protobuf-net.xml": 2,
-    "protoc": 263,
+    "protoc": 269,
     "protoc-23.1.0": 1,
     "protoc-23.3.0": 4,
     "protoc-23.4.0": 6,
@@ -20222,7 +20275,7 @@
     "protoc-24.4.0": 20,
     "protoc-25.1.0": 5,
     "protoc-25.2.0": 2,
-    "protoc-25.3.0": 13,
+    "protoc-25.3.0": 18,
     "protoc-gen-grpclib_python": 1,
     "protoc-gen-mypy": 1,
     "protoc-gen-mypy_grpc": 1,
@@ -20250,7 +20303,7 @@
     "protxml_to_table.rb": 1,
     "prov-compare": 9,
     "prov-convert": 9,
-    "prove": 1706,
+    "prove": 1711,
     "provean": 1,
     "provean.sh": 1,
     "provis": 1,
@@ -20297,7 +20350,7 @@
     "psiblast": 337,
     "psiblast_iteration_unit_test": 5,
     "psiblast_unit_test": 5,
-    "psicc": 1001,
+    "psicc": 1007,
     "psiclass": 1,
     "psiphi": 25,
     "psirc": 1,
@@ -20310,7 +20363,7 @@
     "psl2bed-float128": 14,
     "psl2bed-megarow": 14,
     "psl2bed-typical": 14,
-    "psl2sam.pl": 515,
+    "psl2sam.pl": 517,
     "psl2starch": 14,
     "psl2starch-float128": 14,
     "psl2starch-megarow": 14,
@@ -20333,8 +20386,8 @@
     "psl_to_sequence": 1,
     "pslatex": 1,
     "pslivar": 1,
-    "psm-utils": 2,
-    "psm_utils": 3,
+    "psm-utils": 3,
+    "psm_utils": 4,
     "psmc": 1,
     "psmc2history.pl": 1,
     "psmc_plot.pl": 1,
@@ -20355,9 +20408,9 @@
     "pt2to3": 75,
     "ptGAUL.sh": 1,
     "ptangle": 1,
-    "ptar": 1706,
-    "ptardiff": 1706,
-    "ptargrep": 1706,
+    "ptar": 1711,
+    "ptardiff": 1711,
+    "ptargrep": 1711,
     "ptdump": 75,
     "ptest": 1,
     "ptex": 1,
@@ -20380,7 +20433,7 @@
     "pull_database.py": 1,
     "pullseq": 2,
     "pulpdoctest": 2,
-    "pulptest": 90,
+    "pulptest": 91,
     "pulseaudio": 25,
     "puncsamfile.sh": 1,
     "pureclip": 1,
@@ -20464,7 +20517,7 @@
     "pxvcf2fa": 1,
     "py": 1,
     "py-spy": 7,
-    "py.test": 144,
+    "py.test": 146,
     "py.test-3.5": 2,
     "py.test-benchmark": 1,
     "py2": 1,
@@ -20536,17 +20589,17 @@
     "pydemult": 1,
     "pydicom": 1,
     "pydna_repeatfinder": 1,
-    "pydoc": 3695,
-    "pydoc3": 3364,
-    "pydoc3.10": 818,
-    "pydoc3.11": 269,
-    "pydoc3.12": 215,
+    "pydoc": 3709,
+    "pydoc3": 3378,
+    "pydoc3.10": 819,
+    "pydoc3.11": 270,
+    "pydoc3.12": 226,
     "pydoc3.4": 6,
     "pydoc3.5": 103,
     "pydoc3.6": 342,
     "pydoc3.7": 383,
     "pydoc3.8": 577,
-    "pydoc3.9": 651,
+    "pydoc3.9": 652,
     "pydownsampler": 1,
     "pyega3": 1,
     "pyemojify": 1,
@@ -20561,13 +20614,13 @@
     "pyflyte-execute": 1,
     "pyflyte-fast-execute": 1,
     "pyflyte-map-execute": 1,
-    "pyftmerge": 402,
-    "pyftsubset": 402,
+    "pyftmerge": 408,
+    "pyftsubset": 408,
     "pygal_gen.py": 2,
     "pygcap": 1,
     "pygenetic_code": 1,
     "pygmentex": 1,
-    "pygmentize": 251,
+    "pygmentize": 253,
     "pygmes": 1,
     "pygrun": 1,
     "pygtail": 2,
@@ -20587,7 +20640,7 @@
     "pylint-config": 6,
     "pylprotpredictor": 1,
     "pylupdate4": 8,
-    "pylupdate5": 214,
+    "pylupdate5": 215,
     "pymdpbsa": 6,
     "pymlst": 1,
     "pymsaviz": 1,
@@ -20619,7 +20672,7 @@
     "pyqi": 7,
     "pyrad": 1,
     "pyrcc4": 8,
-    "pyrcc5": 214,
+    "pyrcc5": 215,
     "pyreverse": 11,
     "pyro4-check-config": 2,
     "pyro4-flameserver": 2,
@@ -20635,14 +20688,14 @@
     "pyrovelocity": 1,
     "pyrpipe": 1,
     "pyrpipe_diagnostic": 1,
-    "pyrsa-decrypt": 154,
+    "pyrsa-decrypt": 156,
     "pyrsa-decrypt-bigfile": 12,
-    "pyrsa-encrypt": 154,
+    "pyrsa-encrypt": 156,
     "pyrsa-encrypt-bigfile": 12,
-    "pyrsa-keygen": 154,
-    "pyrsa-priv2pub": 154,
-    "pyrsa-sign": 154,
-    "pyrsa-verify": 154,
+    "pyrsa-keygen": 156,
+    "pyrsa-priv2pub": 156,
+    "pyrsa-sign": 156,
+    "pyrsa-verify": 156,
     "pysamstats": 4,
     "pyscss": 3,
     "pyseer": 1,
@@ -20663,11 +20716,11 @@
     "pystache": 1,
     "pystache-test": 1,
     "pytensor-cache": 1,
-    "pytest": 144,
+    "pytest": 146,
     "pytest-benchmark": 1,
     "pythia8-config": 1,
-    "python": 3696,
-    "python-argcomplete-check-easy-install-script": 340,
+    "python": 3710,
+    "python-argcomplete-check-easy-install-script": 344,
     "python-argcomplete-tcsh": 191,
     "python-build": 2,
     "python-config": 332,
@@ -20677,15 +20730,15 @@
     "python2.5-config": 1,
     "python2.7": 331,
     "python2.7-config": 314,
-    "python3": 3365,
-    "python3-config": 3364,
-    "python3.1": 1302,
-    "python3.10": 818,
-    "python3.10-config": 818,
-    "python3.11": 269,
-    "python3.11-config": 269,
-    "python3.12": 215,
-    "python3.12-config": 215,
+    "python3": 3379,
+    "python3-config": 3378,
+    "python3.1": 1315,
+    "python3.10": 819,
+    "python3.10-config": 819,
+    "python3.11": 270,
+    "python3.11-config": 270,
+    "python3.12": 226,
+    "python3.12-config": 226,
     "python3.4": 6,
     "python3.4-config": 6,
     "python3.4m": 6,
@@ -20704,8 +20757,8 @@
     "python3.7m-config": 383,
     "python3.8": 577,
     "python3.8-config": 577,
-    "python3.9": 651,
-    "python3.9-config": 651,
+    "python3.9": 652,
+    "python3.9-config": 652,
     "pythonsh": 2,
     "pythontex": 1,
     "pytleap": 6,
@@ -20713,7 +20766,7 @@
     "pytrf": 1,
     "pytximport": 1,
     "pyuic4": 8,
-    "pyuic5": 214,
+    "pyuic5": 215,
     "pyutilib_test_driver": 3,
     "pyvenv": 834,
     "pyvenv-3.4": 6,
@@ -20739,69 +20792,69 @@
     "qcat-roc": 2,
     "qcli_make_rst": 3,
     "qcli_make_script": 3,
-    "qcollectiongenerator": 249,
+    "qcollectiongenerator": 250,
     "qcollectiongenerator-qt4": 3,
-    "qconvex": 8,
+    "qconvex": 14,
     "qcp": 2,
     "qcreporter.py": 1,
     "qcs": 2,
     "qd-config": 3,
-    "qdbus": 247,
+    "qdbus": 248,
     "qdbus-qt4": 3,
     "qdbus6": 1,
-    "qdbuscpp2xml": 247,
+    "qdbuscpp2xml": 248,
     "qdbuscpp2xml-qt4": 3,
-    "qdbusviewer": 247,
+    "qdbusviewer": 248,
     "qdbusviewer-qt4": 3,
     "qdbusviewer6": 1,
-    "qdbusxml2cpp": 247,
+    "qdbusxml2cpp": 248,
     "qdbusxml2cpp-qt4": 3,
-    "qdelaunay": 8,
-    "qdistancefieldgenerator": 133,
+    "qdelaunay": 14,
+    "qdistancefieldgenerator": 134,
     "qdistancefieldgenerator6": 1,
-    "qdoc": 222,
+    "qdoc": 223,
     "qdoc3": 9,
     "qdoc3-qt4": 3,
     "qdoc6": 1,
     "qfilt": 1,
     "qfy.py": 1,
-    "qgltf": 181,
+    "qgltf": 182,
     "qgrs": 1,
-    "qhalf": 8,
+    "qhalf": 14,
     "qhelpconverter": 116,
     "qhelpconverter-qt4": 3,
-    "qhelpgenerator": 249,
+    "qhelpgenerator": 250,
     "qhelpgenerator-qt4": 3,
     "qhery": 1,
-    "qhull": 8,
+    "qhull": 14,
     "qiime2lefse.py": 1,
     "qiimeToMaaslin.py": 1,
     "qiskit-xyz2pdb": 1,
-    "qlalr": 240,
-    "qmake": 249,
+    "qlalr": 241,
+    "qmake": 250,
     "qmake-qt4": 3,
     "qmake6": 1,
     "qmer-filter": 2,
-    "qml": 240,
+    "qml": 241,
     "qml6": 1,
-    "qmlcachegen": 181,
-    "qmleasing": 240,
+    "qmlcachegen": 182,
+    "qmleasing": 241,
     "qmleasing6": 1,
-    "qmlformat": 42,
-    "qmlimportscanner": 240,
-    "qmllint": 240,
+    "qmlformat": 43,
+    "qmlimportscanner": 241,
+    "qmllint": 241,
     "qmlls6": 1,
-    "qmlmin": 240,
-    "qmlplugindump": 249,
+    "qmlmin": 241,
+    "qmlplugindump": 250,
     "qmlplugindump-qt4": 3,
-    "qmlpreview": 133,
+    "qmlpreview": 134,
     "qmlpreview6": 1,
-    "qmlprofiler": 240,
-    "qmlscene": 240,
+    "qmlprofiler": 241,
+    "qmlscene": 241,
     "qmlscene6": 1,
-    "qmltestrunner": 240,
-    "qmltime": 42,
-    "qmltyperegistrar": 42,
+    "qmltestrunner": 241,
+    "qmltime": 43,
+    "qmltyperegistrar": 43,
     "qmlviewer": 9,
     "qmlviewer-qt4": 3,
     "qnorm": 5,
@@ -20825,27 +20878,27 @@
     "qpreroot": 1,
     "qs": 2,
     "qscores_from_summary": 1,
-    "qscxmlc": 181,
+    "qscxmlc": 182,
     "qseq2fasta.pl": 3,
     "qseq2fasta.pl.bak": 1,
     "qseq2fastq.pl": 8,
     "qseq2fastq.pl.bak": 1,
     "qsignature": 1,
-    "qt.conf": 251,
+    "qt.conf": 252,
     "qt3to4": 9,
     "qt3to4-qt4": 3,
     "qt6.conf": 1,
-    "qtattributionsscanner": 181,
+    "qtattributionsscanner": 182,
     "qtconfig": 9,
     "qtconfig-qt4": 3,
-    "qtdiag": 240,
+    "qtdiag": 241,
     "qtdiag6": 1,
     "qtip": 1,
     "qtlplot": 1,
     "qtlseq": 1,
     "qtofpeakpicker": 1,
-    "qtpaths": 240,
-    "qtplugininfo": 240,
+    "qtpaths": 241,
+    "qtplugininfo": 241,
     "qtplugininfo6": 1,
     "qtpy": 6,
     "qttracereplay": 9,
@@ -20856,7 +20909,7 @@
     "qual-recalib-stat.3.0.0": 2,
     "qual_offset.py": 2,
     "qual_trim.py": 2,
-    "qualfa2fq.pl": 157,
+    "qualfa2fq.pl": 158,
     "qualimap": 3,
     "qualitativeEvaluation.py": 1,
     "qualityScores": 5,
@@ -20913,8 +20966,8 @@
     "qvina2_split": 1,
     "qvinaw": 1,
     "qvinaw_split": 1,
-    "qvkgen": 133,
-    "qvoronoi": 8,
+    "qvkgen": 134,
+    "qvoronoi": 14,
     "qwebengine_convert_dict": 139,
     "r-seurat-scripts-post-install-tests.bats": 2,
     "r-seurat-scripts-post-install-tests.sh": 2,
@@ -21013,7 +21066,7 @@
     "rapidVis.sh": 1,
     "rapid_ParseSam.pl": 1,
     "rapid_ToFasta.pl": 1,
-    "rapidnj": 5,
+    "rapidnj": 6,
     "rapifilt": 2,
     "rapmap": 1,
     "rappas": 1,
@@ -21031,15 +21084,15 @@
     "raw_vcf_parse.py": 1,
     "rawtools.sh": 1,
     "raxml": 7,
-    "raxml-ng": 10,
-    "raxml-ng-mpi": 10,
+    "raxml-ng": 11,
+    "raxml-ng-mpi": 11,
     "raxml.yaml": 1,
-    "raxmlHPC": 30,
-    "raxmlHPC-AVX2": 30,
-    "raxmlHPC-PTHREADS": 30,
-    "raxmlHPC-PTHREADS-AVX2": 30,
-    "raxmlHPC-PTHREADS-SSE3": 30,
-    "raxmlHPC-SSE3": 30,
+    "raxmlHPC": 31,
+    "raxmlHPC-AVX2": 31,
+    "raxmlHPC-PTHREADS": 31,
+    "raxmlHPC-PTHREADS-AVX2": 31,
+    "raxmlHPC-PTHREADS-SSE3": 31,
+    "raxmlHPC-SSE3": 31,
     "raxmlp": 7,
     "ray": 6,
     "ray-slurm-metacerberus.sh": 2,
@@ -21053,14 +21106,14 @@
     "rbhtfinder": 1,
     "rblist": 2,
     "rbmoegrid": 2,
-    "rbox": 8,
+    "rbox": 14,
     "rbpbench": 1,
     "rbrms": 1,
     "rbs": 9,
     "rbt": 1,
     "rc_gnu.py": 1,
     "rc_s.py": 1,
-    "rcc": 249,
+    "rcc": 250,
     "rcc-qt4": 3,
     "rcexplain": 22,
     "rcexplain.2": 18,
@@ -21086,12 +21139,13 @@
     "rcldo.pl": 1,
     "rcopy": 24,
     "rcorrector": 2,
+    "rcx_tk": 1,
     "rdbg": 9,
     "rdf2dot": 33,
     "rdfgraphisomorphism": 33,
     "rdfpipe": 33,
     "rdfs2dot": 33,
-    "rdjpgcom": 5775,
+    "rdjpgcom": 5786,
     "rdkit2fps": 1,
     "rdma_client": 24,
     "rdma_server": 24,
@@ -21189,7 +21243,7 @@
     "recgraph": 1,
     "reciprocal_blast_local": 1,
     "reciprocal_blast_local.py": 1,
-    "recode-sr-latin": 5295,
+    "recode-sr-latin": 5297,
     "recode_dir": 1,
     "recode_dir_legacy": 1,
     "recoder": 25,
@@ -21276,7 +21330,7 @@
     "refseqget": 25,
     "refseqsplit.py": 2,
     "regenie": 1,
-    "register-python-argcomplete": 340,
+    "register-python-argcomplete": 344,
     "regression_neural_network": 1,
     "regression_predict": 1,
     "regtools": 1,
@@ -21495,7 +21549,7 @@
     "repair_run_summary.rb": 1,
     "repaq": 1,
     "reparation.pl": 1,
-    "repc": 181,
+    "repc": 182,
     "repeat-match": 57,
     "repeatoire": 4,
     "repfind.pl": 3,
@@ -21551,7 +21605,7 @@
     "rescue_fusion.py": 1,
     "reseq": 1,
     "reseq-prepare-names.py": 1,
-    "reset": 7740,
+    "reset": 7755,
     "resetFragLibrary": 2,
     "reset_array.pl": 1,
     "reset_experiment.pl": 1,
@@ -21695,7 +21749,7 @@
     "rmdir": 84,
     "rmic": 421,
     "rmid": 421,
-    "rmiregistry": 540,
+    "rmiregistry": 542,
     "rmkdepend": 1,
     "rmlst-api": 1,
     "rmsk2bed": 14,
@@ -21864,26 +21918,26 @@
     "rsidx": 1,
     "rsq": 1,
     "rsrq": 1,
-    "rst2html": 5,
+    "rst2html": 6,
     "rst2html.py": 185,
-    "rst2html4": 5,
+    "rst2html4": 6,
     "rst2html4.py": 177,
-    "rst2html5": 5,
+    "rst2html5": 6,
     "rst2html5.py": 182,
-    "rst2latex": 5,
+    "rst2latex": 6,
     "rst2latex.py": 185,
-    "rst2man": 5,
+    "rst2man": 6,
     "rst2man.py": 185,
-    "rst2odt": 5,
+    "rst2odt": 6,
     "rst2odt.py": 185,
     "rst2odt_prepstyles.py": 185,
-    "rst2pseudoxml": 5,
+    "rst2pseudoxml": 6,
     "rst2pseudoxml.py": 185,
-    "rst2s5": 5,
+    "rst2s5": 6,
     "rst2s5.py": 185,
-    "rst2xetex": 5,
+    "rst2xetex": 6,
     "rst2xetex.py": 185,
-    "rst2xml": 5,
+    "rst2xml": 6,
     "rst2xml.py": 185,
     "rstpep2html.py": 185,
     "rstream": 24,
@@ -21920,7 +21974,7 @@
     "run-ncbi-converter": 302,
     "run-ncbi-converter.bak": 1,
     "run-ntedit": 1,
-    "run-roh.pl": 156,
+    "run-roh.pl": 157,
     "run-rpbp-pipeline": 2,
     "run-sepp.sh": 4,
     "run-signalp": 3,
@@ -22051,7 +22105,7 @@
     "run_genotype_build.sh": 2,
     "run_graphdr.py": 1,
     "run_greedy.csh": 3,
-    "run_gubbins.py": 5,
+    "run_gubbins.py": 6,
     "run_gx.py": 1,
     "run_hiddenDomains.R": 1,
     "run_hiddenDomains_no_control.R": 1,
@@ -22253,7 +22307,7 @@
     "sam2starch-float128": 14,
     "sam2starch-megarow": 14,
     "sam2starch-typical": 14,
-    "sam2vcf.pl": 515,
+    "sam2vcf.pl": 517,
     "samFLAGinfo.pl": 1,
     "samFilter": 1,
     "samMap.pl": 14,
@@ -22313,8 +22367,8 @@
     "samtoh5": 1,
     "samtom4": 1,
     "samtom5_dir": 1,
-    "samtools": 540,
-    "samtools.pl": 515,
+    "samtools": 542,
+    "samtools.pl": 517,
     "samtools_0.1.18": 3,
     "samtools_mpileup_to_var": 1,
     "samtoroc.sh": 30,
@@ -22360,7 +22414,7 @@
     "savana-validation": 1,
     "save_dist_dicts.py": 2,
     "save_model.py": 1,
-    "saved_model_cli": 78,
+    "saved_model_cli": 79,
     "sawriter": 2,
     "saxs_md": 6,
     "saxs_rism": 6,
@@ -22436,7 +22490,7 @@
     "scancel-range": 1,
     "scancel_range.py": 1,
     "scandeps.pl": 2,
-    "scanpy": 44,
+    "scanpy": 45,
     "scanpy-cli": 1,
     "scanpy-filter-cells": 1,
     "scanpy-filter-genes": 1,
@@ -22508,7 +22562,7 @@
     "scitokens-test": 1,
     "scitokens-test-access": 1,
     "scitokens-verify": 1,
-    "sclient": 5822,
+    "sclient": 5833,
     "sclust_summary.sh": 1,
     "scluster": 3,
     "scmap-cli-post-install-tests.bats": 1,
@@ -22615,7 +22669,7 @@
     "sdsort": 2,
     "sdsplit": 2,
     "sdtether": 2,
-    "sdust": 152,
+    "sdust": 153,
     "sea": 2,
     "seagen": 3,
     "seal.sh": 30,
@@ -22634,7 +22688,7 @@
     "secondary2split.py": 1,
     "sectosupp": 1,
     "secutil": 15,
-    "sed": 3938,
+    "sed": 3944,
     "seealso": 25,
     "seedRand.py": 1,
     "seedme": 1,
@@ -22707,7 +22761,7 @@
     "selene_sdk": 1,
     "selenium-manager": 1,
     "selscan": 1,
-    "sem": 103,
+    "sem": 104,
     "send2trash": 21,
     "sendsketch.sh": 30,
     "senergy": 6,
@@ -22732,7 +22786,7 @@
     "seq2onehot": 1,
     "seq2profile.pl": 5,
     "seq2science": 2,
-    "seq_cache_populate.pl": 515,
+    "seq_cache_populate.pl": 517,
     "seq_count": 2,
     "seq_diff": 1,
     "seq_download.py": 2,
@@ -22756,7 +22810,7 @@
     "seqidtype": 1,
     "seqinfosrc_unit_test": 5,
     "seqio.py": 1,
-    "seqkit": 30,
+    "seqkit": 31,
     "seqmagick": 2,
     "seqmap": 2,
     "seqmatchall": 25,
@@ -22805,7 +22859,7 @@
     "seqxref": 25,
     "seqxrefget": 25,
     "seqyclean": 1,
-    "serialver": 540,
+    "serialver": 542,
     "seroba": 1,
     "serotypefinder": 1,
     "servertell": 25,
@@ -22817,7 +22871,7 @@
     "set_source_column.py": 2,
     "setarch": 13,
     "setcover": 1,
-    "setfattr": 43,
+    "setfattr": 44,
     "setpythonpath.bat": 3,
     "setreg": 15,
     "setsid": 13,
@@ -22933,7 +22987,7 @@
     "sharq.3": 2,
     "sharq.3.0.0": 2,
     "shasta": 1,
-    "shasum": 1706,
+    "shasum": 1711,
     "shed-tools": 2,
     "shell_utils.py": 1,
     "shiboken2": 2,
@@ -23028,7 +23082,7 @@
     "sim-cover2": 2,
     "sim-shotgun": 2,
     "sim4db": 3,
-    "sim_client": 5822,
+    "sim_client": 5833,
     "sim_reads": 10,
     "sim_reads.o": 10,
     "sim_reads_tran": 10,
@@ -23104,12 +23158,12 @@
     "singularity": 4,
     "sinto": 1,
     "sip": 183,
-    "sip-build": 39,
-    "sip-distinfo": 39,
-    "sip-install": 39,
-    "sip-module": 39,
-    "sip-sdist": 39,
-    "sip-wheel": 39,
+    "sip-build": 40,
+    "sip-distinfo": 40,
+    "sip-install": 40,
+    "sip-module": 40,
+    "sip-sdist": 40,
+    "sip-wheel": 40,
     "sir_graph": 1,
     "sirius": 2,
     "sirius-gui": 2,
@@ -23131,7 +23185,7 @@
     "sj_visualizer.pl": 1,
     "skDER.py": 1,
     "skDERcore": 1,
-    "ska": 3,
+    "ska": 4,
     "skani": 4,
     "skc": 1,
     "skera": 1,
@@ -23247,25 +23301,25 @@
     "snakedeploy": 1,
     "snakefmt": 1,
     "snakelines": 1,
-    "snakemake": 105,
-    "snakemake-bash-completion": 104,
+    "snakemake": 106,
+    "snakemake-bash-completion": 105,
     "snakemake_util.py": 2,
     "snakeparse": 1,
     "snakeviz": 1,
     "snap": 2,
     "snap-aligner": 2,
     "snaptools": 1,
-    "sndfile-cmp": 46,
-    "sndfile-concat": 46,
-    "sndfile-convert": 46,
-    "sndfile-deinterleave": 46,
-    "sndfile-info": 46,
-    "sndfile-interleave": 46,
-    "sndfile-metadata-get": 46,
-    "sndfile-metadata-set": 46,
-    "sndfile-play": 46,
+    "sndfile-cmp": 47,
+    "sndfile-concat": 47,
+    "sndfile-convert": 47,
+    "sndfile-deinterleave": 47,
+    "sndfile-info": 47,
+    "sndfile-interleave": 47,
+    "sndfile-metadata-get": 47,
+    "sndfile-metadata-set": 47,
+    "sndfile-play": 47,
     "sndfile-regtest": 1,
-    "sndfile-salvage": 46,
+    "sndfile-salvage": 47,
     "sniffles": 2,
     "sniffles-debug": 1,
     "sniffles_dir": 1,
@@ -23289,7 +23343,7 @@
     "snoscanA": 2,
     "snoscanH": 2,
     "snoscanY": 2,
-    "snp-dists": 3,
+    "snp-dists": 4,
     "snp-pileup": 2,
     "snp-pileup-quickbam": 1,
     "snp-sites": 13,
@@ -23319,7 +23373,7 @@
     "snver-pool": 1,
     "soap": 2,
     "soap.coverage": 2,
-    "soap2sam.pl": 515,
+    "soap2sam.pl": 517,
     "soapcpp2": 1,
     "soapsplice": 1,
     "soapsuds": 15,
@@ -23468,7 +23522,7 @@
     "sphinx-quickstart": 40,
     "spine.pl": 1,
     "spinner.py": 1,
-    "splain": 1706,
+    "splain": 1711,
     "splash": 1,
     "splice_site_summary.pl": 1,
     "spliceai": 1,
@@ -23578,6 +23632,7 @@
     "splitsam6way.sh": 30,
     "splitsource": 25,
     "splitter": 25,
+    "splitubam": 1,
     "spm_decode": 1,
     "spm_encode": 1,
     "spm_export_vocab": 1,
@@ -23602,11 +23657,11 @@
     "sqStoreDumpMetaData": 6,
     "sqfscat": 2,
     "sqfstar": 2,
-    "sql": 103,
+    "sql": 104,
     "sqlformat": 9,
     "sqlite.pl": 1,
     "sqlite3": 2714,
-    "sqlite3_analyzer": 7141,
+    "sqlite3_analyzer": 7155,
     "sqlitebrowser": 1,
     "sqlmetal": 15,
     "sqlsharp": 15,
@@ -23914,7 +23969,7 @@
     "stochastic": 5,
     "stochastic-smp": 5,
     "stock2ali.pl": 1,
-    "stone": 45,
+    "stone": 46,
     "storescp": 1,
     "storescu": 1,
     "str8rzr": 1,
@@ -23943,7 +23998,7 @@
     "streamlit": 6,
     "streamlit.cmd": 6,
     "streamsam.sh": 30,
-    "streamzip": 1277,
+    "streamzip": 1282,
     "streme": 6,
     "streme_xml_to_html": 6,
     "stress-ng": 1,
@@ -23983,9 +24038,9 @@
     "strudel": 1,
     "stssearch": 25,
     "stty": 84,
-    "stubgen": 2,
+    "stubgen": 3,
     "stubmaker.pl": 57,
-    "stubtest": 2,
+    "stubtest": 3,
     "sty2dtx": 1,
     "sub_then_run_mtgrasp.sh": 1,
     "subcontig": 1,
@@ -24028,7 +24083,8 @@
     "sum_prob.py": 1,
     "sumaclust": 3,
     "sumatra": 1,
-    "sumlabels.py": 65,
+    "sumlabels": 1,
+    "sumlabels.py": 66,
     "summ_domain_ident.pl": 7,
     "summarize": 1,
     "summarize-ancestors": 1,
@@ -24068,7 +24124,8 @@
     "summarydepth_dir": 1,
     "summation.pl": 2,
     "summits.py": 1,
-    "sumtrees.py": 67,
+    "sumtrees": 1,
+    "sumtrees.py": 68,
     "superScaffoldGenerator.pl": 1,
     "super_distance": 1,
     "superfocus": 1,
@@ -24175,7 +24232,7 @@
     "sync_files.py": 1,
     "sync_reads": 1,
     "synchain-mugsy": 1,
-    "syncqt.pl": 240,
+    "syncqt.pl": 241,
     "synctex": 1,
     "syngap": 1,
     "synteny_block.py": 1,
@@ -24203,7 +24260,7 @@
     "tab2krona.py": 1,
     "tab2mapper.pl": 1,
     "tab2ovls": 2,
-    "tabix": 711,
+    "tabix": 714,
     "tabix++": 23,
     "table2asn": 3,
     "table_add_column.py": 59,
@@ -24212,8 +24269,8 @@
     "tableproxy64": 1,
     "tableschema": 1,
     "tablet": 1,
-    "tabs": 7740,
-    "tabulate": 130,
+    "tabs": 7755,
+    "tabulate": 132,
     "tabulate.py": 1,
     "tabulator": 1,
     "tabutils": 1,
@@ -24317,6 +24374,11 @@
     "targetfinder_threads.pl": 1,
     "targetscan_70.pl": 1,
     "targqc": 1,
+    "taseq": 1,
+    "taseq_draw": 1,
+    "taseq_filter": 1,
+    "taseq_genotype": 1,
+    "taseq_hapcall": 1,
     "taskadmin": 29,
     "taskset": 13,
     "tatajuba": 1,
@@ -24381,13 +24443,14 @@
     "tbvcfreport": 1,
     "tcdemux": 1,
     "tcfinder": 1,
-    "tclsh": 7378,
+    "tclsh": 7392,
     "tclsh8.5": 473,
-    "tclsh8.6": 7141,
+    "tclsh8.6": 7155,
     "tcode": 25,
     "tcsh": 3,
     "td_bignet": 2,
     "tdlmedian": 1,
+    "tdmwrapper": 1,
     "teLeap": 6,
     "tease_maker_apart.py": 1,
     "teckit_compile": 1,
@@ -24404,7 +24467,7 @@
     "template_for_cfg": 4,
     "template_for_qsub": 4,
     "temporal_signal.py": 1,
-    "tensorboard": 88,
+    "tensorboard": 89,
     "tepid-discover": 1,
     "tepid-map": 1,
     "tepid-map-se": 1,
@@ -24530,14 +24593,14 @@
     "textsearch": 25,
     "tf_intersect": 1,
     "tf_result_explanations": 1,
-    "tf_upgrade_v2": 70,
+    "tf_upgrade_v2": 71,
     "tfastf36": 7,
     "tfastm36": 7,
     "tfasts36": 7,
     "tfastx36": 7,
     "tfasty36": 7,
     "tfextract": 25,
-    "tflite_convert": 77,
+    "tflite_convert": 78,
     "tfloc_summary.py": 59,
     "tfm": 25,
     "tfr_bw.py": 1,
@@ -24581,7 +24644,7 @@
     "thumbpdf": 1,
     "tiara": 2,
     "tiara-test": 2,
-    "tic": 7740,
+    "tic": 7755,
     "tiddit": 1,
     "tides": 1,
     "tidk": 1,
@@ -24596,16 +24659,16 @@
     "tiff2rgba": 5296,
     "tiffcmp": 5296,
     "tiffcomment": 20,
-    "tiffcp": 5526,
+    "tiffcp": 5536,
     "tiffcrop": 5296,
     "tiffdither": 5296,
-    "tiffdump": 5526,
+    "tiffdump": 5536,
     "tifffile": 23,
-    "tiffinfo": 5526,
+    "tiffinfo": 5536,
     "tiffmedian": 5296,
-    "tiffset": 5526,
-    "tiffsplit": 5526,
-    "tificc": 1001,
+    "tiffset": 5536,
+    "tiffsplit": 5536,
+    "tificc": 1007,
     "tigStore": 3,
     "tiger-hash": 11,
     "tigge_check": 1,
@@ -24639,7 +24702,7 @@
     "timeout_decorator.py": 1,
     "timescorealn": 1,
     "timetree_inference.py": 1,
-    "timezone-dump": 61,
+    "timezone-dump": 64,
     "timsdata.dll": 2,
     "tin.py": 3,
     "ting": 1,
@@ -24659,7 +24722,7 @@
     "titan-gc-prepare.py": 1,
     "titan.py": 1,
     "titration": 2,
-    "tjbench": 401,
+    "tjbench": 412,
     "tkconch": 1,
     "tkpp": 1,
     "tksm": 1,
@@ -24688,9 +24751,9 @@
     "to_fasta.py": 2,
     "to_upper_case.pl": 1,
     "to_upper_case.pl.bak": 1,
-    "toco": 78,
-    "toco_from_protos": 78,
-    "toe": 7740,
+    "toco": 79,
+    "toco_from_protos": 79,
+    "toe": 7755,
     "tohnsw": 1,
     "toil": 3,
     "toil-cwl-runner": 3,
@@ -24698,7 +24761,7 @@
     "tolkein": 1,
     "tombo": 2,
     "toml2xml": 27,
-    "tomlq": 292,
+    "tomlq": 296,
     "tomsimilarity": 1,
     "tomtom": 13,
     "tomtom_xml_to_html": 13,
@@ -24741,8 +24804,8 @@
     "tpp_hostname": 2,
     "tpp_models.pl": 2,
     "tpptray.bat": 2,
-    "tput": 7740,
-    "tqdm": 358,
+    "tput": 7755,
+    "tqdm": 360,
     "tr": 84,
     "trace_comment": 2,
     "trace_comments": 2,
@@ -24755,7 +24818,7 @@
     "tracebacksearch_unit_test": 5,
     "tracecomp": 1,
     "tracedb-to-frg.pl": 3,
-    "tracegen": 42,
+    "tracegen": 43,
     "tracegroomer": 1,
     "tracer": 1,
     "track_hub_constructor.pl": 1,
@@ -24814,7 +24877,7 @@
     "transform_gfa.py": 1,
     "transformers-cli": 2,
     "transformseq": 13,
-    "transicc": 1001,
+    "transicc": 1007,
     "transit": 1,
     "transition_counter": 1,
     "transl": 1,
@@ -24926,7 +24989,7 @@
     "trimest": 25,
     "trimfrg": 2,
     "trimmer.py": 1,
-    "trimmomatic": 42,
+    "trimmomatic": 44,
     "trimnami": 1,
     "trimragged": 1,
     "trimseq": 25,
@@ -24966,7 +25029,7 @@
     "tryptic.py": 1,
     "ts": 3,
     "tsebra.py": 3,
-    "tset": 7740,
+    "tset": 7755,
     "tskit": 7,
     "tsort": 84,
     "tsp": 2,
@@ -25001,7 +25064,7 @@
     "tth-hash": 11,
     "ttree": 66,
     "tts": 5,
-    "ttx": 402,
+    "ttx": 408,
     "tty": 84,
     "tune": 1,
     "turbocor": 1,
@@ -25056,7 +25119,7 @@
     "udv": 1,
     "ufasta": 1,
     "ufcg": 1,
-    "uic": 249,
+    "uic": 250,
     "uic-qt4": 3,
     "uidclient": 3,
     "uil": 3,
@@ -25089,7 +25152,7 @@
     "undexar": 1,
     "undexqv": 1,
     "undexta": 3,
-    "undill": 60,
+    "undill": 61,
     "unexpand": 84,
     "unfazed": 1,
     "unfiltered_plot.R": 1,
@@ -25144,8 +25207,8 @@
     "unix2dos": 2,
     "unix2mac": 2,
     "unlink": 84,
-    "unlz4": 3517,
-    "unlzma": 7566,
+    "unlz4": 3521,
+    "unlzma": 7581,
     "unmapped2anchors.py": 1,
     "unmerge": 1,
     "unmerge-paired-reads.sh": 2,
@@ -25162,7 +25225,7 @@
     "unstarch-typical": 14,
     "untangle": 2,
     "unweight_fasta.py": 1,
-    "unxz": 7791,
+    "unxz": 7806,
     "unzip": 32,
     "unzip.sh": 29,
     "unziphdf5": 1,
@@ -25170,7 +25233,7 @@
     "unzipont": 1,
     "unzipont_dir": 1,
     "unzipsfx": 25,
-    "unzstd": 5228,
+    "unzstd": 5241,
     "update-blastdb.py": 2,
     "update-serotypefinder-db": 1,
     "update-sort-bed-migrate-candidates": 14,
@@ -25244,7 +25307,7 @@
     "utmpdump": 13,
     "utrgff2gbrowse.pl": 14,
     "utrrnaseq": 12,
-    "uuclient": 5822,
+    "uuclient": 5833,
     "uuid": 37,
     "uuid-config": 37,
     "uuidgen": 13,
@@ -25450,13 +25513,13 @@
     "vcfVariantSummaryLite": 1,
     "vcf_allele_freq.py": 3,
     "vcf_assembly_checker": 1,
-    "vcf_filter.py": 89,
+    "vcf_filter.py": 90,
     "vcf_group_multiline.py": 3,
     "vcf_iit": 11,
-    "vcf_melt": 89,
+    "vcf_melt": 90,
     "vcf_modify_header.py": 3,
     "vcf_paste.py": 3,
-    "vcf_sample_filter.py": 86,
+    "vcf_sample_filter.py": 87,
     "vcf_strip_extra_headers": 31,
     "vcf_to_fa": 1,
     "vcf_to_matrix": 1,
@@ -25567,7 +25630,7 @@
     "vcfuniq": 33,
     "vcfuniqalleles": 31,
     "vcfunphase": 10,
-    "vcfutils.pl": 179,
+    "vcfutils.pl": 180,
     "vcfvarstats": 31,
     "vcfwave": 3,
     "vclean": 1,
@@ -25936,12 +25999,12 @@
     "wgetdir": 1,
     "wgmlst": 1,
     "wgs2ncbi": 1,
-    "wgsim": 516,
-    "wgsim_eval.pl": 516,
+    "wgsim": 518,
+    "wgsim_eval.pl": 518,
     "wham": 1,
     "whamg": 1,
     "whatshap": 14,
-    "wheel": 3695,
+    "wheel": 3709,
     "wheezy.template": 2,
     "whereis": 13,
     "which": 1,
@@ -25984,9 +26047,9 @@
     "winnowmap": 3,
     "wiq.py": 1,
     "wisestork": 1,
-    "wish": 7378,
+    "wish": 7392,
     "wish8.5": 473,
-    "wish8.6": 7141,
+    "wish8.6": 7155,
     "wkhtmltoimage": 2,
     "wkhtmltopdf": 2,
     "wlmscpfs": 1,
@@ -26035,7 +26098,7 @@
     "write_strain_fasta.py": 1,
     "writedb_entry": 1,
     "writedb_unit_test": 5,
-    "wrjpgcom": 5775,
+    "wrjpgcom": 5786,
     "ws": 2,
     "wsdl": 15,
     "wsdl2": 15,
@@ -26073,85 +26136,85 @@
     "x264": 10,
     "x265": 9,
     "x86_64": 13,
-    "x86_64-conda-linux-gnu-addr2line": 3377,
-    "x86_64-conda-linux-gnu-ar": 3377,
-    "x86_64-conda-linux-gnu-as": 3377,
-    "x86_64-conda-linux-gnu-c++": 3348,
-    "x86_64-conda-linux-gnu-c++filt": 3377,
-    "x86_64-conda-linux-gnu-c89": 3331,
-    "x86_64-conda-linux-gnu-c99": 3331,
-    "x86_64-conda-linux-gnu-cc": 3360,
+    "x86_64-conda-linux-gnu-addr2line": 3383,
+    "x86_64-conda-linux-gnu-ar": 3383,
+    "x86_64-conda-linux-gnu-as": 3383,
+    "x86_64-conda-linux-gnu-c++": 3354,
+    "x86_64-conda-linux-gnu-c++filt": 3383,
+    "x86_64-conda-linux-gnu-c89": 3337,
+    "x86_64-conda-linux-gnu-c99": 3337,
+    "x86_64-conda-linux-gnu-cc": 3366,
     "x86_64-conda-linux-gnu-clang": 1,
     "x86_64-conda-linux-gnu-clang++": 1,
     "x86_64-conda-linux-gnu-clang++.cfg": 1,
     "x86_64-conda-linux-gnu-clang.cfg": 1,
-    "x86_64-conda-linux-gnu-cpp": 3360,
+    "x86_64-conda-linux-gnu-cpp": 3366,
     "x86_64-conda-linux-gnu-ct-ng.config": 573,
-    "x86_64-conda-linux-gnu-dwp": 3377,
-    "x86_64-conda-linux-gnu-elfedit": 3377,
-    "x86_64-conda-linux-gnu-f95": 3341,
-    "x86_64-conda-linux-gnu-g++": 3348,
-    "x86_64-conda-linux-gnu-gcc": 3360,
-    "x86_64-conda-linux-gnu-gcc-ar": 3360,
-    "x86_64-conda-linux-gnu-gcc-nm": 3360,
-    "x86_64-conda-linux-gnu-gcc-ranlib": 3360,
-    "x86_64-conda-linux-gnu-gcov": 3360,
-    "x86_64-conda-linux-gnu-gcov-dump": 3360,
-    "x86_64-conda-linux-gnu-gcov-tool": 3360,
-    "x86_64-conda-linux-gnu-gfortran": 3341,
+    "x86_64-conda-linux-gnu-dwp": 3383,
+    "x86_64-conda-linux-gnu-elfedit": 3383,
+    "x86_64-conda-linux-gnu-f95": 3346,
+    "x86_64-conda-linux-gnu-g++": 3354,
+    "x86_64-conda-linux-gnu-gcc": 3366,
+    "x86_64-conda-linux-gnu-gcc-ar": 3366,
+    "x86_64-conda-linux-gnu-gcc-nm": 3366,
+    "x86_64-conda-linux-gnu-gcc-ranlib": 3366,
+    "x86_64-conda-linux-gnu-gcov": 3366,
+    "x86_64-conda-linux-gnu-gcov-dump": 3366,
+    "x86_64-conda-linux-gnu-gcov-tool": 3366,
+    "x86_64-conda-linux-gnu-gfortran": 3346,
     "x86_64-conda-linux-gnu-gfortran.bin": 575,
-    "x86_64-conda-linux-gnu-gprof": 3377,
-    "x86_64-conda-linux-gnu-ld": 5528,
-    "x86_64-conda-linux-gnu-ld.bfd": 3377,
-    "x86_64-conda-linux-gnu-ld.gold": 3377,
-    "x86_64-conda-linux-gnu-nm": 3377,
-    "x86_64-conda-linux-gnu-objcopy": 3377,
-    "x86_64-conda-linux-gnu-objdump": 3377,
+    "x86_64-conda-linux-gnu-gprof": 3383,
+    "x86_64-conda-linux-gnu-ld": 5543,
+    "x86_64-conda-linux-gnu-ld.bfd": 3383,
+    "x86_64-conda-linux-gnu-ld.gold": 3383,
+    "x86_64-conda-linux-gnu-nm": 3383,
+    "x86_64-conda-linux-gnu-objcopy": 3383,
+    "x86_64-conda-linux-gnu-objdump": 3383,
     "x86_64-conda-linux-gnu-pkg-config": 69,
-    "x86_64-conda-linux-gnu-ranlib": 3377,
-    "x86_64-conda-linux-gnu-readelf": 3377,
-    "x86_64-conda-linux-gnu-size": 3377,
-    "x86_64-conda-linux-gnu-strings": 3377,
-    "x86_64-conda-linux-gnu-strip": 3377,
-    "x86_64-conda_cos6-linux-gnu-addr2line": 4144,
-    "x86_64-conda_cos6-linux-gnu-ar": 4144,
-    "x86_64-conda_cos6-linux-gnu-as": 4144,
-    "x86_64-conda_cos6-linux-gnu-c++": 4128,
-    "x86_64-conda_cos6-linux-gnu-c++filt": 4144,
-    "x86_64-conda_cos6-linux-gnu-c89": 3331,
-    "x86_64-conda_cos6-linux-gnu-c99": 3331,
-    "x86_64-conda_cos6-linux-gnu-cc": 4141,
-    "x86_64-conda_cos6-linux-gnu-cpp": 4141,
+    "x86_64-conda-linux-gnu-ranlib": 3383,
+    "x86_64-conda-linux-gnu-readelf": 3383,
+    "x86_64-conda-linux-gnu-size": 3383,
+    "x86_64-conda-linux-gnu-strings": 3383,
+    "x86_64-conda-linux-gnu-strip": 3383,
+    "x86_64-conda_cos6-linux-gnu-addr2line": 4150,
+    "x86_64-conda_cos6-linux-gnu-ar": 4150,
+    "x86_64-conda_cos6-linux-gnu-as": 4150,
+    "x86_64-conda_cos6-linux-gnu-c++": 4134,
+    "x86_64-conda_cos6-linux-gnu-c++filt": 4150,
+    "x86_64-conda_cos6-linux-gnu-c89": 3337,
+    "x86_64-conda_cos6-linux-gnu-c99": 3337,
+    "x86_64-conda_cos6-linux-gnu-cc": 4147,
+    "x86_64-conda_cos6-linux-gnu-cpp": 4147,
     "x86_64-conda_cos6-linux-gnu-ct-ng.config": 1354,
-    "x86_64-conda_cos6-linux-gnu-dwp": 4144,
-    "x86_64-conda_cos6-linux-gnu-elfedit": 4144,
-    "x86_64-conda_cos6-linux-gnu-f95": 4110,
-    "x86_64-conda_cos6-linux-gnu-g++": 4128,
-    "x86_64-conda_cos6-linux-gnu-gcc": 4141,
-    "x86_64-conda_cos6-linux-gnu-gcc-ar": 4141,
-    "x86_64-conda_cos6-linux-gnu-gcc-nm": 4141,
-    "x86_64-conda_cos6-linux-gnu-gcc-ranlib": 4141,
-    "x86_64-conda_cos6-linux-gnu-gcov": 4140,
-    "x86_64-conda_cos6-linux-gnu-gcov-dump": 4140,
-    "x86_64-conda_cos6-linux-gnu-gcov-tool": 4140,
-    "x86_64-conda_cos6-linux-gnu-gfortran": 4110,
+    "x86_64-conda_cos6-linux-gnu-dwp": 4150,
+    "x86_64-conda_cos6-linux-gnu-elfedit": 4150,
+    "x86_64-conda_cos6-linux-gnu-f95": 4115,
+    "x86_64-conda_cos6-linux-gnu-g++": 4134,
+    "x86_64-conda_cos6-linux-gnu-gcc": 4147,
+    "x86_64-conda_cos6-linux-gnu-gcc-ar": 4147,
+    "x86_64-conda_cos6-linux-gnu-gcc-nm": 4147,
+    "x86_64-conda_cos6-linux-gnu-gcc-ranlib": 4147,
+    "x86_64-conda_cos6-linux-gnu-gcov": 4146,
+    "x86_64-conda_cos6-linux-gnu-gcov-dump": 4146,
+    "x86_64-conda_cos6-linux-gnu-gcov-tool": 4146,
+    "x86_64-conda_cos6-linux-gnu-gfortran": 4115,
     "x86_64-conda_cos6-linux-gnu-gfortran.bin": 1344,
-    "x86_64-conda_cos6-linux-gnu-gprof": 4144,
-    "x86_64-conda_cos6-linux-gnu-ld": 6362,
-    "x86_64-conda_cos6-linux-gnu-ld.bfd": 4144,
-    "x86_64-conda_cos6-linux-gnu-ld.gold": 4144,
-    "x86_64-conda_cos6-linux-gnu-nm": 4144,
-    "x86_64-conda_cos6-linux-gnu-objcopy": 4144,
-    "x86_64-conda_cos6-linux-gnu-objdump": 4144,
+    "x86_64-conda_cos6-linux-gnu-gprof": 4150,
+    "x86_64-conda_cos6-linux-gnu-ld": 6377,
+    "x86_64-conda_cos6-linux-gnu-ld.bfd": 4150,
+    "x86_64-conda_cos6-linux-gnu-ld.gold": 4150,
+    "x86_64-conda_cos6-linux-gnu-nm": 4150,
+    "x86_64-conda_cos6-linux-gnu-objcopy": 4150,
+    "x86_64-conda_cos6-linux-gnu-objdump": 4150,
     "x86_64-conda_cos6-linux-gnu-pkg-config": 6,
-    "x86_64-conda_cos6-linux-gnu-ranlib": 4144,
-    "x86_64-conda_cos6-linux-gnu-readelf": 4144,
-    "x86_64-conda_cos6-linux-gnu-size": 4144,
-    "x86_64-conda_cos6-linux-gnu-strings": 4144,
-    "x86_64-conda_cos6-linux-gnu-strip": 4144,
+    "x86_64-conda_cos6-linux-gnu-ranlib": 4150,
+    "x86_64-conda_cos6-linux-gnu-readelf": 4150,
+    "x86_64-conda_cos6-linux-gnu-size": 4150,
+    "x86_64-conda_cos6-linux-gnu-strings": 4150,
+    "x86_64-conda_cos6-linux-gnu-strip": 4150,
     "x86_64-conda_cos7-linux-gnu-ld": 24,
     "x86_64-unknown-linux-gnu-pkg-config": 1,
-    "xa2multi.pl": 157,
+    "xa2multi.pl": 158,
     "xaLeap": 6,
     "xam_coverage_bins.pl": 2,
     "xander_customized_hmmer_version_for_prepare_gene.sh": 1,
@@ -26176,12 +26239,12 @@
     "xgboost": 30,
     "xgboost.dll": 1,
     "xgboost.lib": 1,
-    "xgettext": 5295,
+    "xgettext": 5297,
     "xgui": 2,
     "xhmm": 1,
     "xinteract": 2,
     "xjc": 117,
-    "xkbcli": 92,
+    "xkbcli": 93,
     "xleap": 6,
     "xlsx2json.py": 1,
     "xmatchview-conifer.py": 1,
@@ -26190,7 +26253,7 @@
     "xmfa2maf": 4,
     "xmfa2maf.pl": 1,
     "xml": 1,
-    "xml2-config": 5395,
+    "xml2-config": 5405,
     "xml2-config.bak": 34,
     "xml2dcm": 1,
     "xml2dsr": 1,
@@ -26203,17 +26266,17 @@
     "xml_spellcheck": 64,
     "xml_split": 64,
     "xml_to_bas.pl": 3,
-    "xmlcatalog": 5395,
+    "xmlcatalog": 5405,
     "xmlget": 21,
     "xmlindent": 1,
-    "xmllint": 5395,
-    "xmlpatterns": 247,
+    "xmllint": 5405,
+    "xmlpatterns": 248,
     "xmlpatterns-qt4": 3,
-    "xmlpatternsvalidator": 247,
+    "xmlpatternsvalidator": 248,
     "xmlpatternsvalidator-qt4": 3,
     "xmltext": 21,
     "xmlvalid": 1,
-    "xmlwf": 2366,
+    "xmlwf": 2373,
     "xparmed": 7,
     "xpath": 61,
     "xpclr": 1,
@@ -26225,7 +26288,7 @@
     "xpore": 1,
     "xpore-dataprep": 1,
     "xpore-diffmod": 1,
-    "xq": 292,
+    "xq": 296,
     "xrdacctest": 1,
     "xrdadler32": 1,
     "xrdcopy": 1,
@@ -26243,12 +26306,12 @@
     "xrootd-config": 1,
     "xrspatial": 1,
     "xsd": 17,
-    "xslt-config": 257,
-    "xsltproc": 257,
+    "xslt-config": 259,
+    "xsltproc": 259,
     "xsltproc_lite": 7,
     "xstreme": 2,
     "xstreme_html_to_tsv": 2,
-    "xsubpp": 1706,
+    "xsubpp": 1711,
     "xsv": 1,
     "xtandem": 3,
     "xtb": 1,
@@ -26270,16 +26333,16 @@
     "xxhsum": 33,
     "xy-plot": 88,
     "xyalign": 1,
-    "xz": 7791,
-    "xzcat": 7566,
-    "xzcmp": 7566,
-    "xzdec": 7566,
-    "xzdiff": 7566,
-    "xzegrep": 7566,
-    "xzfgrep": 7566,
-    "xzgrep": 7566,
-    "xzless": 7566,
-    "xzmore": 7566,
+    "xz": 7806,
+    "xzcat": 7581,
+    "xzcmp": 7581,
+    "xzdec": 7581,
+    "xzdiff": 7581,
+    "xzegrep": 7581,
+    "xzfgrep": 7581,
+    "xzgrep": 7581,
+    "xzless": 7581,
+    "xzmore": 7581,
     "y2racc": 7,
     "yacc": 4,
     "yacht": 1,
@@ -26308,15 +26371,15 @@
     "yara_mapper": 2,
     "yasm": 1,
     "yass": 1,
-    "yat2m": 33,
+    "yat2m": 34,
     "yes": 84,
     "yn00": 69,
     "yoyo": 3,
     "yoyo-migrate": 3,
     "yplan": 1,
-    "yq": 292,
+    "yq": 296,
     "ytasm": 1,
-    "yte": 60,
+    "yte": 61,
     "zagros": 1,
     "zarp": 1,
     "zcat": 18,
@@ -26341,7 +26404,7 @@
     "zipHomerResults.pl": 5,
     "zipcloak": 2,
     "zipcmp": 93,
-    "zipdetails": 1706,
+    "zipdetails": 1711,
     "zipgrep": 25,
     "zipinfo": 25,
     "zipmerge": 93,
@@ -26356,7 +26419,7 @@
     "znew": 18,
     "zol": 1,
     "zoom": 1,
-    "zoom2sam.pl": 515,
+    "zoom2sam.pl": 517,
     "zopfli": 23,
     "zopflipng": 23,
     "zorro": 1,
@@ -26366,10 +26429,10 @@
     "zrun": 3,
     "zsh": 3,
     "zsh-5.8": 3,
-    "zstd": 5228,
-    "zstdcat": 5228,
-    "zstdgrep": 5026,
-    "zstdless": 5026,
-    "zstdmt": 5228,
+    "zstd": 5241,
+    "zstdcat": 5241,
+    "zstdgrep": 5039,
+    "zstdless": 5039,
+    "zstdmt": 5241,
     "ztr_dump": 2
 }
\ No newline at end of file
diff --git a/quay.io/biocontainers/c/carpedeam:1.0.0--pl5321h6a68c12_0.json b/quay.io/biocontainers/c/carpedeam:1.0.0--pl5321h6a68c12_0.json
new file mode 100644
index 0000000..235ea08
--- /dev/null
+++ b/quay.io/biocontainers/c/carpedeam:1.0.0--pl5321h6a68c12_0.json
@@ -0,0 +1,83 @@
+{
+    "autopoint": "/usr/local/bin/autopoint",
+    "awk": "/usr/local/bin/awk",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "carpedeam": "/usr/local/bin/carpedeam",
+    "clear": "/usr/local/bin/clear",
+    "corelist": "/usr/local/bin/corelist",
+    "cpan": "/usr/local/bin/cpan",
+    "enc2xs": "/usr/local/bin/enc2xs",
+    "encguess": "/usr/local/bin/encguess",
+    "envsubst": "/usr/local/bin/envsubst",
+    "gawk": "/usr/local/bin/gawk",
+    "gawk-5.3.0": "/usr/local/bin/gawk-5.3.0",
+    "gawkbug": "/usr/local/bin/gawkbug",
+    "gettext": "/usr/local/bin/gettext",
+    "gettext.sh": "/usr/local/bin/gettext.sh",
+    "gettextize": "/usr/local/bin/gettextize",
+    "h2ph": "/usr/local/bin/h2ph",
+    "h2xs": "/usr/local/bin/h2xs",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "instmodsh": "/usr/local/bin/instmodsh",
+    "json_pp": "/usr/local/bin/json_pp",
+    "libnetcfg": "/usr/local/bin/libnetcfg",
+    "msgattrib": "/usr/local/bin/msgattrib",
+    "msgcat": "/usr/local/bin/msgcat",
+    "msgcmp": "/usr/local/bin/msgcmp",
+    "msgcomm": "/usr/local/bin/msgcomm",
+    "msgconv": "/usr/local/bin/msgconv",
+    "msgen": "/usr/local/bin/msgen",
+    "msgexec": "/usr/local/bin/msgexec",
+    "msgfilter": "/usr/local/bin/msgfilter",
+    "msgfmt": "/usr/local/bin/msgfmt",
+    "msggrep": "/usr/local/bin/msggrep",
+    "msginit": "/usr/local/bin/msginit",
+    "msgmerge": "/usr/local/bin/msgmerge",
+    "msgunfmt": "/usr/local/bin/msgunfmt",
+    "msguniq": "/usr/local/bin/msguniq",
+    "ncurses6-config": "/usr/local/bin/ncurses6-config",
+    "ncursesw6-config": "/usr/local/bin/ncursesw6-config",
+    "ngettext": "/usr/local/bin/ngettext",
+    "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",
+    "piconv": "/usr/local/bin/piconv",
+    "pl2pm": "/usr/local/bin/pl2pm",
+    "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",
+    "prove": "/usr/local/bin/prove",
+    "ptar": "/usr/local/bin/ptar",
+    "ptardiff": "/usr/local/bin/ptardiff",
+    "ptargrep": "/usr/local/bin/ptargrep",
+    "recode-sr-latin": "/usr/local/bin/recode-sr-latin",
+    "reset": "/usr/local/bin/reset",
+    "shasum": "/usr/local/bin/shasum",
+    "splain": "/usr/local/bin/splain",
+    "streamzip": "/usr/local/bin/streamzip",
+    "tabs": "/usr/local/bin/tabs",
+    "tic": "/usr/local/bin/tic",
+    "toe": "/usr/local/bin/toe",
+    "tput": "/usr/local/bin/tput",
+    "tset": "/usr/local/bin/tset",
+    "xgettext": "/usr/local/bin/xgettext",
+    "xsubpp": "/usr/local/bin/xsubpp",
+    "zipdetails": "/usr/local/bin/zipdetails"
+}
\ No newline at end of file
diff --git a/quay.io/biocontainers/c/ctxcore:0.2.0--pyh7e72e81_0.json b/quay.io/biocontainers/c/ctxcore:0.2.0--pyh7e72e81_0.json
new file mode 100644
index 0000000..3e2cf0e
--- /dev/null
+++ b/quay.io/biocontainers/c/ctxcore:0.2.0--pyh7e72e81_0.json
@@ -0,0 +1,148 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "clear": "/usr/local/bin/clear",
+    "compile_et": "/usr/local/bin/compile_et",
+    "csv-import": "/usr/local/bin/csv-import",
+    "curl-config": "/usr/local/bin/curl-config",
+    "derb": "/usr/local/bin/derb",
+    "elasticurl": "/usr/local/bin/elasticurl",
+    "elasticurl_cpp": "/usr/local/bin/elasticurl_cpp",
+    "elastipubsub": "/usr/local/bin/elastipubsub",
+    "elastipubsub5": "/usr/local/bin/elastipubsub5",
+    "f2py": "/usr/local/bin/f2py",
+    "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",
+    "gflags_completions.sh": "/usr/local/bin/gflags_completions.sh",
+    "grpc_cpp_plugin": "/usr/local/bin/grpc_cpp_plugin",
+    "grpc_csharp_plugin": "/usr/local/bin/grpc_csharp_plugin",
+    "grpc_node_plugin": "/usr/local/bin/grpc_node_plugin",
+    "grpc_objective_c_plugin": "/usr/local/bin/grpc_objective_c_plugin",
+    "grpc_php_plugin": "/usr/local/bin/grpc_php_plugin",
+    "grpc_python_plugin": "/usr/local/bin/grpc_python_plugin",
+    "grpc_ruby_plugin": "/usr/local/bin/grpc_ruby_plugin",
+    "gss-client": "/usr/local/bin/gss-client",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "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",
+    "lz4": "/usr/local/bin/lz4",
+    "lz4c": "/usr/local/bin/lz4c",
+    "lz4cat": "/usr/local/bin/lz4cat",
+    "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",
+    "mqtt5_app": "/usr/local/bin/mqtt5_app",
+    "mqtt5_canary": "/usr/local/bin/mqtt5_canary",
+    "mqtt5canary": "/usr/local/bin/mqtt5canary",
+    "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",
+    "numba": "/usr/local/bin/numba",
+    "numpy-config": "/usr/local/bin/numpy-config",
+    "openssl": "/usr/local/bin/openssl",
+    "orc-contents": "/usr/local/bin/orc-contents",
+    "orc-memory": "/usr/local/bin/orc-memory",
+    "orc-metadata": "/usr/local/bin/orc-metadata",
+    "orc-scan": "/usr/local/bin/orc-scan",
+    "orc-statistics": "/usr/local/bin/orc-statistics",
+    "pip": "/usr/local/bin/pip",
+    "pip3": "/usr/local/bin/pip3",
+    "pkgdata": "/usr/local/bin/pkgdata",
+    "protoc": "/usr/local/bin/protoc",
+    "protoc-25.3.0": "/usr/local/bin/protoc-25.3.0",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "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",
+    "reset": "/usr/local/bin/reset",
+    "sclient": "/usr/local/bin/sclient",
+    "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",
+    "timezone-dump": "/usr/local/bin/timezone-dump",
+    "toe": "/usr/local/bin/toe",
+    "tput": "/usr/local/bin/tput",
+    "tqdm": "/usr/local/bin/tqdm",
+    "tset": "/usr/local/bin/tset",
+    "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",
+    "wheel": "/usr/local/bin/wheel",
+    "wish": "/usr/local/bin/wish",
+    "wish8.6": "/usr/local/bin/wish8.6",
+    "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",
+    "xml2-config": "/usr/local/bin/xml2-config",
+    "xmlcatalog": "/usr/local/bin/xmlcatalog",
+    "xmllint": "/usr/local/bin/xmllint",
+    "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/d/dapcy:0.1.1--pyhdfd78af_0.json b/quay.io/biocontainers/d/dapcy:0.1.1--pyhdfd78af_0.json
new file mode 100644
index 0000000..0e36608
--- /dev/null
+++ b/quay.io/biocontainers/d/dapcy:0.1.1--pyhdfd78af_0.json
@@ -0,0 +1,198 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.10": "/usr/local/bin/2to3-3.10",
+    "adig": "/usr/local/bin/adig",
+    "ahost": "/usr/local/bin/ahost",
+    "annot-tsv": "/usr/local/bin/annot-tsv",
+    "bgzip": "/usr/local/bin/bgzip",
+    "bokeh": "/usr/local/bin/bokeh",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "cjpeg": "/usr/local/bin/cjpeg",
+    "clear": "/usr/local/bin/clear",
+    "coloredlogs": "/usr/local/bin/coloredlogs",
+    "compile_et": "/usr/local/bin/compile_et",
+    "csv-import": "/usr/local/bin/csv-import",
+    "curl-config": "/usr/local/bin/curl-config",
+    "cyvcf2": "/usr/local/bin/cyvcf2",
+    "dask": "/usr/local/bin/dask",
+    "dask-scheduler": "/usr/local/bin/dask-scheduler",
+    "dask-ssh": "/usr/local/bin/dask-ssh",
+    "dask-worker": "/usr/local/bin/dask-worker",
+    "derb": "/usr/local/bin/derb",
+    "djpeg": "/usr/local/bin/djpeg",
+    "elasticurl": "/usr/local/bin/elasticurl",
+    "elasticurl_cpp": "/usr/local/bin/elasticurl_cpp",
+    "elastipubsub": "/usr/local/bin/elastipubsub",
+    "elastipubsub5": "/usr/local/bin/elastipubsub5",
+    "f2py": "/usr/local/bin/f2py",
+    "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",
+    "gflags_completions.sh": "/usr/local/bin/gflags_completions.sh",
+    "grpc_cpp_plugin": "/usr/local/bin/grpc_cpp_plugin",
+    "grpc_csharp_plugin": "/usr/local/bin/grpc_csharp_plugin",
+    "grpc_node_plugin": "/usr/local/bin/grpc_node_plugin",
+    "grpc_objective_c_plugin": "/usr/local/bin/grpc_objective_c_plugin",
+    "grpc_php_plugin": "/usr/local/bin/grpc_php_plugin",
+    "grpc_python_plugin": "/usr/local/bin/grpc_python_plugin",
+    "grpc_ruby_plugin": "/usr/local/bin/grpc_ruby_plugin",
+    "gss-client": "/usr/local/bin/gss-client",
+    "htsfile": "/usr/local/bin/htsfile",
+    "humanfriendly": "/usr/local/bin/humanfriendly",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.10": "/usr/local/bin/idle3.10",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "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",
+    "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",
+    "linkicc": "/usr/local/bin/linkicc",
+    "lz4": "/usr/local/bin/lz4",
+    "lz4c": "/usr/local/bin/lz4c",
+    "lz4cat": "/usr/local/bin/lz4cat",
+    "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",
+    "mqtt5_app": "/usr/local/bin/mqtt5_app",
+    "mqtt5_canary": "/usr/local/bin/mqtt5_canary",
+    "mqtt5canary": "/usr/local/bin/mqtt5canary",
+    "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",
+    "normalizer": "/usr/local/bin/normalizer",
+    "numba": "/usr/local/bin/numba",
+    "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",
+    "orc-contents": "/usr/local/bin/orc-contents",
+    "orc-memory": "/usr/local/bin/orc-memory",
+    "orc-metadata": "/usr/local/bin/orc-metadata",
+    "orc-scan": "/usr/local/bin/orc-scan",
+    "orc-statistics": "/usr/local/bin/orc-statistics",
+    "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",
+    "protoc": "/usr/local/bin/protoc",
+    "protoc-25.3.0": "/usr/local/bin/protoc-25.3.0",
+    "psicc": "/usr/local/bin/psicc",
+    "py.test": "/usr/local/bin/py.test",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.10": "/usr/local/bin/pydoc3.10",
+    "pyftmerge": "/usr/local/bin/pyftmerge",
+    "pyftsubset": "/usr/local/bin/pyftsubset",
+    "pytest": "/usr/local/bin/pytest",
+    "python": "/usr/local/bin/python",
+    "python3": "/usr/local/bin/python3",
+    "python3-config": "/usr/local/bin/python3-config",
+    "python3.1": "/usr/local/bin/python3.1",
+    "python3.10": "/usr/local/bin/python3.10",
+    "python3.10-config": "/usr/local/bin/python3.10-config",
+    "qconvex": "/usr/local/bin/qconvex",
+    "qdelaunay": "/usr/local/bin/qdelaunay",
+    "qhalf": "/usr/local/bin/qhalf",
+    "qhull": "/usr/local/bin/qhull",
+    "qvoronoi": "/usr/local/bin/qvoronoi",
+    "rbox": "/usr/local/bin/rbox",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "reset": "/usr/local/bin/reset",
+    "sclient": "/usr/local/bin/sclient",
+    "sim_client": "/usr/local/bin/sim_client",
+    "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer",
+    "tabix": "/usr/local/bin/tabix",
+    "tabs": "/usr/local/bin/tabs",
+    "tclsh": "/usr/local/bin/tclsh",
+    "tclsh8.6": "/usr/local/bin/tclsh8.6",
+    "tic": "/usr/local/bin/tic",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "tiffset": "/usr/local/bin/tiffset",
+    "tiffsplit": "/usr/local/bin/tiffsplit",
+    "tificc": "/usr/local/bin/tificc",
+    "timezone-dump": "/usr/local/bin/timezone-dump",
+    "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",
+    "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",
+    "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",
+    "xml2-config": "/usr/local/bin/xml2-config",
+    "xmlcatalog": "/usr/local/bin/xmlcatalog",
+    "xmllint": "/usr/local/bin/xmllint",
+    "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/e/eskrim:1.0.9--pyhdfd78af_0.json b/quay.io/biocontainers/e/eskrim:1.0.9--pyhdfd78af_0.json
new file mode 100644
index 0000000..fc819bb
--- /dev/null
+++ b/quay.io/biocontainers/e/eskrim:1.0.9--pyhdfd78af_0.json
@@ -0,0 +1,75 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "clear": "/usr/local/bin/clear",
+    "eskrim": "/usr/local/bin/eskrim",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "jellyfish": "/usr/local/bin/jellyfish",
+    "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",
+    "ncurses6-config": "/usr/local/bin/ncurses6-config",
+    "ncursesw6-config": "/usr/local/bin/ncursesw6-config",
+    "openssl": "/usr/local/bin/openssl",
+    "pip": "/usr/local/bin/pip",
+    "pip3": "/usr/local/bin/pip3",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "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",
+    "reset": "/usr/local/bin/reset",
+    "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",
+    "toe": "/usr/local/bin/toe",
+    "tput": "/usr/local/bin/tput",
+    "tset": "/usr/local/bin/tset",
+    "unlzma": "/usr/local/bin/unlzma",
+    "unxz": "/usr/local/bin/unxz",
+    "wheel": "/usr/local/bin/wheel",
+    "wish": "/usr/local/bin/wish",
+    "wish8.6": "/usr/local/bin/wish8.6",
+    "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",
+    "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"
+}
\ No newline at end of file
diff --git a/quay.io/biocontainers/i/im2deep:0.1.7--pyhdfd78af_0.json b/quay.io/biocontainers/i/im2deep:0.1.7--pyhdfd78af_0.json
new file mode 100644
index 0000000..a9acc0b
--- /dev/null
+++ b/quay.io/biocontainers/i/im2deep:0.1.7--pyhdfd78af_0.json
@@ -0,0 +1,223 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.11": "/usr/local/bin/2to3-3.11",
+    "adig": "/usr/local/bin/adig",
+    "ahost": "/usr/local/bin/ahost",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "cjpeg": "/usr/local/bin/cjpeg",
+    "clear": "/usr/local/bin/clear",
+    "compile_et": "/usr/local/bin/compile_et",
+    "curl-config": "/usr/local/bin/curl-config",
+    "deeplc": "/usr/local/bin/deeplc",
+    "deeplc-gui": "/usr/local/bin/deeplc-gui",
+    "derb": "/usr/local/bin/derb",
+    "djpeg": "/usr/local/bin/djpeg",
+    "estimator_ckpt_converter": "/usr/local/bin/estimator_ckpt_converter",
+    "f2py": "/usr/local/bin/f2py",
+    "flatc": "/usr/local/bin/flatc",
+    "fonttools": "/usr/local/bin/fonttools",
+    "freetype-config": "/usr/local/bin/freetype-config",
+    "futurize": "/usr/local/bin/futurize",
+    "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",
+    "gif2h5": "/usr/local/bin/gif2h5",
+    "gif2rgb": "/usr/local/bin/gif2rgb",
+    "gifbuild": "/usr/local/bin/gifbuild",
+    "gifclrmp": "/usr/local/bin/gifclrmp",
+    "giffix": "/usr/local/bin/giffix",
+    "giftext": "/usr/local/bin/giftext",
+    "giftool": "/usr/local/bin/giftool",
+    "google-oauthlib-tool": "/usr/local/bin/google-oauthlib-tool",
+    "grpc_cpp_plugin": "/usr/local/bin/grpc_cpp_plugin",
+    "grpc_csharp_plugin": "/usr/local/bin/grpc_csharp_plugin",
+    "grpc_node_plugin": "/usr/local/bin/grpc_node_plugin",
+    "grpc_objective_c_plugin": "/usr/local/bin/grpc_objective_c_plugin",
+    "grpc_php_plugin": "/usr/local/bin/grpc_php_plugin",
+    "grpc_python_plugin": "/usr/local/bin/grpc_python_plugin",
+    "grpc_ruby_plugin": "/usr/local/bin/grpc_ruby_plugin",
+    "gss-client": "/usr/local/bin/gss-client",
+    "h52gif": "/usr/local/bin/h52gif",
+    "h5c++": "/usr/local/bin/h5c++",
+    "h5cc": "/usr/local/bin/h5cc",
+    "h5clear": "/usr/local/bin/h5clear",
+    "h5copy": "/usr/local/bin/h5copy",
+    "h5debug": "/usr/local/bin/h5debug",
+    "h5delete": "/usr/local/bin/h5delete",
+    "h5diff": "/usr/local/bin/h5diff",
+    "h5dump": "/usr/local/bin/h5dump",
+    "h5fc": "/usr/local/bin/h5fc",
+    "h5format_convert": "/usr/local/bin/h5format_convert",
+    "h5fuse.sh": "/usr/local/bin/h5fuse.sh",
+    "h5import": "/usr/local/bin/h5import",
+    "h5jam": "/usr/local/bin/h5jam",
+    "h5ls": "/usr/local/bin/h5ls",
+    "h5mkgrp": "/usr/local/bin/h5mkgrp",
+    "h5perf_serial": "/usr/local/bin/h5perf_serial",
+    "h5redeploy": "/usr/local/bin/h5redeploy",
+    "h5repack": "/usr/local/bin/h5repack",
+    "h5repart": "/usr/local/bin/h5repart",
+    "h5stat": "/usr/local/bin/h5stat",
+    "h5tools_test_utils": "/usr/local/bin/h5tools_test_utils",
+    "h5unjam": "/usr/local/bin/h5unjam",
+    "h5watch": "/usr/local/bin/h5watch",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.11": "/usr/local/bin/idle3.11",
+    "im2deep": "/usr/local/bin/im2deep",
+    "import_pb_to_tensorboard": "/usr/local/bin/import_pb_to_tensorboard",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "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",
+    "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",
+    "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",
+    "markdown-it": "/usr/local/bin/markdown-it",
+    "markdown_py": "/usr/local/bin/markdown_py",
+    "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",
+    "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",
+    "pasteurize": "/usr/local/bin/pasteurize",
+    "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",
+    "progressbar": "/usr/local/bin/progressbar",
+    "protoc": "/usr/local/bin/protoc",
+    "psicc": "/usr/local/bin/psicc",
+    "psm-utils": "/usr/local/bin/psm-utils",
+    "psm_utils": "/usr/local/bin/psm_utils",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.11": "/usr/local/bin/pydoc3.11",
+    "pyftmerge": "/usr/local/bin/pyftmerge",
+    "pyftsubset": "/usr/local/bin/pyftsubset",
+    "pygmentize": "/usr/local/bin/pygmentize",
+    "pyrsa-decrypt": "/usr/local/bin/pyrsa-decrypt",
+    "pyrsa-encrypt": "/usr/local/bin/pyrsa-encrypt",
+    "pyrsa-keygen": "/usr/local/bin/pyrsa-keygen",
+    "pyrsa-priv2pub": "/usr/local/bin/pyrsa-priv2pub",
+    "pyrsa-sign": "/usr/local/bin/pyrsa-sign",
+    "pyrsa-verify": "/usr/local/bin/pyrsa-verify",
+    "python": "/usr/local/bin/python",
+    "python3": "/usr/local/bin/python3",
+    "python3-config": "/usr/local/bin/python3-config",
+    "python3.1": "/usr/local/bin/python3.1",
+    "python3.11": "/usr/local/bin/python3.11",
+    "python3.11-config": "/usr/local/bin/python3.11-config",
+    "qconvex": "/usr/local/bin/qconvex",
+    "qdelaunay": "/usr/local/bin/qdelaunay",
+    "qhalf": "/usr/local/bin/qhalf",
+    "qhull": "/usr/local/bin/qhull",
+    "qvoronoi": "/usr/local/bin/qvoronoi",
+    "rbox": "/usr/local/bin/rbox",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "reset": "/usr/local/bin/reset",
+    "saved_model_cli": "/usr/local/bin/saved_model_cli",
+    "sclient": "/usr/local/bin/sclient",
+    "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",
+    "tensorboard": "/usr/local/bin/tensorboard",
+    "tf_upgrade_v2": "/usr/local/bin/tf_upgrade_v2",
+    "tflite_convert": "/usr/local/bin/tflite_convert",
+    "tic": "/usr/local/bin/tic",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "tiffset": "/usr/local/bin/tiffset",
+    "tiffsplit": "/usr/local/bin/tiffsplit",
+    "tificc": "/usr/local/bin/tificc",
+    "tjbench": "/usr/local/bin/tjbench",
+    "toco": "/usr/local/bin/toco",
+    "toco_from_protos": "/usr/local/bin/toco_from_protos",
+    "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",
+    "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",
+    "xml2-config": "/usr/local/bin/xml2-config",
+    "xmlcatalog": "/usr/local/bin/xmlcatalog",
+    "xmllint": "/usr/local/bin/xmllint",
+    "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/p/pacu_snp:0.0.3--pyhdfd78af_0.json b/quay.io/biocontainers/p/pacu_snp:0.0.3--pyhdfd78af_0.json
new file mode 100644
index 0000000..88c54b1
--- /dev/null
+++ b/quay.io/biocontainers/p/pacu_snp:0.0.3--pyhdfd78af_0.json
@@ -0,0 +1,495 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.9": "/usr/local/bin/2to3-3.9",
+    "FastTree": "/usr/local/bin/FastTree",
+    "FastTreeMP": "/usr/local/bin/FastTreeMP",
+    "PACU": "/usr/local/bin/PACU",
+    "PACU_map": "/usr/local/bin/PACU_map",
+    "R": "/usr/local/bin/R",
+    "Rscript": "/usr/local/bin/Rscript",
+    "ace2sam": "/usr/local/bin/ace2sam",
+    "adig": "/usr/local/bin/adig",
+    "aggregate_profile.pl": "/usr/local/bin/aggregate_profile.pl",
+    "ahost": "/usr/local/bin/ahost",
+    "annot-tsv": "/usr/local/bin/annot-tsv",
+    "aserver": "/usr/local/bin/aserver",
+    "bcftools": "/usr/local/bin/bcftools",
+    "bgzip": "/usr/local/bin/bgzip",
+    "blast2sam.pl": "/usr/local/bin/blast2sam.pl",
+    "bowtie2": "/usr/local/bin/bowtie2",
+    "bowtie2-align-l": "/usr/local/bin/bowtie2-align-l",
+    "bowtie2-align-s": "/usr/local/bin/bowtie2-align-s",
+    "bowtie2-build": "/usr/local/bin/bowtie2-build",
+    "bowtie2-build-l": "/usr/local/bin/bowtie2-build-l",
+    "bowtie2-build-s": "/usr/local/bin/bowtie2-build-s",
+    "bowtie2-inspect": "/usr/local/bin/bowtie2-inspect",
+    "bowtie2-inspect-l": "/usr/local/bin/bowtie2-inspect-l",
+    "bowtie2-inspect-s": "/usr/local/bin/bowtie2-inspect-s",
+    "bowtie2sam.pl": "/usr/local/bin/bowtie2sam.pl",
+    "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",
+    "cbc": "/usr/local/bin/cbc",
+    "cjpeg": "/usr/local/bin/cjpeg",
+    "clear": "/usr/local/bin/clear",
+    "clp": "/usr/local/bin/clp",
+    "color-chrs.pl": "/usr/local/bin/color-chrs.pl",
+    "compile_et": "/usr/local/bin/compile_et",
+    "corelist": "/usr/local/bin/corelist",
+    "count_recombinations_per_gene.py": "/usr/local/bin/count_recombinations_per_gene.py",
+    "cpan": "/usr/local/bin/cpan",
+    "cups-config": "/usr/local/bin/cups-config",
+    "curl": "/usr/local/bin/curl",
+    "curl-config": "/usr/local/bin/curl-config",
+    "dendropy-format": "/usr/local/bin/dendropy-format",
+    "derb": "/usr/local/bin/derb",
+    "djpeg": "/usr/local/bin/djpeg",
+    "docutils": "/usr/local/bin/docutils",
+    "eido": "/usr/local/bin/eido",
+    "enc2xs": "/usr/local/bin/enc2xs",
+    "encguess": "/usr/local/bin/encguess",
+    "export2sam.pl": "/usr/local/bin/export2sam.pl",
+    "extract_gubbins_clade.py": "/usr/local/bin/extract_gubbins_clade.py",
+    "f2py": "/usr/local/bin/f2py",
+    "f2py3": "/usr/local/bin/f2py3",
+    "f2py3.9": "/usr/local/bin/f2py3.9",
+    "fasta-sanitize.pl": "/usr/local/bin/fasta-sanitize.pl",
+    "fasttree": "/usr/local/bin/fasttree",
+    "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",
+    "figtree": "/usr/local/bin/figtree",
+    "fonttools": "/usr/local/bin/fonttools",
+    "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",
+    "generate_files_for_clade_analysis.py": "/usr/local/bin/generate_files_for_clade_analysis.py",
+    "generate_ska_alignment.py": "/usr/local/bin/generate_ska_alignment.py",
+    "genrb": "/usr/local/bin/genrb",
+    "get_gprof": "/usr/local/bin/get_gprof",
+    "get_objgraph": "/usr/local/bin/get_objgraph",
+    "gff2gff.py": "/usr/local/bin/gff2gff.py",
+    "gif2rgb": "/usr/local/bin/gif2rgb",
+    "gifbuild": "/usr/local/bin/gifbuild",
+    "gifclrmp": "/usr/local/bin/gifclrmp",
+    "giffix": "/usr/local/bin/giffix",
+    "giftext": "/usr/local/bin/giftext",
+    "giftool": "/usr/local/bin/giftool",
+    "grpc_cpp_plugin": "/usr/local/bin/grpc_cpp_plugin",
+    "grpc_csharp_plugin": "/usr/local/bin/grpc_csharp_plugin",
+    "grpc_node_plugin": "/usr/local/bin/grpc_node_plugin",
+    "grpc_objective_c_plugin": "/usr/local/bin/grpc_objective_c_plugin",
+    "grpc_php_plugin": "/usr/local/bin/grpc_php_plugin",
+    "grpc_python_plugin": "/usr/local/bin/grpc_python_plugin",
+    "grpc_ruby_plugin": "/usr/local/bin/grpc_ruby_plugin",
+    "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",
+    "gubbins": "/usr/local/bin/gubbins",
+    "gubbins_alignment_checker.py": "/usr/local/bin/gubbins_alignment_checker.py",
+    "guess-ploidy.py": "/usr/local/bin/guess-ploidy.py",
+    "h2ph": "/usr/local/bin/h2ph",
+    "h2xs": "/usr/local/bin/h2xs",
+    "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",
+    "htsfile": "/usr/local/bin/htsfile",
+    "humanfriendly": "/usr/local/bin/humanfriendly",
+    "hwloc-annotate": "/usr/local/bin/hwloc-annotate",
+    "hwloc-bind": "/usr/local/bin/hwloc-bind",
+    "hwloc-calc": "/usr/local/bin/hwloc-calc",
+    "hwloc-compress-dir": "/usr/local/bin/hwloc-compress-dir",
+    "hwloc-diff": "/usr/local/bin/hwloc-diff",
+    "hwloc-distrib": "/usr/local/bin/hwloc-distrib",
+    "hwloc-gather-cpuid": "/usr/local/bin/hwloc-gather-cpuid",
+    "hwloc-gather-topology": "/usr/local/bin/hwloc-gather-topology",
+    "hwloc-info": "/usr/local/bin/hwloc-info",
+    "hwloc-ls": "/usr/local/bin/hwloc-ls",
+    "hwloc-patch": "/usr/local/bin/hwloc-patch",
+    "hwloc-ps": "/usr/local/bin/hwloc-ps",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.9": "/usr/local/bin/idle3.9",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "instmodsh": "/usr/local/bin/instmodsh",
+    "interpolate_sam.pl": "/usr/local/bin/interpolate_sam.pl",
+    "ippeveprinter": "/usr/local/bin/ippeveprinter",
+    "ipptool": "/usr/local/bin/ipptool",
+    "iqtree": "/usr/local/bin/iqtree",
+    "iqtree2": "/usr/local/bin/iqtree2",
+    "jar": "/usr/local/bin/jar",
+    "jarsigner": "/usr/local/bin/jarsigner",
+    "java": "/usr/local/bin/java",
+    "javac": "/usr/local/bin/javac",
+    "javadoc": "/usr/local/bin/javadoc",
+    "javap": "/usr/local/bin/javap",
+    "jcmd": "/usr/local/bin/jcmd",
+    "jconsole": "/usr/local/bin/jconsole",
+    "jdb": "/usr/local/bin/jdb",
+    "jdeprscan": "/usr/local/bin/jdeprscan",
+    "jdeps": "/usr/local/bin/jdeps",
+    "jfr": "/usr/local/bin/jfr",
+    "jhsdb": "/usr/local/bin/jhsdb",
+    "jimage": "/usr/local/bin/jimage",
+    "jinfo": "/usr/local/bin/jinfo",
+    "jlink": "/usr/local/bin/jlink",
+    "jmap": "/usr/local/bin/jmap",
+    "jmod": "/usr/local/bin/jmod",
+    "jp.py": "/usr/local/bin/jp.py",
+    "jpackage": "/usr/local/bin/jpackage",
+    "jpegtran": "/usr/local/bin/jpegtran",
+    "jpgicc": "/usr/local/bin/jpgicc",
+    "jps": "/usr/local/bin/jps",
+    "jrunscript": "/usr/local/bin/jrunscript",
+    "jshell": "/usr/local/bin/jshell",
+    "json_pp": "/usr/local/bin/json_pp",
+    "jsonschema": "/usr/local/bin/jsonschema",
+    "jstack": "/usr/local/bin/jstack",
+    "jstat": "/usr/local/bin/jstat",
+    "jstatd": "/usr/local/bin/jstatd",
+    "jupyter": "/usr/local/bin/jupyter",
+    "jupyter-migrate": "/usr/local/bin/jupyter-migrate",
+    "jupyter-troubleshoot": "/usr/local/bin/jupyter-troubleshoot",
+    "jupyter-trust": "/usr/local/bin/jupyter-trust",
+    "jwebserver": "/usr/local/bin/jwebserver",
+    "k5srvutil": "/usr/local/bin/k5srvutil",
+    "k8": "/usr/local/bin/k8",
+    "kadmin": "/usr/local/bin/kadmin",
+    "kdestroy": "/usr/local/bin/kdestroy",
+    "keyctl": "/usr/local/bin/keyctl",
+    "keytool": "/usr/local/bin/keytool",
+    "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",
+    "libnetcfg": "/usr/local/bin/libnetcfg",
+    "libpng-config": "/usr/local/bin/libpng-config",
+    "libpng16-config": "/usr/local/bin/libpng16-config",
+    "linkicc": "/usr/local/bin/linkicc",
+    "lstopo": "/usr/local/bin/lstopo",
+    "lstopo-no-graphics": "/usr/local/bin/lstopo-no-graphics",
+    "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",
+    "maq2sam-long": "/usr/local/bin/maq2sam-long",
+    "maq2sam-short": "/usr/local/bin/maq2sam-short",
+    "markdown-it": "/usr/local/bin/markdown-it",
+    "mask_gubbins_aln.py": "/usr/local/bin/mask_gubbins_aln.py",
+    "md5fa": "/usr/local/bin/md5fa",
+    "md5sum-lite": "/usr/local/bin/md5sum-lite",
+    "minimap2": "/usr/local/bin/minimap2",
+    "mpiCC": "/usr/local/bin/mpiCC",
+    "mpic++": "/usr/local/bin/mpic++",
+    "mpicc": "/usr/local/bin/mpicc",
+    "mpicxx": "/usr/local/bin/mpicxx",
+    "mpiexec": "/usr/local/bin/mpiexec",
+    "mpif77": "/usr/local/bin/mpif77",
+    "mpif90": "/usr/local/bin/mpif90",
+    "mpifort": "/usr/local/bin/mpifort",
+    "mpirun": "/usr/local/bin/mpirun",
+    "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",
+    "normalizer": "/usr/local/bin/normalizer",
+    "novo2sam.pl": "/usr/local/bin/novo2sam.pl",
+    "numba": "/usr/local/bin/numba",
+    "ompi-clean": "/usr/local/bin/ompi-clean",
+    "ompi-server": "/usr/local/bin/ompi-server",
+    "ompi_info": "/usr/local/bin/ompi_info",
+    "opal_wrapper": "/usr/local/bin/opal_wrapper",
+    "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",
+    "orte-clean": "/usr/local/bin/orte-clean",
+    "orte-info": "/usr/local/bin/orte-info",
+    "orte-server": "/usr/local/bin/orte-server",
+    "ortecc": "/usr/local/bin/ortecc",
+    "orted": "/usr/local/bin/orted",
+    "orterun": "/usr/local/bin/orterun",
+    "paftools.js": "/usr/local/bin/paftools.js",
+    "pandoc": "/usr/local/bin/pandoc",
+    "pandoc-lua": "/usr/local/bin/pandoc-lua",
+    "pandoc-server": "/usr/local/bin/pandoc-server",
+    "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",
+    "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",
+    "piconv": "/usr/local/bin/piconv",
+    "pip": "/usr/local/bin/pip",
+    "pip3": "/usr/local/bin/pip3",
+    "pkgdata": "/usr/local/bin/pkgdata",
+    "pl2pm": "/usr/local/bin/pl2pm",
+    "plac_runner.py": "/usr/local/bin/plac_runner.py",
+    "plot-ampliconstats": "/usr/local/bin/plot-ampliconstats",
+    "plot-bamstats": "/usr/local/bin/plot-bamstats",
+    "plot-roh.py": "/usr/local/bin/plot-roh.py",
+    "plot-vcfstats": "/usr/local/bin/plot-vcfstats",
+    "plot_gubbins.R": "/usr/local/bin/plot_gubbins.R",
+    "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",
+    "profile2mat.pl": "/usr/local/bin/profile2mat.pl",
+    "protoc": "/usr/local/bin/protoc",
+    "protoc-25.3.0": "/usr/local/bin/protoc-25.3.0",
+    "prove": "/usr/local/bin/prove",
+    "psicc": "/usr/local/bin/psicc",
+    "psl2sam.pl": "/usr/local/bin/psl2sam.pl",
+    "ptar": "/usr/local/bin/ptar",
+    "ptardiff": "/usr/local/bin/ptardiff",
+    "ptargrep": "/usr/local/bin/ptargrep",
+    "pulptest": "/usr/local/bin/pulptest",
+    "py.test": "/usr/local/bin/py.test",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.9": "/usr/local/bin/pydoc3.9",
+    "pyftmerge": "/usr/local/bin/pyftmerge",
+    "pyftsubset": "/usr/local/bin/pyftsubset",
+    "pygmentize": "/usr/local/bin/pygmentize",
+    "pyrsa-decrypt": "/usr/local/bin/pyrsa-decrypt",
+    "pyrsa-encrypt": "/usr/local/bin/pyrsa-encrypt",
+    "pyrsa-keygen": "/usr/local/bin/pyrsa-keygen",
+    "pyrsa-priv2pub": "/usr/local/bin/pyrsa-priv2pub",
+    "pyrsa-sign": "/usr/local/bin/pyrsa-sign",
+    "pyrsa-verify": "/usr/local/bin/pyrsa-verify",
+    "pytest": "/usr/local/bin/pytest",
+    "python": "/usr/local/bin/python",
+    "python3": "/usr/local/bin/python3",
+    "python3-config": "/usr/local/bin/python3-config",
+    "python3.9": "/usr/local/bin/python3.9",
+    "python3.9-config": "/usr/local/bin/python3.9-config",
+    "qconvex": "/usr/local/bin/qconvex",
+    "qdelaunay": "/usr/local/bin/qdelaunay",
+    "qhalf": "/usr/local/bin/qhalf",
+    "qhull": "/usr/local/bin/qhull",
+    "qvoronoi": "/usr/local/bin/qvoronoi",
+    "rapidnj": "/usr/local/bin/rapidnj",
+    "raxml-ng": "/usr/local/bin/raxml-ng",
+    "raxml-ng-mpi": "/usr/local/bin/raxml-ng-mpi",
+    "raxmlHPC": "/usr/local/bin/raxmlHPC",
+    "raxmlHPC-AVX2": "/usr/local/bin/raxmlHPC-AVX2",
+    "raxmlHPC-PTHREADS": "/usr/local/bin/raxmlHPC-PTHREADS",
+    "raxmlHPC-PTHREADS-AVX2": "/usr/local/bin/raxmlHPC-PTHREADS-AVX2",
+    "raxmlHPC-PTHREADS-SSE3": "/usr/local/bin/raxmlHPC-PTHREADS-SSE3",
+    "raxmlHPC-SSE3": "/usr/local/bin/raxmlHPC-SSE3",
+    "rbox": "/usr/local/bin/rbox",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "reset": "/usr/local/bin/reset",
+    "rmiregistry": "/usr/local/bin/rmiregistry",
+    "rst2html": "/usr/local/bin/rst2html",
+    "rst2html4": "/usr/local/bin/rst2html4",
+    "rst2html5": "/usr/local/bin/rst2html5",
+    "rst2latex": "/usr/local/bin/rst2latex",
+    "rst2man": "/usr/local/bin/rst2man",
+    "rst2odt": "/usr/local/bin/rst2odt",
+    "rst2pseudoxml": "/usr/local/bin/rst2pseudoxml",
+    "rst2s5": "/usr/local/bin/rst2s5",
+    "rst2xetex": "/usr/local/bin/rst2xetex",
+    "rst2xml": "/usr/local/bin/rst2xml",
+    "run-roh.pl": "/usr/local/bin/run-roh.pl",
+    "run_gubbins.py": "/usr/local/bin/run_gubbins.py",
+    "sam2vcf.pl": "/usr/local/bin/sam2vcf.pl",
+    "samtools": "/usr/local/bin/samtools",
+    "samtools.pl": "/usr/local/bin/samtools.pl",
+    "sclient": "/usr/local/bin/sclient",
+    "sdust": "/usr/local/bin/sdust",
+    "sed": "/usr/local/bin/sed",
+    "seq_cache_populate.pl": "/usr/local/bin/seq_cache_populate.pl",
+    "seqkit": "/usr/local/bin/seqkit",
+    "serialver": "/usr/local/bin/serialver",
+    "shasum": "/usr/local/bin/shasum",
+    "sim_client": "/usr/local/bin/sim_client",
+    "ska": "/usr/local/bin/ska",
+    "snakemake": "/usr/local/bin/snakemake",
+    "snakemake-bash-completion": "/usr/local/bin/snakemake-bash-completion",
+    "snp-dists": "/usr/local/bin/snp-dists",
+    "soap2sam.pl": "/usr/local/bin/soap2sam.pl",
+    "splain": "/usr/local/bin/splain",
+    "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer",
+    "stone": "/usr/local/bin/stone",
+    "streamzip": "/usr/local/bin/streamzip",
+    "sumlabels": "/usr/local/bin/sumlabels",
+    "sumlabels.py": "/usr/local/bin/sumlabels.py",
+    "sumtrees": "/usr/local/bin/sumtrees",
+    "sumtrees.py": "/usr/local/bin/sumtrees.py",
+    "tabix": "/usr/local/bin/tabix",
+    "tabs": "/usr/local/bin/tabs",
+    "tabulate": "/usr/local/bin/tabulate",
+    "tclsh": "/usr/local/bin/tclsh",
+    "tclsh8.6": "/usr/local/bin/tclsh8.6",
+    "tic": "/usr/local/bin/tic",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "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",
+    "trimmomatic": "/usr/local/bin/trimmomatic",
+    "tset": "/usr/local/bin/tset",
+    "ttx": "/usr/local/bin/ttx",
+    "undill": "/usr/local/bin/undill",
+    "unlzma": "/usr/local/bin/unlzma",
+    "unxz": "/usr/local/bin/unxz",
+    "unzstd": "/usr/local/bin/unzstd",
+    "uuclient": "/usr/local/bin/uuclient",
+    "vcf_filter.py": "/usr/local/bin/vcf_filter.py",
+    "vcf_melt": "/usr/local/bin/vcf_melt",
+    "vcf_sample_filter.py": "/usr/local/bin/vcf_sample_filter.py",
+    "vcfutils.pl": "/usr/local/bin/vcfutils.pl",
+    "wgsim": "/usr/local/bin/wgsim",
+    "wgsim_eval.pl": "/usr/local/bin/wgsim_eval.pl",
+    "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-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_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",
+    "xmlwf": "/usr/local/bin/xmlwf",
+    "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",
+    "yte": "/usr/local/bin/yte",
+    "zipdetails": "/usr/local/bin/zipdetails",
+    "zoom2sam.pl": "/usr/local/bin/zoom2sam.pl",
+    "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/p/poolsnp:1.0.0--py312h7e72e81_0.json b/quay.io/biocontainers/p/poolsnp:1.0.0--py312h7e72e81_0.json
new file mode 100644
index 0000000..fa26163
--- /dev/null
+++ b/quay.io/biocontainers/p/poolsnp:1.0.0--py312h7e72e81_0.json
@@ -0,0 +1,127 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "PoolSNP.sh": "/usr/local/bin/PoolSNP.sh",
+    "PoolSnp.py": "/usr/local/bin/PoolSnp.py",
+    "bad-sites.py": "/usr/local/bin/bad-sites.py",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "clear": "/usr/local/bin/clear",
+    "corelist": "/usr/local/bin/corelist",
+    "cpan": "/usr/local/bin/cpan",
+    "enc2xs": "/usr/local/bin/enc2xs",
+    "encguess": "/usr/local/bin/encguess",
+    "env_parallel": "/usr/local/bin/env_parallel",
+    "env_parallel.ash": "/usr/local/bin/env_parallel.ash",
+    "env_parallel.bash": "/usr/local/bin/env_parallel.bash",
+    "env_parallel.csh": "/usr/local/bin/env_parallel.csh",
+    "env_parallel.dash": "/usr/local/bin/env_parallel.dash",
+    "env_parallel.fish": "/usr/local/bin/env_parallel.fish",
+    "env_parallel.ksh": "/usr/local/bin/env_parallel.ksh",
+    "env_parallel.mksh": "/usr/local/bin/env_parallel.mksh",
+    "env_parallel.pdksh": "/usr/local/bin/env_parallel.pdksh",
+    "env_parallel.sh": "/usr/local/bin/env_parallel.sh",
+    "env_parallel.tcsh": "/usr/local/bin/env_parallel.tcsh",
+    "env_parallel.zsh": "/usr/local/bin/env_parallel.zsh",
+    "h2ph": "/usr/local/bin/h2ph",
+    "h2xs": "/usr/local/bin/h2xs",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "instmodsh": "/usr/local/bin/instmodsh",
+    "json_pp": "/usr/local/bin/json_pp",
+    "libnetcfg": "/usr/local/bin/libnetcfg",
+    "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",
+    "max-cov.py": "/usr/local/bin/max-cov.py",
+    "ncurses6-config": "/usr/local/bin/ncurses6-config",
+    "ncursesw6-config": "/usr/local/bin/ncursesw6-config",
+    "niceload": "/usr/local/bin/niceload",
+    "openssl": "/usr/local/bin/openssl",
+    "parallel": "/usr/local/bin/parallel",
+    "parcat": "/usr/local/bin/parcat",
+    "parset": "/usr/local/bin/parset",
+    "parsort": "/usr/local/bin/parsort",
+    "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",
+    "piconv": "/usr/local/bin/piconv",
+    "pip": "/usr/local/bin/pip",
+    "pip3": "/usr/local/bin/pip3",
+    "pl2pm": "/usr/local/bin/pl2pm",
+    "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",
+    "prove": "/usr/local/bin/prove",
+    "ptar": "/usr/local/bin/ptar",
+    "ptardiff": "/usr/local/bin/ptardiff",
+    "ptargrep": "/usr/local/bin/ptargrep",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "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",
+    "reset": "/usr/local/bin/reset",
+    "sem": "/usr/local/bin/sem",
+    "shasum": "/usr/local/bin/shasum",
+    "splain": "/usr/local/bin/splain",
+    "sql": "/usr/local/bin/sql",
+    "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer",
+    "streamzip": "/usr/local/bin/streamzip",
+    "tabs": "/usr/local/bin/tabs",
+    "tclsh": "/usr/local/bin/tclsh",
+    "tclsh8.6": "/usr/local/bin/tclsh8.6",
+    "tic": "/usr/local/bin/tic",
+    "toe": "/usr/local/bin/toe",
+    "tput": "/usr/local/bin/tput",
+    "tset": "/usr/local/bin/tset",
+    "unlzma": "/usr/local/bin/unlzma",
+    "unxz": "/usr/local/bin/unxz",
+    "wheel": "/usr/local/bin/wheel",
+    "wish": "/usr/local/bin/wish",
+    "wish8.6": "/usr/local/bin/wish8.6",
+    "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",
+    "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",
+    "zipdetails": "/usr/local/bin/zipdetails"
+}
\ No newline at end of file
diff --git a/quay.io/biocontainers/r/r-epitrace:0.0.1.3--r43hdfd78af_0.json b/quay.io/biocontainers/r/r-epitrace:0.0.1.3--r43hdfd78af_0.json
new file mode 100644
index 0000000..0c92598
--- /dev/null
+++ b/quay.io/biocontainers/r/r-epitrace:0.0.1.3--r43hdfd78af_0.json
@@ -0,0 +1,272 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "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",
+    "csv-import": "/usr/local/bin/csv-import",
+    "curl": "/usr/local/bin/curl",
+    "curl-config": "/usr/local/bin/curl-config",
+    "derb": "/usr/local/bin/derb",
+    "djpeg": "/usr/local/bin/djpeg",
+    "elasticurl": "/usr/local/bin/elasticurl",
+    "elasticurl_cpp": "/usr/local/bin/elasticurl_cpp",
+    "elastipubsub": "/usr/local/bin/elastipubsub",
+    "elastipubsub5": "/usr/local/bin/elastipubsub5",
+    "f2py": "/usr/local/bin/f2py",
+    "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",
+    "gflags_completions.sh": "/usr/local/bin/gflags_completions.sh",
+    "glpsol": "/usr/local/bin/glpsol",
+    "grpc_cpp_plugin": "/usr/local/bin/grpc_cpp_plugin",
+    "grpc_csharp_plugin": "/usr/local/bin/grpc_csharp_plugin",
+    "grpc_node_plugin": "/usr/local/bin/grpc_node_plugin",
+    "grpc_objective_c_plugin": "/usr/local/bin/grpc_objective_c_plugin",
+    "grpc_php_plugin": "/usr/local/bin/grpc_php_plugin",
+    "grpc_python_plugin": "/usr/local/bin/grpc_python_plugin",
+    "grpc_ruby_plugin": "/usr/local/bin/grpc_ruby_plugin",
+    "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",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "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",
+    "lz4": "/usr/local/bin/lz4",
+    "lz4c": "/usr/local/bin/lz4c",
+    "lz4cat": "/usr/local/bin/lz4cat",
+    "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",
+    "mqtt5_app": "/usr/local/bin/mqtt5_app",
+    "mqtt5_canary": "/usr/local/bin/mqtt5_canary",
+    "mqtt5canary": "/usr/local/bin/mqtt5canary",
+    "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",
+    "numpy-config": "/usr/local/bin/numpy-config",
+    "onig-config": "/usr/local/bin/onig-config",
+    "openssl": "/usr/local/bin/openssl",
+    "orc-contents": "/usr/local/bin/orc-contents",
+    "orc-memory": "/usr/local/bin/orc-memory",
+    "orc-metadata": "/usr/local/bin/orc-metadata",
+    "orc-scan": "/usr/local/bin/orc-scan",
+    "orc-statistics": "/usr/local/bin/orc-statistics",
+    "pandoc": "/usr/local/bin/pandoc",
+    "pandoc-lua": "/usr/local/bin/pandoc-lua",
+    "pandoc-server": "/usr/local/bin/pandoc-server",
+    "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",
+    "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",
+    "protoc": "/usr/local/bin/protoc",
+    "protoc-25.3.0": "/usr/local/bin/protoc-25.3.0",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "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",
+    "python3.12": "/usr/local/bin/python3.12",
+    "python3.12-config": "/usr/local/bin/python3.12-config",
+    "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",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "tiffset": "/usr/local/bin/tiffset",
+    "tiffsplit": "/usr/local/bin/tiffsplit",
+    "timezone-dump": "/usr/local/bin/timezone-dump",
+    "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",
+    "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",
+    "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-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_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",
+    "xmlwf": "/usr/local/bin/xmlwf",
+    "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/r/r-gchromvar:0.3.2--r43hdfd78af_0.json b/quay.io/biocontainers/r/r-gchromvar:0.3.2--r43hdfd78af_0.json
new file mode 100644
index 0000000..c45e39a
--- /dev/null
+++ b/quay.io/biocontainers/r/r-gchromvar:0.3.2--r43hdfd78af_0.json
@@ -0,0 +1,241 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "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",
+    "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",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "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",
+    "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",
+    "pandoc": "/usr/local/bin/pandoc",
+    "pandoc-lua": "/usr/local/bin/pandoc-lua",
+    "pandoc-server": "/usr/local/bin/pandoc-server",
+    "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",
+    "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",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "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",
+    "python3.12": "/usr/local/bin/python3.12",
+    "python3.12-config": "/usr/local/bin/python3.12-config",
+    "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",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "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",
+    "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-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_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",
+    "xmlwf": "/usr/local/bin/xmlwf",
+    "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/r/r-redeemr:1.0.0--r43h031d066_0.json b/quay.io/biocontainers/r/r-redeemr:1.0.0--r43h031d066_0.json
new file mode 100644
index 0000000..a99e46d
--- /dev/null
+++ b/quay.io/biocontainers/r/r-redeemr:1.0.0--r43h031d066_0.json
@@ -0,0 +1,242 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "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",
+    "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",
+    "glpsol": "/usr/local/bin/glpsol",
+    "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",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "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",
+    "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",
+    "pandoc": "/usr/local/bin/pandoc",
+    "pandoc-lua": "/usr/local/bin/pandoc-lua",
+    "pandoc-server": "/usr/local/bin/pandoc-server",
+    "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",
+    "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",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "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",
+    "python3.12": "/usr/local/bin/python3.12",
+    "python3.12-config": "/usr/local/bin/python3.12-config",
+    "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",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "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",
+    "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-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_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",
+    "xmlwf": "/usr/local/bin/xmlwf",
+    "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/r/r-scavenge:1.0.2--r43hdfd78af_0.json b/quay.io/biocontainers/r/r-scavenge:1.0.2--r43hdfd78af_0.json
new file mode 100644
index 0000000..a99e46d
--- /dev/null
+++ b/quay.io/biocontainers/r/r-scavenge:1.0.2--r43hdfd78af_0.json
@@ -0,0 +1,242 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "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",
+    "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",
+    "glpsol": "/usr/local/bin/glpsol",
+    "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",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "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",
+    "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",
+    "pandoc": "/usr/local/bin/pandoc",
+    "pandoc-lua": "/usr/local/bin/pandoc-lua",
+    "pandoc-server": "/usr/local/bin/pandoc-server",
+    "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",
+    "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",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "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",
+    "python3.12": "/usr/local/bin/python3.12",
+    "python3.12-config": "/usr/local/bin/python3.12-config",
+    "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",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "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",
+    "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-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_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",
+    "xmlwf": "/usr/local/bin/xmlwf",
+    "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/r/rapidshapes:2.1.0--pl5321h4ac6f70_0.json b/quay.io/biocontainers/r/rapidshapes:2.1.0--pl5321h4ac6f70_0.json
new file mode 100644
index 0000000..6e4ba99
--- /dev/null
+++ b/quay.io/biocontainers/r/rapidshapes:2.1.0--pl5321h4ac6f70_0.json
@@ -0,0 +1,191 @@
+{
+    "RapidShapes": "/usr/local/bin/RapidShapes",
+    "RapidShapes_kbest_macrostate": "/usr/local/bin/RapidShapes_kbest_macrostate",
+    "RapidShapes_kbest_microstate": "/usr/local/bin/RapidShapes_kbest_microstate",
+    "RapidShapes_kbest_nodangle": "/usr/local/bin/RapidShapes_kbest_nodangle",
+    "RapidShapes_kbest_overdangle": "/usr/local/bin/RapidShapes_kbest_overdangle",
+    "RapidShapes_pfall_macrostate": "/usr/local/bin/RapidShapes_pfall_macrostate",
+    "RapidShapes_pfall_microstate": "/usr/local/bin/RapidShapes_pfall_microstate",
+    "RapidShapes_pfall_nodangle": "/usr/local/bin/RapidShapes_pfall_nodangle",
+    "RapidShapes_pfall_overdangle": "/usr/local/bin/RapidShapes_pfall_overdangle",
+    "RapidShapes_sample_macrostate": "/usr/local/bin/RapidShapes_sample_macrostate",
+    "RapidShapes_sample_microstate": "/usr/local/bin/RapidShapes_sample_microstate",
+    "RapidShapes_sample_nodangle": "/usr/local/bin/RapidShapes_sample_nodangle",
+    "RapidShapes_sample_overdangle": "/usr/local/bin/RapidShapes_sample_overdangle",
+    "RapidShapes_subopt_macrostate": "/usr/local/bin/RapidShapes_subopt_macrostate",
+    "RapidShapes_subopt_microstate": "/usr/local/bin/RapidShapes_subopt_microstate",
+    "RapidShapes_subopt_nodangle": "/usr/local/bin/RapidShapes_subopt_nodangle",
+    "RapidShapes_subopt_overdangle": "/usr/local/bin/RapidShapes_subopt_overdangle",
+    "RapidShapes_tdm_macrostate_1": "/usr/local/bin/RapidShapes_tdm_macrostate_1",
+    "RapidShapes_tdm_macrostate_2": "/usr/local/bin/RapidShapes_tdm_macrostate_2",
+    "RapidShapes_tdm_macrostate_3": "/usr/local/bin/RapidShapes_tdm_macrostate_3",
+    "RapidShapes_tdm_macrostate_4": "/usr/local/bin/RapidShapes_tdm_macrostate_4",
+    "RapidShapes_tdm_macrostate_5": "/usr/local/bin/RapidShapes_tdm_macrostate_5",
+    "RapidShapes_tdm_microstate_1": "/usr/local/bin/RapidShapes_tdm_microstate_1",
+    "RapidShapes_tdm_microstate_2": "/usr/local/bin/RapidShapes_tdm_microstate_2",
+    "RapidShapes_tdm_microstate_3": "/usr/local/bin/RapidShapes_tdm_microstate_3",
+    "RapidShapes_tdm_microstate_4": "/usr/local/bin/RapidShapes_tdm_microstate_4",
+    "RapidShapes_tdm_microstate_5": "/usr/local/bin/RapidShapes_tdm_microstate_5",
+    "RapidShapes_tdm_nodangle_1": "/usr/local/bin/RapidShapes_tdm_nodangle_1",
+    "RapidShapes_tdm_nodangle_2": "/usr/local/bin/RapidShapes_tdm_nodangle_2",
+    "RapidShapes_tdm_nodangle_3": "/usr/local/bin/RapidShapes_tdm_nodangle_3",
+    "RapidShapes_tdm_nodangle_4": "/usr/local/bin/RapidShapes_tdm_nodangle_4",
+    "RapidShapes_tdm_nodangle_5": "/usr/local/bin/RapidShapes_tdm_nodangle_5",
+    "RapidShapes_tdm_overdangle_1": "/usr/local/bin/RapidShapes_tdm_overdangle_1",
+    "RapidShapes_tdm_overdangle_2": "/usr/local/bin/RapidShapes_tdm_overdangle_2",
+    "RapidShapes_tdm_overdangle_3": "/usr/local/bin/RapidShapes_tdm_overdangle_3",
+    "RapidShapes_tdm_overdangle_4": "/usr/local/bin/RapidShapes_tdm_overdangle_4",
+    "RapidShapes_tdm_overdangle_5": "/usr/local/bin/RapidShapes_tdm_overdangle_5",
+    "addRNAoptions.pl": "/usr/local/bin/addRNAoptions.pl",
+    "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",
+    "corelist": "/usr/local/bin/corelist",
+    "cpan": "/usr/local/bin/cpan",
+    "derb": "/usr/local/bin/derb",
+    "enc2xs": "/usr/local/bin/enc2xs",
+    "encguess": "/usr/local/bin/encguess",
+    "gapc": "/usr/local/bin/gapc",
+    "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",
+    "h2ph": "/usr/local/bin/h2ph",
+    "h2xs": "/usr/local/bin/h2xs",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "instmodsh": "/usr/local/bin/instmodsh",
+    "json_pp": "/usr/local/bin/json_pp",
+    "libnetcfg": "/usr/local/bin/libnetcfg",
+    "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",
+    "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",
+    "piconv": "/usr/local/bin/piconv",
+    "pkgdata": "/usr/local/bin/pkgdata",
+    "pl2pm": "/usr/local/bin/pl2pm",
+    "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",
+    "prove": "/usr/local/bin/prove",
+    "ptar": "/usr/local/bin/ptar",
+    "ptardiff": "/usr/local/bin/ptardiff",
+    "ptargrep": "/usr/local/bin/ptargrep",
+    "sed": "/usr/local/bin/sed",
+    "shasum": "/usr/local/bin/shasum",
+    "splain": "/usr/local/bin/splain",
+    "streamzip": "/usr/local/bin/streamzip",
+    "tdmwrapper": "/usr/local/bin/tdmwrapper",
+    "unlzma": "/usr/local/bin/unlzma",
+    "unxz": "/usr/local/bin/unxz",
+    "unzstd": "/usr/local/bin/unzstd",
+    "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-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-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_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-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-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",
+    "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",
+    "zipdetails": "/usr/local/bin/zipdetails",
+    "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/rcx-tk:0.1.0--pyhdfd78af_0.json b/quay.io/biocontainers/r/rcx-tk:0.1.0--pyhdfd78af_0.json
new file mode 100644
index 0000000..a1d2cc5
--- /dev/null
+++ b/quay.io/biocontainers/r/rcx-tk:0.1.0--pyhdfd78af_0.json
@@ -0,0 +1,124 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "cjpeg": "/usr/local/bin/cjpeg",
+    "clear": "/usr/local/bin/clear",
+    "djpeg": "/usr/local/bin/djpeg",
+    "dmypy": "/usr/local/bin/dmypy",
+    "f2py": "/usr/local/bin/f2py",
+    "fonttools": "/usr/local/bin/fonttools",
+    "freetype-config": "/usr/local/bin/freetype-config",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "jpegtran": "/usr/local/bin/jpegtran",
+    "jpgicc": "/usr/local/bin/jpgicc",
+    "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",
+    "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",
+    "mypy": "/usr/local/bin/mypy",
+    "mypyc": "/usr/local/bin/mypyc",
+    "ncurses6-config": "/usr/local/bin/ncurses6-config",
+    "ncursesw6-config": "/usr/local/bin/ncursesw6-config",
+    "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",
+    "pip": "/usr/local/bin/pip",
+    "pip3": "/usr/local/bin/pip3",
+    "png-fix-itxt": "/usr/local/bin/png-fix-itxt",
+    "pngfix": "/usr/local/bin/pngfix",
+    "psicc": "/usr/local/bin/psicc",
+    "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",
+    "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",
+    "qdelaunay": "/usr/local/bin/qdelaunay",
+    "qhalf": "/usr/local/bin/qhalf",
+    "qhull": "/usr/local/bin/qhull",
+    "qvoronoi": "/usr/local/bin/qvoronoi",
+    "rbox": "/usr/local/bin/rbox",
+    "rcx_tk": "/usr/local/bin/rcx_tk",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "reset": "/usr/local/bin/reset",
+    "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer",
+    "stubgen": "/usr/local/bin/stubgen",
+    "stubtest": "/usr/local/bin/stubtest",
+    "tabs": "/usr/local/bin/tabs",
+    "tclsh": "/usr/local/bin/tclsh",
+    "tclsh8.6": "/usr/local/bin/tclsh8.6",
+    "tic": "/usr/local/bin/tic",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "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",
+    "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",
+    "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/s/seacells:0.3.3--pyhdfd78af_0.json b/quay.io/biocontainers/s/seacells:0.3.3--pyhdfd78af_0.json
new file mode 100644
index 0000000..69fcca4
--- /dev/null
+++ b/quay.io/biocontainers/s/seacells:0.3.3--pyhdfd78af_0.json
@@ -0,0 +1,212 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "adig": "/usr/local/bin/adig",
+    "ahost": "/usr/local/bin/ahost",
+    "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",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "cjpeg": "/usr/local/bin/cjpeg",
+    "clear": "/usr/local/bin/clear",
+    "compile_et": "/usr/local/bin/compile_et",
+    "curl-config": "/usr/local/bin/curl-config",
+    "derb": "/usr/local/bin/derb",
+    "djpeg": "/usr/local/bin/djpeg",
+    "f2py": "/usr/local/bin/f2py",
+    "fonttools": "/usr/local/bin/fonttools",
+    "freetype-config": "/usr/local/bin/freetype-config",
+    "futurize": "/usr/local/bin/futurize",
+    "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",
+    "gif2h5": "/usr/local/bin/gif2h5",
+    "glpsol": "/usr/local/bin/glpsol",
+    "grpc_cpp_plugin": "/usr/local/bin/grpc_cpp_plugin",
+    "grpc_csharp_plugin": "/usr/local/bin/grpc_csharp_plugin",
+    "grpc_node_plugin": "/usr/local/bin/grpc_node_plugin",
+    "grpc_objective_c_plugin": "/usr/local/bin/grpc_objective_c_plugin",
+    "grpc_php_plugin": "/usr/local/bin/grpc_php_plugin",
+    "grpc_python_plugin": "/usr/local/bin/grpc_python_plugin",
+    "grpc_ruby_plugin": "/usr/local/bin/grpc_ruby_plugin",
+    "gss-client": "/usr/local/bin/gss-client",
+    "h52gif": "/usr/local/bin/h52gif",
+    "h5c++": "/usr/local/bin/h5c++",
+    "h5cc": "/usr/local/bin/h5cc",
+    "h5clear": "/usr/local/bin/h5clear",
+    "h5copy": "/usr/local/bin/h5copy",
+    "h5debug": "/usr/local/bin/h5debug",
+    "h5delete": "/usr/local/bin/h5delete",
+    "h5diff": "/usr/local/bin/h5diff",
+    "h5dump": "/usr/local/bin/h5dump",
+    "h5fc": "/usr/local/bin/h5fc",
+    "h5format_convert": "/usr/local/bin/h5format_convert",
+    "h5fuse.sh": "/usr/local/bin/h5fuse.sh",
+    "h5import": "/usr/local/bin/h5import",
+    "h5jam": "/usr/local/bin/h5jam",
+    "h5ls": "/usr/local/bin/h5ls",
+    "h5mkgrp": "/usr/local/bin/h5mkgrp",
+    "h5perf_serial": "/usr/local/bin/h5perf_serial",
+    "h5redeploy": "/usr/local/bin/h5redeploy",
+    "h5repack": "/usr/local/bin/h5repack",
+    "h5repart": "/usr/local/bin/h5repart",
+    "h5stat": "/usr/local/bin/h5stat",
+    "h5tools_test_utils": "/usr/local/bin/h5tools_test_utils",
+    "h5unjam": "/usr/local/bin/h5unjam",
+    "h5watch": "/usr/local/bin/h5watch",
+    "hwloc-annotate": "/usr/local/bin/hwloc-annotate",
+    "hwloc-bind": "/usr/local/bin/hwloc-bind",
+    "hwloc-calc": "/usr/local/bin/hwloc-calc",
+    "hwloc-compress-dir": "/usr/local/bin/hwloc-compress-dir",
+    "hwloc-diff": "/usr/local/bin/hwloc-diff",
+    "hwloc-distrib": "/usr/local/bin/hwloc-distrib",
+    "hwloc-gather-cpuid": "/usr/local/bin/hwloc-gather-cpuid",
+    "hwloc-gather-topology": "/usr/local/bin/hwloc-gather-topology",
+    "hwloc-info": "/usr/local/bin/hwloc-info",
+    "hwloc-ls": "/usr/local/bin/hwloc-ls",
+    "hwloc-patch": "/usr/local/bin/hwloc-patch",
+    "hwloc-ps": "/usr/local/bin/hwloc-ps",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "igraph": "/usr/local/bin/igraph",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "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",
+    "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",
+    "linkicc": "/usr/local/bin/linkicc",
+    "lstopo": "/usr/local/bin/lstopo",
+    "lstopo-no-graphics": "/usr/local/bin/lstopo-no-graphics",
+    "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",
+    "natsort": "/usr/local/bin/natsort",
+    "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",
+    "numba": "/usr/local/bin/numba",
+    "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",
+    "pasteurize": "/usr/local/bin/pasteurize",
+    "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",
+    "progressbar": "/usr/local/bin/progressbar",
+    "protoc": "/usr/local/bin/protoc",
+    "protoc-25.3.0": "/usr/local/bin/protoc-25.3.0",
+    "psicc": "/usr/local/bin/psicc",
+    "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",
+    "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",
+    "qdelaunay": "/usr/local/bin/qdelaunay",
+    "qhalf": "/usr/local/bin/qhalf",
+    "qhull": "/usr/local/bin/qhull",
+    "qvoronoi": "/usr/local/bin/qvoronoi",
+    "rbox": "/usr/local/bin/rbox",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "reset": "/usr/local/bin/reset",
+    "scanpy": "/usr/local/bin/scanpy",
+    "sclient": "/usr/local/bin/sclient",
+    "sim_client": "/usr/local/bin/sim_client",
+    "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer",
+    "tabs": "/usr/local/bin/tabs",
+    "tabulate": "/usr/local/bin/tabulate",
+    "tclsh": "/usr/local/bin/tclsh",
+    "tclsh8.6": "/usr/local/bin/tclsh8.6",
+    "tic": "/usr/local/bin/tic",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "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",
+    "tqdm": "/usr/local/bin/tqdm",
+    "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",
+    "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",
+    "xml2-config": "/usr/local/bin/xml2-config",
+    "xmlcatalog": "/usr/local/bin/xmlcatalog",
+    "xmllint": "/usr/local/bin/xmllint",
+    "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/s/splitubam:0.1.1--hc9368f3_0.json b/quay.io/biocontainers/s/splitubam:0.1.1--hc9368f3_0.json
new file mode 100644
index 0000000..60aaeab
--- /dev/null
+++ b/quay.io/biocontainers/s/splitubam:0.1.1--hc9368f3_0.json
@@ -0,0 +1,3 @@
+{
+    "splitubam": "/usr/local/bin/splitubam"
+}
\ No newline at end of file
diff --git a/quay.io/biocontainers/t/taseq:1.0.0--pyh7e72e81_0.json b/quay.io/biocontainers/t/taseq:1.0.0--pyh7e72e81_0.json
new file mode 100644
index 0000000..1c0806a
--- /dev/null
+++ b/quay.io/biocontainers/t/taseq:1.0.0--pyh7e72e81_0.json
@@ -0,0 +1,277 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "ace2sam": "/usr/local/bin/ace2sam",
+    "adig": "/usr/local/bin/adig",
+    "ahost": "/usr/local/bin/ahost",
+    "annot-tsv": "/usr/local/bin/annot-tsv",
+    "aserver": "/usr/local/bin/aserver",
+    "bgzip": "/usr/local/bin/bgzip",
+    "blast2sam.pl": "/usr/local/bin/blast2sam.pl",
+    "bowtie2sam.pl": "/usr/local/bin/bowtie2sam.pl",
+    "brotli": "/usr/local/bin/brotli",
+    "bunzip2": "/usr/local/bin/bunzip2",
+    "bwa": "/usr/local/bin/bwa",
+    "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",
+    "corelist": "/usr/local/bin/corelist",
+    "cpan": "/usr/local/bin/cpan",
+    "cups-config": "/usr/local/bin/cups-config",
+    "curl-config": "/usr/local/bin/curl-config",
+    "derb": "/usr/local/bin/derb",
+    "djpeg": "/usr/local/bin/djpeg",
+    "enc2xs": "/usr/local/bin/enc2xs",
+    "encguess": "/usr/local/bin/encguess",
+    "export2sam.pl": "/usr/local/bin/export2sam.pl",
+    "f2py": "/usr/local/bin/f2py",
+    "fasta-sanitize.pl": "/usr/local/bin/fasta-sanitize.pl",
+    "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",
+    "gatk": "/usr/local/bin/gatk",
+    "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",
+    "gif2rgb": "/usr/local/bin/gif2rgb",
+    "gifbuild": "/usr/local/bin/gifbuild",
+    "gifclrmp": "/usr/local/bin/gifclrmp",
+    "giffix": "/usr/local/bin/giffix",
+    "giftext": "/usr/local/bin/giftext",
+    "giftool": "/usr/local/bin/giftool",
+    "gss-client": "/usr/local/bin/gss-client",
+    "h2ph": "/usr/local/bin/h2ph",
+    "h2xs": "/usr/local/bin/h2xs",
+    "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",
+    "htsfile": "/usr/local/bin/htsfile",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "instmodsh": "/usr/local/bin/instmodsh",
+    "interpolate_sam.pl": "/usr/local/bin/interpolate_sam.pl",
+    "ippeveprinter": "/usr/local/bin/ippeveprinter",
+    "ipptool": "/usr/local/bin/ipptool",
+    "jar": "/usr/local/bin/jar",
+    "jarsigner": "/usr/local/bin/jarsigner",
+    "java": "/usr/local/bin/java",
+    "javac": "/usr/local/bin/javac",
+    "javadoc": "/usr/local/bin/javadoc",
+    "javap": "/usr/local/bin/javap",
+    "jcmd": "/usr/local/bin/jcmd",
+    "jconsole": "/usr/local/bin/jconsole",
+    "jdb": "/usr/local/bin/jdb",
+    "jdeprscan": "/usr/local/bin/jdeprscan",
+    "jdeps": "/usr/local/bin/jdeps",
+    "jfr": "/usr/local/bin/jfr",
+    "jhsdb": "/usr/local/bin/jhsdb",
+    "jimage": "/usr/local/bin/jimage",
+    "jinfo": "/usr/local/bin/jinfo",
+    "jlink": "/usr/local/bin/jlink",
+    "jmap": "/usr/local/bin/jmap",
+    "jmod": "/usr/local/bin/jmod",
+    "jpackage": "/usr/local/bin/jpackage",
+    "jpegtran": "/usr/local/bin/jpegtran",
+    "jpgicc": "/usr/local/bin/jpgicc",
+    "jps": "/usr/local/bin/jps",
+    "jrunscript": "/usr/local/bin/jrunscript",
+    "jshell": "/usr/local/bin/jshell",
+    "json_pp": "/usr/local/bin/json_pp",
+    "jstack": "/usr/local/bin/jstack",
+    "jstat": "/usr/local/bin/jstat",
+    "jstatd": "/usr/local/bin/jstatd",
+    "k5srvutil": "/usr/local/bin/k5srvutil",
+    "kadmin": "/usr/local/bin/kadmin",
+    "kdestroy": "/usr/local/bin/kdestroy",
+    "keyctl": "/usr/local/bin/keyctl",
+    "keytool": "/usr/local/bin/keytool",
+    "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",
+    "libnetcfg": "/usr/local/bin/libnetcfg",
+    "libpng-config": "/usr/local/bin/libpng-config",
+    "libpng16-config": "/usr/local/bin/libpng16-config",
+    "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",
+    "maq2sam-long": "/usr/local/bin/maq2sam-long",
+    "maq2sam-short": "/usr/local/bin/maq2sam-short",
+    "md5fa": "/usr/local/bin/md5fa",
+    "md5sum-lite": "/usr/local/bin/md5sum-lite",
+    "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",
+    "novo2sam.pl": "/usr/local/bin/novo2sam.pl",
+    "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",
+    "pcre2-config": "/usr/local/bin/pcre2-config",
+    "pcre2grep": "/usr/local/bin/pcre2grep",
+    "pcre2test": "/usr/local/bin/pcre2test",
+    "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",
+    "picard": "/usr/local/bin/picard",
+    "piconv": "/usr/local/bin/piconv",
+    "pip": "/usr/local/bin/pip",
+    "pip3": "/usr/local/bin/pip3",
+    "pkgdata": "/usr/local/bin/pkgdata",
+    "pl2pm": "/usr/local/bin/pl2pm",
+    "plot-ampliconstats": "/usr/local/bin/plot-ampliconstats",
+    "plot-bamstats": "/usr/local/bin/plot-bamstats",
+    "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",
+    "prove": "/usr/local/bin/prove",
+    "psicc": "/usr/local/bin/psicc",
+    "psl2sam.pl": "/usr/local/bin/psl2sam.pl",
+    "ptar": "/usr/local/bin/ptar",
+    "ptardiff": "/usr/local/bin/ptardiff",
+    "ptargrep": "/usr/local/bin/ptargrep",
+    "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",
+    "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",
+    "qdelaunay": "/usr/local/bin/qdelaunay",
+    "qhalf": "/usr/local/bin/qhalf",
+    "qhull": "/usr/local/bin/qhull",
+    "qualfa2fq.pl": "/usr/local/bin/qualfa2fq.pl",
+    "qvoronoi": "/usr/local/bin/qvoronoi",
+    "rbox": "/usr/local/bin/rbox",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "reset": "/usr/local/bin/reset",
+    "rmiregistry": "/usr/local/bin/rmiregistry",
+    "sam2vcf.pl": "/usr/local/bin/sam2vcf.pl",
+    "samtools": "/usr/local/bin/samtools",
+    "samtools.pl": "/usr/local/bin/samtools.pl",
+    "sclient": "/usr/local/bin/sclient",
+    "seq_cache_populate.pl": "/usr/local/bin/seq_cache_populate.pl",
+    "serialver": "/usr/local/bin/serialver",
+    "shasum": "/usr/local/bin/shasum",
+    "sim_client": "/usr/local/bin/sim_client",
+    "soap2sam.pl": "/usr/local/bin/soap2sam.pl",
+    "splain": "/usr/local/bin/splain",
+    "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer",
+    "streamzip": "/usr/local/bin/streamzip",
+    "tabix": "/usr/local/bin/tabix",
+    "tabs": "/usr/local/bin/tabs",
+    "taseq": "/usr/local/bin/taseq",
+    "taseq_draw": "/usr/local/bin/taseq_draw",
+    "taseq_filter": "/usr/local/bin/taseq_filter",
+    "taseq_genotype": "/usr/local/bin/taseq_genotype",
+    "taseq_hapcall": "/usr/local/bin/taseq_hapcall",
+    "tclsh": "/usr/local/bin/tclsh",
+    "tclsh8.6": "/usr/local/bin/tclsh8.6",
+    "tic": "/usr/local/bin/tic",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "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",
+    "trimmomatic": "/usr/local/bin/trimmomatic",
+    "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",
+    "wgsim": "/usr/local/bin/wgsim",
+    "wgsim_eval.pl": "/usr/local/bin/wgsim_eval.pl",
+    "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",
+    "xa2multi.pl": "/usr/local/bin/xa2multi.pl",
+    "xmlwf": "/usr/local/bin/xmlwf",
+    "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",
+    "zipdetails": "/usr/local/bin/zipdetails",
+    "zoom2sam.pl": "/usr/local/bin/zoom2sam.pl",
+    "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/treesimulator:0.1.22--pyhdfd78af_0.json b/quay.io/biocontainers/t/treesimulator:0.1.22--pyhdfd78af_0.json
new file mode 100644
index 0000000..94e771c
--- /dev/null
+++ b/quay.io/biocontainers/t/treesimulator:0.1.22--pyhdfd78af_0.json
@@ -0,0 +1,316 @@
+{
+    "2to3": "/usr/local/bin/2to3",
+    "2to3-3.12": "/usr/local/bin/2to3-3.12",
+    "aserver": "/usr/local/bin/aserver",
+    "assistant": "/usr/local/bin/assistant",
+    "attr": "/usr/local/bin/attr",
+    "autopoint": "/usr/local/bin/autopoint",
+    "balsam": "/usr/local/bin/balsam",
+    "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",
+    "canbusutil": "/usr/local/bin/canbusutil",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "certutil": "/usr/local/bin/certutil",
+    "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",
+    "derb": "/usr/local/bin/derb",
+    "designer": "/usr/local/bin/designer",
+    "djpeg": "/usr/local/bin/djpeg",
+    "dumpsexp": "/usr/local/bin/dumpsexp",
+    "envsubst": "/usr/local/bin/envsubst",
+    "ete3": "/usr/local/bin/ete3",
+    "f2py": "/usr/local/bin/f2py",
+    "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",
+    "fixqt4headers.pl": "/usr/local/bin/fixqt4headers.pl",
+    "flac": "/usr/local/bin/flac",
+    "freetype-config": "/usr/local/bin/freetype-config",
+    "gapplication": "/usr/local/bin/gapplication",
+    "gdbus": "/usr/local/bin/gdbus",
+    "gdbus-codegen": "/usr/local/bin/gdbus-codegen",
+    "genbrk": "/usr/local/bin/genbrk",
+    "gencfu": "/usr/local/bin/gencfu",
+    "gencnval": "/usr/local/bin/gencnval",
+    "gendict": "/usr/local/bin/gendict",
+    "generate_bd": "/usr/local/bin/generate_bd",
+    "generate_bdei": "/usr/local/bin/generate_bdei",
+    "generate_bdss": "/usr/local/bin/generate_bdss",
+    "generate_mtbd": "/usr/local/bin/generate_mtbd",
+    "genrb": "/usr/local/bin/genrb",
+    "getfattr": "/usr/local/bin/getfattr",
+    "gettext": "/usr/local/bin/gettext",
+    "gettext.sh": "/usr/local/bin/gettext.sh",
+    "gettextize": "/usr/local/bin/gettextize",
+    "gi-compile-repository": "/usr/local/bin/gi-compile-repository",
+    "gi-decompile-typelib": "/usr/local/bin/gi-decompile-typelib",
+    "gi-inspect-typelib": "/usr/local/bin/gi-inspect-typelib",
+    "gio": "/usr/local/bin/gio",
+    "gio-querymodules": "/usr/local/bin/gio-querymodules",
+    "glib-compile-resources": "/usr/local/bin/glib-compile-resources",
+    "glib-compile-schemas": "/usr/local/bin/glib-compile-schemas",
+    "glib-genmarshal": "/usr/local/bin/glib-genmarshal",
+    "glib-gettextize": "/usr/local/bin/glib-gettextize",
+    "glib-mkenums": "/usr/local/bin/glib-mkenums",
+    "gobject-query": "/usr/local/bin/gobject-query",
+    "gpg-error": "/usr/local/bin/gpg-error",
+    "gpgrt-config": "/usr/local/bin/gpgrt-config",
+    "gresource": "/usr/local/bin/gresource",
+    "gsettings": "/usr/local/bin/gsettings",
+    "gss-client": "/usr/local/bin/gss-client",
+    "gst-device-monitor-1.0": "/usr/local/bin/gst-device-monitor-1.0",
+    "gst-discoverer-1.0": "/usr/local/bin/gst-discoverer-1.0",
+    "gst-inspect-1.0": "/usr/local/bin/gst-inspect-1.0",
+    "gst-launch-1.0": "/usr/local/bin/gst-launch-1.0",
+    "gst-play-1.0": "/usr/local/bin/gst-play-1.0",
+    "gst-stats-1.0": "/usr/local/bin/gst-stats-1.0",
+    "gst-typefind-1.0": "/usr/local/bin/gst-typefind-1.0",
+    "gtester": "/usr/local/bin/gtester",
+    "gtester-report": "/usr/local/bin/gtester-report",
+    "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",
+    "hmac256": "/usr/local/bin/hmac256",
+    "icu-config": "/usr/local/bin/icu-config",
+    "icuexportdata": "/usr/local/bin/icuexportdata",
+    "icuinfo": "/usr/local/bin/icuinfo",
+    "idle3": "/usr/local/bin/idle3",
+    "idle3.12": "/usr/local/bin/idle3.12",
+    "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",
+    "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",
+    "lame": "/usr/local/bin/lame",
+    "lconvert": "/usr/local/bin/lconvert",
+    "libpng-config": "/usr/local/bin/libpng-config",
+    "libpng16-config": "/usr/local/bin/libpng16-config",
+    "linguist": "/usr/local/bin/linguist",
+    "lprodump": "/usr/local/bin/lprodump",
+    "lrelease": "/usr/local/bin/lrelease",
+    "lrelease-pro": "/usr/local/bin/lrelease-pro",
+    "lupdate": "/usr/local/bin/lupdate",
+    "lupdate-pro": "/usr/local/bin/lupdate-pro",
+    "lz4": "/usr/local/bin/lz4",
+    "lz4c": "/usr/local/bin/lz4c",
+    "lz4cat": "/usr/local/bin/lz4cat",
+    "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",
+    "meshdebug": "/usr/local/bin/meshdebug",
+    "metaflac": "/usr/local/bin/metaflac",
+    "moc": "/usr/local/bin/moc",
+    "mpg123": "/usr/local/bin/mpg123",
+    "mpg123-id3dump": "/usr/local/bin/mpg123-id3dump",
+    "mpg123-strip": "/usr/local/bin/mpg123-strip",
+    "mpicalc": "/usr/local/bin/mpicalc",
+    "msgattrib": "/usr/local/bin/msgattrib",
+    "msgcat": "/usr/local/bin/msgcat",
+    "msgcmp": "/usr/local/bin/msgcmp",
+    "msgcomm": "/usr/local/bin/msgcomm",
+    "msgconv": "/usr/local/bin/msgconv",
+    "msgen": "/usr/local/bin/msgen",
+    "msgexec": "/usr/local/bin/msgexec",
+    "msgfilter": "/usr/local/bin/msgfilter",
+    "msgfmt": "/usr/local/bin/msgfmt",
+    "msggrep": "/usr/local/bin/msggrep",
+    "msginit": "/usr/local/bin/msginit",
+    "msgmerge": "/usr/local/bin/msgmerge",
+    "msgunfmt": "/usr/local/bin/msgunfmt",
+    "msguniq": "/usr/local/bin/msguniq",
+    "ncurses6-config": "/usr/local/bin/ncurses6-config",
+    "ncursesw6-config": "/usr/local/bin/ncursesw6-config",
+    "ngettext": "/usr/local/bin/ngettext",
+    "nspr-config": "/usr/local/bin/nspr-config",
+    "nss-config": "/usr/local/bin/nss-config",
+    "numpy-config": "/usr/local/bin/numpy-config",
+    "openssl": "/usr/local/bin/openssl",
+    "out123": "/usr/local/bin/out123",
+    "pa-info": "/usr/local/bin/pa-info",
+    "pacat": "/usr/local/bin/pacat",
+    "pactl": "/usr/local/bin/pactl",
+    "padsp": "/usr/local/bin/padsp",
+    "pamon": "/usr/local/bin/pamon",
+    "paplay": "/usr/local/bin/paplay",
+    "parec": "/usr/local/bin/parec",
+    "parecord": "/usr/local/bin/parecord",
+    "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",
+    "pixeltool": "/usr/local/bin/pixeltool",
+    "pk12util": "/usr/local/bin/pk12util",
+    "pkgdata": "/usr/local/bin/pkgdata",
+    "png-fix-itxt": "/usr/local/bin/png-fix-itxt",
+    "pngfix": "/usr/local/bin/pngfix",
+    "pydoc": "/usr/local/bin/pydoc",
+    "pydoc3": "/usr/local/bin/pydoc3",
+    "pydoc3.12": "/usr/local/bin/pydoc3.12",
+    "pylupdate5": "/usr/local/bin/pylupdate5",
+    "pyrcc5": "/usr/local/bin/pyrcc5",
+    "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",
+    "pyuic5": "/usr/local/bin/pyuic5",
+    "qcollectiongenerator": "/usr/local/bin/qcollectiongenerator",
+    "qdbus": "/usr/local/bin/qdbus",
+    "qdbuscpp2xml": "/usr/local/bin/qdbuscpp2xml",
+    "qdbusviewer": "/usr/local/bin/qdbusviewer",
+    "qdbusxml2cpp": "/usr/local/bin/qdbusxml2cpp",
+    "qdistancefieldgenerator": "/usr/local/bin/qdistancefieldgenerator",
+    "qdoc": "/usr/local/bin/qdoc",
+    "qgltf": "/usr/local/bin/qgltf",
+    "qhelpgenerator": "/usr/local/bin/qhelpgenerator",
+    "qlalr": "/usr/local/bin/qlalr",
+    "qmake": "/usr/local/bin/qmake",
+    "qml": "/usr/local/bin/qml",
+    "qmlcachegen": "/usr/local/bin/qmlcachegen",
+    "qmleasing": "/usr/local/bin/qmleasing",
+    "qmlformat": "/usr/local/bin/qmlformat",
+    "qmlimportscanner": "/usr/local/bin/qmlimportscanner",
+    "qmllint": "/usr/local/bin/qmllint",
+    "qmlmin": "/usr/local/bin/qmlmin",
+    "qmlplugindump": "/usr/local/bin/qmlplugindump",
+    "qmlpreview": "/usr/local/bin/qmlpreview",
+    "qmlprofiler": "/usr/local/bin/qmlprofiler",
+    "qmlscene": "/usr/local/bin/qmlscene",
+    "qmltestrunner": "/usr/local/bin/qmltestrunner",
+    "qmltime": "/usr/local/bin/qmltime",
+    "qmltyperegistrar": "/usr/local/bin/qmltyperegistrar",
+    "qscxmlc": "/usr/local/bin/qscxmlc",
+    "qt.conf": "/usr/local/bin/qt.conf",
+    "qtattributionsscanner": "/usr/local/bin/qtattributionsscanner",
+    "qtdiag": "/usr/local/bin/qtdiag",
+    "qtpaths": "/usr/local/bin/qtpaths",
+    "qtplugininfo": "/usr/local/bin/qtplugininfo",
+    "qvkgen": "/usr/local/bin/qvkgen",
+    "rcc": "/usr/local/bin/rcc",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "recode-sr-latin": "/usr/local/bin/recode-sr-latin",
+    "repc": "/usr/local/bin/repc",
+    "reset": "/usr/local/bin/reset",
+    "sclient": "/usr/local/bin/sclient",
+    "setfattr": "/usr/local/bin/setfattr",
+    "sim_client": "/usr/local/bin/sim_client",
+    "sip-build": "/usr/local/bin/sip-build",
+    "sip-distinfo": "/usr/local/bin/sip-distinfo",
+    "sip-install": "/usr/local/bin/sip-install",
+    "sip-module": "/usr/local/bin/sip-module",
+    "sip-sdist": "/usr/local/bin/sip-sdist",
+    "sip-wheel": "/usr/local/bin/sip-wheel",
+    "sndfile-cmp": "/usr/local/bin/sndfile-cmp",
+    "sndfile-concat": "/usr/local/bin/sndfile-concat",
+    "sndfile-convert": "/usr/local/bin/sndfile-convert",
+    "sndfile-deinterleave": "/usr/local/bin/sndfile-deinterleave",
+    "sndfile-info": "/usr/local/bin/sndfile-info",
+    "sndfile-interleave": "/usr/local/bin/sndfile-interleave",
+    "sndfile-metadata-get": "/usr/local/bin/sndfile-metadata-get",
+    "sndfile-metadata-set": "/usr/local/bin/sndfile-metadata-set",
+    "sndfile-play": "/usr/local/bin/sndfile-play",
+    "sndfile-salvage": "/usr/local/bin/sndfile-salvage",
+    "sqlite3_analyzer": "/usr/local/bin/sqlite3_analyzer",
+    "syncqt.pl": "/usr/local/bin/syncqt.pl",
+    "tabs": "/usr/local/bin/tabs",
+    "tclsh": "/usr/local/bin/tclsh",
+    "tclsh8.6": "/usr/local/bin/tclsh8.6",
+    "tic": "/usr/local/bin/tic",
+    "tjbench": "/usr/local/bin/tjbench",
+    "toe": "/usr/local/bin/toe",
+    "tput": "/usr/local/bin/tput",
+    "tracegen": "/usr/local/bin/tracegen",
+    "tset": "/usr/local/bin/tset",
+    "uic": "/usr/local/bin/uic",
+    "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",
+    "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",
+    "xgettext": "/usr/local/bin/xgettext",
+    "xkbcli": "/usr/local/bin/xkbcli",
+    "xml2-config": "/usr/local/bin/xml2-config",
+    "xmlcatalog": "/usr/local/bin/xmlcatalog",
+    "xmllint": "/usr/local/bin/xmllint",
+    "xmlpatterns": "/usr/local/bin/xmlpatterns",
+    "xmlpatternsvalidator": "/usr/local/bin/xmlpatternsvalidator",
+    "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",
+    "yat2m": "/usr/local/bin/yat2m",
+    "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/skips.json b/skips.json
index b93c283..987b9f6 100644
--- a/skips.json
+++ b/skips.json
@@ -130,6 +130,7 @@
     "quay.io/biocontainers/bioconductor-ttmap",
     "quay.io/biocontainers/bioformats2raw",
     "quay.io/biocontainers/blat",
+    "quay.io/biocontainers/blobtoolkit",
     "quay.io/biocontainers/bx-python",
     "quay.io/biocontainers/byobu",
     "quay.io/biocontainers/centos",