diff --git a/counts.json b/counts.json
index 408e52b..93c6d8d 100644
--- a/counts.json
+++ b/counts.json
@@ -3072,6 +3072,7 @@
     "Fold": 5,
     "Fold-smp": 5,
     "FragGeneScan": 14,
+    "FragGeneScanRs": 1,
     "FragHits": 1,
     "FrameBot": 5,
     "FusionInspector": 1,
@@ -6041,7 +6042,7 @@
     "ase-gui": 5,
     "ase-info": 5,
     "ase-run": 5,
-    "aserver": 472,
+    "aserver": 473,
     "asession": 3,
     "asgal": 1,
     "asgal_BitVector.py": 1,
@@ -7389,7 +7390,7 @@
     "bundlelinks": 2,
     "bundler": 19,
     "bunwarpj": 4,
-    "bunzip2": 6939,
+    "bunzip2": 6940,
     "burden_test_vase": 1,
     "burst_linux_DB12": 1,
     "burst_linux_DB15": 1,
@@ -7443,16 +7444,16 @@
     "bxStats.py": 1,
     "bxcl_seqqc": 1,
     "bxtools": 1,
-    "bzcat": 6939,
-    "bzcmp": 6939,
-    "bzdiff": 6939,
-    "bzegrep": 6939,
-    "bzfgrep": 6939,
-    "bzgrep": 6939,
-    "bzip2": 6940,
-    "bzip2recover": 6939,
-    "bzless": 6939,
-    "bzmore": 6939,
+    "bzcat": 6940,
+    "bzcmp": 6940,
+    "bzdiff": 6940,
+    "bzegrep": 6940,
+    "bzfgrep": 6940,
+    "bzgrep": 6940,
+    "bzip2": 6941,
+    "bzip2recover": 6940,
+    "bzless": 6940,
+    "bzmore": 6940,
     "c++": 5,
     "c++filt": 8,
     "c-index-test": 8,
@@ -7469,7 +7470,7 @@
     "cPecanLibTests": 1,
     "cPecanModifyHmm": 1,
     "cPecanRealign": 1,
-    "c_rehash": 8084,
+    "c_rehash": 8085,
     "ca2ace.pl": 3,
     "ca2ctg": 2,
     "ca2mates": 2,
@@ -7546,7 +7547,7 @@
     "cagecatProcess.py": 1,
     "cagee": 1,
     "cai": 28,
-    "cairo-trace": 5245,
+    "cairo-trace": 5246,
     "cairosvg": 6,
     "cal": 13,
     "calD": 1,
@@ -7657,7 +7658,7 @@
     "capnpc-cython": 1,
     "capost2gnu": 1,
     "capri_eval": 1,
-    "captoinfo": 8015,
+    "captoinfo": 8016,
     "captus_assembly": 1,
     "caqc.pl": 3,
     "caqc_help.ini": 3,
@@ -8109,7 +8110,7 @@
     "cit2pmid": 44,
     "civicpy": 1,
     "cjk-gs-integrate": 1,
-    "cjpeg": 5945,
+    "cjpeg": 5946,
     "ckeygen": 1,
     "cksum": 87,
     "claMLST": 1,
@@ -8220,7 +8221,7 @@
     "cleanup-coverage.py": 2,
     "cleanup-stale-gcp-resources.py": 1,
     "cleanup.py": 1,
-    "clear": 8015,
+    "clear": 8016,
     "clearCNV": 1,
     "clearcut": 1,
     "cleric": 1,
@@ -8601,7 +8602,7 @@
     "compileSpliceCands": 13,
     "compile_STARE_Linux.sh": 1,
     "compile_STARE_macOS.sh": 1,
-    "compile_et": 6011,
+    "compile_et": 6012,
     "compiled_table.py": 1,
     "compleasm": 1,
     "complementBed": 282,
@@ -9268,7 +9269,7 @@
     "cuffquant": 2,
     "cuppa": 1,
     "cuppa-chart": 1,
-    "cups-config": 224,
+    "cups-config": 225,
     "curare": 1,
     "curare_wizard": 1,
     "curate_chemical_data": 1,
@@ -9737,7 +9738,7 @@
     "depth_calc.py": 1,
     "depth_estim_from_vcf.sh": 1,
     "depythontex": 1,
-    "derb": 6000,
+    "derb": 6001,
     "derep_stuff.py": 2,
     "deripcal": 1,
     "derna": 1,
@@ -9947,7 +9948,7 @@
     "django-admin": 4,
     "django-admin.py": 3,
     "django-admin.pyc": 1,
-    "djpeg": 5945,
+    "djpeg": 5946,
     "dkfzbiasfilter.py": 1,
     "dkfzbiasfilter_summarize.py": 1,
     "dlcoal_to_dlcpar": 1,
@@ -11450,19 +11451,19 @@
     "fasxl": 2,
     "fathom": 2,
     "favites_lite.py": 1,
-    "fax2ps": 5414,
-    "fax2tiff": 5414,
+    "fax2ps": 5415,
+    "fax2tiff": 5415,
     "fba": 1,
     "fc": 1,
-    "fc-cache": 5450,
-    "fc-cat": 5450,
-    "fc-conflist": 4967,
-    "fc-list": 5450,
-    "fc-match": 5450,
-    "fc-pattern": 5450,
-    "fc-query": 5450,
-    "fc-scan": 5450,
-    "fc-validate": 5450,
+    "fc-cache": 5451,
+    "fc-cat": 5451,
+    "fc-conflist": 4968,
+    "fc-list": 5451,
+    "fc-match": 5451,
+    "fc-pattern": 5451,
+    "fc-query": 5451,
+    "fc-scan": 5451,
+    "fc-validate": 5451,
     "fc_actg_coordinate": 1,
     "fc_calc_cutoff": 1,
     "fc_consensus": 1,
@@ -12138,7 +12139,7 @@
     "freec2bed.pl": 1,
     "freec2circos.pl": 1,
     "freefix": 1,
-    "freetype-config": 6008,
+    "freetype-config": 6009,
     "freeze_graph": 25,
     "freq2group.pl": 5,
     "frequency.py": 1,
@@ -12754,17 +12755,17 @@
     "genbank_to": 1,
     "genblastG": 1,
     "genbox": 1,
-    "genbrk": 6000,
-    "gencfu": 6000,
+    "genbrk": 6001,
+    "gencfu": 6001,
     "genclust": 1,
-    "gencnval": 6000,
+    "gencnval": 6001,
     "gencode_extract_relevant_gtf_exons.pl": 1,
     "gencode_singleton_unit_test": 5,
     "genconf": 1,
     "gencore": 1,
     "gencove": 1,
     "gendb": 13,
-    "gendict": 6000,
+    "gendict": 6001,
     "gendist": 10,
     "gene2protein.db3": 2,
     "gene2range": 221,
@@ -12934,7 +12935,7 @@
     "genotyphi.py": 1,
     "genpcz": 2,
     "genpept2gsi.pl": 2,
-    "genrb": 6000,
+    "genrb": 6001,
     "genreflex": 3,
     "genremdinputs.py": 7,
     "genrestr": 4,
@@ -13331,14 +13332,14 @@
     "gie": 44,
     "gif2h5": 587,
     "gif2hdf": 131,
-    "gif2rgb": 788,
+    "gif2rgb": 789,
     "gif2tiff": 189,
     "gif2webp": 361,
-    "gifbuild": 788,
-    "gifclrmp": 788,
+    "gifbuild": 789,
+    "gifclrmp": 789,
     "gifecho": 39,
     "giffilter": 25,
-    "giffix": 788,
+    "giffix": 789,
     "gifinto": 39,
     "gifmaker.py": 20,
     "gifrop": 1,
@@ -13349,9 +13350,9 @@
     "gifrop_pannotate.R": 1,
     "gifrop_plots.R": 1,
     "gifsponge": 25,
-    "giftext": 788,
+    "giftext": 789,
     "giftogd2": 251,
-    "giftool": 788,
+    "giftool": 789,
     "gigrnd.py": 1,
     "gil2bin": 1,
     "gimbleprep": 1,
@@ -13749,7 +13750,7 @@
     "gsnapl.sse42": 12,
     "gsnd": 109,
     "gsort": 5,
-    "gss-client": 6011,
+    "gss-client": 6012,
     "gss-server": 2,
     "gst-completion-helper": 1,
     "gst-device-monitor-1.0": 247,
@@ -14117,6 +14118,9 @@
     "haploflow": 1,
     "haplogrep": 1,
     "haplogrep.jar": 1,
+    "haplogrep3": 1,
+    "haplogrep3.jar": 1,
+    "haplogrep3.yaml": 1,
     "haplomap": 1,
     "haplotag_bam": 2,
     "haplotyper.Naive.pl": 1,
@@ -14159,11 +14163,11 @@
     "haystack_pipeline": 1,
     "haystack_run_test": 1,
     "haystack_tf_activity_plane": 1,
-    "hb-info": 382,
-    "hb-ot-shape-closure": 5184,
-    "hb-shape": 5184,
-    "hb-subset": 4748,
-    "hb-view": 5141,
+    "hb-info": 383,
+    "hb-ot-shape-closure": 5185,
+    "hb-shape": 5185,
+    "hb-subset": 4749,
+    "hb-view": 5142,
     "hbvblast.sh": 1,
     "hca-matrix-downloader": 1,
     "hca-mtx-to-10x": 1,
@@ -14633,9 +14637,9 @@
     "ichar": 1,
     "icon-font-to-png": 2,
     "iconv": 5462,
-    "icu-config": 6000,
-    "icuexportdata": 2211,
-    "icuinfo": 6000,
+    "icu-config": 6001,
+    "icuexportdata": 2212,
+    "icuinfo": 6001,
     "id": 87,
     "id_conserved_regions.pl": 1,
     "idba": 10,
@@ -14894,11 +14898,11 @@
     "infoalign": 27,
     "infoassembly": 27,
     "infobase": 27,
-    "infocmp": 8015,
+    "infocmp": 8016,
     "inforesidue": 27,
     "informant.py": 1,
     "infoseq": 27,
-    "infotocap": 8015,
+    "infotocap": 8016,
     "ini2xml": 44,
     "init_Trinotate_sqlite_db.pl": 1,
     "init_db.sh": 1,
@@ -15065,8 +15069,8 @@
     "ipopt": 1,
     "ipopt_sens": 1,
     "ipostproc": 1,
-    "ippeveprinter": 224,
-    "ipptool": 224,
+    "ippeveprinter": 225,
+    "ipptool": 225,
     "ipr_update_gff": 1,
     "iprocdic": 1,
     "iprscan2gff3": 1,
@@ -15236,8 +15240,8 @@
     "jamo-normalize": 1,
     "jannovar": 1,
     "jaotc": 312,
-    "jar": 557,
-    "jarsigner": 557,
+    "jar": 558,
+    "jarsigner": 558,
     "jasmine": 3,
     "jasmine.jar": 1,
     "jasmine_igv.jar": 1,
@@ -15248,22 +15252,22 @@
     "jaspscan": 27,
     "jass": 1,
     "jass_preprocessing": 1,
-    "java": 557,
+    "java": 558,
     "java-rmi.cgi": 112,
-    "javac": 557,
-    "javadoc": 557,
+    "javac": 558,
+    "javadoc": 558,
     "javah": 112,
-    "javap": 557,
+    "javap": 558,
     "javareconf": 1,
     "jbig2dec": 1,
     "jbrowse": 1,
     "jcast": 1,
     "jclusterfunk": 2,
-    "jcmd": 557,
-    "jconsole": 557,
-    "jdb": 557,
-    "jdeprscan": 448,
-    "jdeps": 556,
+    "jcmd": 558,
+    "jconsole": 558,
+    "jdb": 558,
+    "jdeprscan": 449,
+    "jdeps": 557,
     "je": 2,
     "jellyfish": 48,
     "jemalloc-config": 14,
@@ -15271,22 +15275,22 @@
     "jembossctl": 27,
     "jeprof": 14,
     "jf_aligner": 1,
-    "jfr": 392,
+    "jfr": 393,
     "jgiDwnld": 2,
     "jgi_gc": 1,
     "jgi_summarize_bam_contig_depths": 6,
     "jgoslin": 1,
     "jhat": 112,
-    "jhsdb": 448,
-    "jimage": 448,
-    "jinfo": 557,
+    "jhsdb": 449,
+    "jimage": 449,
+    "jinfo": 558,
     "jiv": 6,
     "jiwer": 1,
     "jjs": 422,
-    "jlink": 448,
+    "jlink": 449,
     "jlpm": 4,
-    "jmap": 557,
-    "jmod": 448,
+    "jmap": 558,
+    "jmod": 449,
     "jmztab-m": 1,
     "job-shop": 1,
     "jobTreeKill": 2,
@@ -15318,20 +15322,20 @@
     "joint-indels": 1,
     "joint-parsimony": 1,
     "jp.py": 109,
-    "jpackage": 136,
+    "jpackage": 137,
     "jpeg2hdf": 131,
-    "jpegtran": 5945,
-    "jpgicc": 1090,
+    "jpegtran": 5946,
+    "jpgicc": 1091,
     "jpredapi": 1,
-    "jps": 557,
+    "jps": 558,
     "jq": 351,
     "jronn": 1,
-    "jrunscript": 557,
+    "jrunscript": 558,
     "js-beautify": 1,
     "jsadebugd": 112,
     "jscan": 1,
     "jsearch": 1,
-    "jshell": 448,
+    "jshell": 449,
     "json2gff": 1,
     "json2xml": 233,
     "json_collect_data_source.py": 1,
@@ -15344,9 +15348,9 @@
     "jsonpath_ng": 1,
     "jsonpointer": 15,
     "jsonschema": 233,
-    "jstack": 557,
-    "jstat": 557,
-    "jstatd": 557,
+    "jstack": 558,
+    "jstat": 558,
+    "jstatd": 558,
     "juicer": 1,
     "juicer_shortform2pairs.pl": 23,
     "juicer_shortform2pairs.pl.bak": 1,
@@ -15397,15 +15401,15 @@
     "just-first-key": 20,
     "just-top-hits": 24,
     "just_blast_test.pl": 1,
-    "jwebserver": 52,
-    "k5srvutil": 6011,
+    "jwebserver": 53,
+    "k5srvutil": 6012,
     "k8": 176,
     "k8-Linux": 1,
     "k_means": 1,
     "k_means_coefficient": 1,
     "k_neighbors": 1,
     "k_neighbors_coefficient": 1,
-    "kadmin": 6011,
+    "kadmin": 6012,
     "kadmin.local": 2,
     "kadmind": 2,
     "kaiju": 4,
@@ -15501,7 +15505,7 @@
     "kdbmeta.3.0.3": 1,
     "kdbmeta.3.1.0": 1,
     "kdbmeta.3.1.1": 1,
-    "kdestroy": 6011,
+    "kdestroy": 6012,
     "kea-config": 38,
     "keep-header": 1,
     "keep-ribo-periodic": 1,
@@ -15513,10 +15517,10 @@
     "keggpathway_map.py": 1,
     "kestrel": 1,
     "keyFreq": 1,
-    "keyctl": 2640,
+    "keyctl": 2641,
     "keygen": 1,
     "keyring": 11,
-    "keytool": 557,
+    "keytool": 558,
     "kget": 18,
     "kget.2": 18,
     "kget.2.10.0": 1,
@@ -15544,7 +15548,7 @@
     "kinSimRiboswitch": 1,
     "king": 1,
     "kingfisher": 1,
-    "kinit": 6011,
+    "kinit": 6012,
     "kinship-read": 1,
     "kinshipDecompose": 1,
     "kinwalker": 57,
@@ -15557,7 +15561,7 @@
     "kitsch": 10,
     "kitsune": 1,
     "kleborate": 1,
-    "klist": 6011,
+    "klist": 6012,
     "kma": 20,
     "kma_index": 20,
     "kma_shm": 20,
@@ -15649,7 +15653,7 @@
     "kp1mer_to_kmer.py": 1,
     "kp2np.py": 1,
     "kpal": 2,
-    "kpasswd": 6011,
+    "kpasswd": 6012,
     "kpileup.py": 1,
     "kprop": 2,
     "kpropd": 2,
@@ -15696,7 +15700,7 @@
     "krakenuniq-report": 1,
     "krakenuniq-translate": 1,
     "krakmeopen": 1,
-    "krb5-config": 6011,
+    "krb5-config": 6012,
     "krb5-send-pr": 2,
     "krb5kdc": 2,
     "kreport2krona.py": 3,
@@ -15712,9 +15716,9 @@
     "kseq_split": 1,
     "ksnp": 1,
     "kssd": 1,
-    "ksu": 6011,
+    "ksu": 6012,
     "ksw": 1,
-    "kswitch": 6011,
+    "kswitch": 6012,
     "ktClassifyBLAST": 17,
     "ktClassifyHits": 13,
     "ktGetContigMagnitudes": 17,
@@ -15745,12 +15749,12 @@
     "ktserver": 2,
     "kttimedmgr": 2,
     "kttimedtest": 2,
-    "ktutil": 6011,
+    "ktutil": 6012,
     "ktutilmgr": 2,
     "ktutilserv": 2,
     "ktutiltest": 2,
     "kubectl": 1,
-    "kvno": 6011,
+    "kvno": 6012,
     "kwip": 2,
     "kwip-stats": 2,
     "kyber": 1,
@@ -15922,8 +15926,8 @@
     "libclair3.cpython-36m-x86_64-linux-gnu.so": 1,
     "libclair3.o": 1,
     "libclair3.so": 1,
-    "libdeflate-gunzip": 4331,
-    "libdeflate-gzip": 4331,
+    "libdeflate-gunzip": 4332,
+    "libdeflate-gzip": 4332,
     "libdrawgram.so": 5,
     "libdrawtree.so": 5,
     "libfile.pl": 1,
@@ -15933,8 +15937,8 @@
     "liblist.pl": 1,
     "liblist.pl.bak": 1,
     "libnetcfg": 1763,
-    "libpng-config": 6064,
-    "libpng16-config": 6064,
+    "libpng-config": 6065,
+    "libpng16-config": 6065,
     "libpypy-c.so": 1,
     "libpypy-c.so.debug": 1,
     "libpypy3-c.so.debug": 3,
@@ -15995,7 +15999,7 @@
     "linkage2allegro": 1,
     "linkedsv.py": 1,
     "linkhsp_unit_test": 5,
-    "linkicc": 1090,
+    "linkicc": 1091,
     "linknets": 2,
     "links2sql.pl": 7,
     "linksBed": 282,
@@ -16647,7 +16651,7 @@
     "makechimeras.sh": 31,
     "makeclusterdb": 5,
     "makecontaminatedgenomes.sh": 31,
-    "makeconv": 6000,
+    "makeconv": 6001,
     "makedtx": 1,
     "makefasta.awk": 1,
     "makegeo": 39,
@@ -18245,9 +18249,9 @@
     "ncrf_to_bed": 2,
     "ncrf_to_bed.py": 2,
     "ncurses5-config": 565,
-    "ncurses6-config": 7308,
+    "ncurses6-config": 7309,
     "ncursesw5-config": 703,
-    "ncursesw6-config": 7309,
+    "ncursesw6-config": 7310,
     "ndfes": 1,
     "ndfes-AvgFESs.py": 1,
     "ndfes-CheckEquil.py": 1,
@@ -18914,7 +18918,7 @@
     "openslide-quickhash1sum": 2,
     "openslide-show-properties": 2,
     "openslide-write-png": 2,
-    "openssl": 8084,
+    "openssl": 8085,
     "opentargets_validator": 1,
     "operation.py": 1,
     "opj_compress": 731,
@@ -19168,7 +19172,7 @@
     "pairtools": 4,
     "pairwise_comparison": 1,
     "pal2nal.pl": 9,
-    "pal2rgb": 5414,
+    "pal2rgb": 5415,
     "pal_finder": 1,
     "paladin": 2,
     "palindrome": 27,
@@ -19477,11 +19481,11 @@
     "pcoaPlot.py": 2,
     "pcor": 1,
     "pcre-config": 4952,
-    "pcre2-config": 3838,
+    "pcre2-config": 3839,
     "pcre2_jit_test": 3685,
-    "pcre2grep": 3838,
+    "pcre2grep": 3839,
     "pcre2posix_test": 113,
-    "pcre2test": 3838,
+    "pcre2test": 3839,
     "pcregrep": 4952,
     "pcretest": 4952,
     "pct2rgb": 1,
@@ -20256,7 +20260,7 @@
     "pkfix-helper": 1,
     "pkg-config": 81,
     "pkg-config.bin": 81,
-    "pkgdata": 6000,
+    "pkgdata": 6001,
     "pkginfo": 11,
     "pkill": 1,
     "pktogf": 1,
@@ -20464,9 +20468,9 @@
     "pmxmutate": 1,
     "pn2pdf": 1,
     "pneumo-typer": 1,
-    "png-fix-itxt": 6064,
+    "png-fix-itxt": 6065,
     "pngcp": 89,
-    "pngfix": 6064,
+    "pngfix": 6065,
     "pngtogd": 251,
     "pngtogd2": 251,
     "pnps-gen": 1,
@@ -20591,7 +20595,7 @@
     "ppi2html": 2,
     "pplacer": 22,
     "ppltotf": 1,
-    "ppm2tiff": 5414,
+    "ppm2tiff": 5415,
     "pprodigal": 2,
     "pprof": 2,
     "pprof-symbolize": 1,
@@ -21030,7 +21034,7 @@
     "psiblast": 355,
     "psiblast_iteration_unit_test": 5,
     "psiblast_unit_test": 5,
-    "psicc": 1090,
+    "psicc": 1091,
     "psiclass": 1,
     "psiphi": 27,
     "psirc": 1,
@@ -21781,7 +21785,7 @@
     "ratt": 2,
     "rav1e": 17,
     "raven": 4,
-    "raw2tiff": 5414,
+    "raw2tiff": 5415,
     "raw_n50": 10,
     "raw_n50.o": 10,
     "raw_vcf_parse.py": 1,
@@ -21851,7 +21855,7 @@
     "rdfgraphisomorphism": 35,
     "rdfpipe": 35,
     "rdfs2dot": 35,
-    "rdjpgcom": 5945,
+    "rdjpgcom": 5946,
     "rdkit2fps": 1,
     "rdma_client": 26,
     "rdma_server": 26,
@@ -22328,7 +22332,7 @@
     "reseek": 1,
     "reseq": 1,
     "reseq-prepare-names.py": 1,
-    "reset": 8015,
+    "reset": 8016,
     "resetFragLibrary": 2,
     "reset_array.pl": 1,
     "reset_experiment.pl": 1,
@@ -22476,7 +22480,7 @@
     "rmdir": 87,
     "rmic": 423,
     "rmid": 423,
-    "rmiregistry": 557,
+    "rmiregistry": 558,
     "rmkdepend": 1,
     "rmlst-api": 1,
     "rmsk2bed": 15,
@@ -23329,7 +23333,7 @@
     "scitokens-test-access": 1,
     "scitokens-verify": 1,
     "sclass.X86_64.LINUX": 1,
-    "sclient": 6011,
+    "sclient": 6012,
     "sclust_summary.sh": 1,
     "scluster": 3,
     "scmap-cli-post-install-tests.bats": 1,
@@ -23635,7 +23639,7 @@
     "seqyclean": 1,
     "serialize_hmm_models": 1,
     "serialize_kofam_models": 1,
-    "serialver": 557,
+    "serialver": 558,
     "seroba": 1,
     "serotypefinder": 1,
     "servertell": 27,
@@ -23867,7 +23871,7 @@
     "sim-cover2": 2,
     "sim-shotgun": 2,
     "sim4db": 3,
-    "sim_client": 6011,
+    "sim_client": 6012,
     "sim_reads": 10,
     "sim_reads.o": 10,
     "sim_reads_tran": 10,
@@ -25111,7 +25115,7 @@
     "tableschema": 1,
     "tablet": 1,
     "tabnum2id": 1,
-    "tabs": 8015,
+    "tabs": 8016,
     "tabulate": 147,
     "tabulate.py": 1,
     "tabulator": 1,
@@ -25510,7 +25514,7 @@
     "tiara-test": 3,
     "tiberius": 1,
     "tiberius.py": 1,
-    "tic": 8015,
+    "tic": 8016,
     "tiddit": 1,
     "tides": 1,
     "tidk": 1,
@@ -25518,23 +25522,23 @@
     "tidygff3": 1,
     "tidyp": 67,
     "tie": 1,
-    "tiff2bw": 5414,
+    "tiff2bw": 5415,
     "tiff2fsspec": 25,
-    "tiff2pdf": 5414,
-    "tiff2ps": 5414,
-    "tiff2rgba": 5414,
-    "tiffcmp": 5414,
+    "tiff2pdf": 5415,
+    "tiff2ps": 5415,
+    "tiff2rgba": 5415,
+    "tiffcmp": 5415,
     "tiffcomment": 27,
-    "tiffcp": 5691,
-    "tiffcrop": 5414,
-    "tiffdither": 5414,
-    "tiffdump": 5691,
+    "tiffcp": 5692,
+    "tiffcrop": 5415,
+    "tiffdither": 5415,
+    "tiffdump": 5692,
     "tifffile": 31,
-    "tiffinfo": 5691,
-    "tiffmedian": 5414,
-    "tiffset": 5691,
-    "tiffsplit": 5691,
-    "tificc": 1090,
+    "tiffinfo": 5692,
+    "tiffmedian": 5415,
+    "tiffset": 5692,
+    "tiffsplit": 5692,
+    "tificc": 1091,
     "tigStore": 3,
     "tiger-hash": 12,
     "tigge_check": 1,
@@ -25590,7 +25594,7 @@
     "titan-gc-prepare.py": 1,
     "titan.py": 1,
     "titration": 2,
-    "tjbench": 562,
+    "tjbench": 563,
     "tkconch": 1,
     "tkpp": 1,
     "tksm": 1,
@@ -25621,7 +25625,7 @@
     "to_upper_case.pl.bak": 1,
     "toco": 83,
     "toco_from_protos": 83,
-    "toe": 8015,
+    "toe": 8016,
     "tohnsw": 1,
     "toil": 3,
     "toil-cwl-runner": 3,
@@ -25676,7 +25680,7 @@
     "tpp_hostname": 2,
     "tpp_models.pl": 2,
     "tpptray.bat": 2,
-    "tput": 8015,
+    "tput": 8016,
     "tqdm": 420,
     "tr": 87,
     "tr-trimmer": 1,
@@ -25751,7 +25755,7 @@
     "transform_gfa.py": 1,
     "transformers-cli": 5,
     "transformseq": 13,
-    "transicc": 1090,
+    "transicc": 1091,
     "transit": 1,
     "transition_counter": 1,
     "transl": 1,
@@ -25909,7 +25913,7 @@
     "tryptic.py": 1,
     "ts": 3,
     "tsebra.py": 3,
-    "tset": 8015,
+    "tset": 8016,
     "tskit": 7,
     "tsort": 87,
     "tsp": 2,
@@ -26119,7 +26123,7 @@
     "unzipont": 1,
     "unzipont_dir": 1,
     "unzipsfx": 25,
-    "unzstd": 5454,
+    "unzstd": 5455,
     "update-blastdb.py": 2,
     "update-serotypefinder-db": 1,
     "update-sort-bed-migrate-candidates": 15,
@@ -26193,7 +26197,7 @@
     "utmpdump": 13,
     "utrgff2gbrowse.pl": 15,
     "utrrnaseq": 13,
-    "uuclient": 6011,
+    "uuclient": 6012,
     "uuid": 38,
     "uuid-config": 38,
     "uuidgen": 13,
@@ -27014,7 +27018,7 @@
     "write_tfrecord_species.py": 1,
     "writedb_entry": 1,
     "writedb_unit_test": 5,
-    "wrjpgcom": 5945,
+    "wrjpgcom": 5946,
     "ws": 2,
     "wsdl": 16,
     "wsdl2": 16,
@@ -27354,10 +27358,10 @@
     "zrun": 3,
     "zsh": 3,
     "zsh-5.8": 3,
-    "zstd": 5454,
-    "zstdcat": 5454,
-    "zstdgrep": 5252,
-    "zstdless": 5252,
-    "zstdmt": 5454,
+    "zstd": 5455,
+    "zstdcat": 5455,
+    "zstdgrep": 5253,
+    "zstdless": 5253,
+    "zstdmt": 5455,
     "ztr_dump": 2
 }
\ No newline at end of file
diff --git a/quay.io/biocontainers/f/frag_gene_scan_rs:1.1.0--h4349ce8_0.json b/quay.io/biocontainers/f/frag_gene_scan_rs:1.1.0--h4349ce8_0.json
new file mode 100644
index 0000000..be5fc89
--- /dev/null
+++ b/quay.io/biocontainers/f/frag_gene_scan_rs:1.1.0--h4349ce8_0.json
@@ -0,0 +1,3 @@
+{
+    "FragGeneScanRs": "/usr/local/bin/FragGeneScanRs"
+}
\ No newline at end of file
diff --git a/quay.io/biocontainers/h/haplogrep3:3.2.2--hdfd78af_0.json b/quay.io/biocontainers/h/haplogrep3:3.2.2--hdfd78af_0.json
new file mode 100644
index 0000000..38a6e55
--- /dev/null
+++ b/quay.io/biocontainers/h/haplogrep3:3.2.2--hdfd78af_0.json
@@ -0,0 +1,157 @@
+{
+    "aserver": "/usr/local/bin/aserver",
+    "bunzip2": "/usr/local/bin/bunzip2",
+    "bzcat": "/usr/local/bin/bzcat",
+    "bzcmp": "/usr/local/bin/bzcmp",
+    "bzdiff": "/usr/local/bin/bzdiff",
+    "bzegrep": "/usr/local/bin/bzegrep",
+    "bzfgrep": "/usr/local/bin/bzfgrep",
+    "bzgrep": "/usr/local/bin/bzgrep",
+    "bzip2": "/usr/local/bin/bzip2",
+    "bzip2recover": "/usr/local/bin/bzip2recover",
+    "bzless": "/usr/local/bin/bzless",
+    "bzmore": "/usr/local/bin/bzmore",
+    "c_rehash": "/usr/local/bin/c_rehash",
+    "cairo-trace": "/usr/local/bin/cairo-trace",
+    "captoinfo": "/usr/local/bin/captoinfo",
+    "cjpeg": "/usr/local/bin/cjpeg",
+    "clear": "/usr/local/bin/clear",
+    "compile_et": "/usr/local/bin/compile_et",
+    "cups-config": "/usr/local/bin/cups-config",
+    "derb": "/usr/local/bin/derb",
+    "djpeg": "/usr/local/bin/djpeg",
+    "fax2ps": "/usr/local/bin/fax2ps",
+    "fax2tiff": "/usr/local/bin/fax2tiff",
+    "fc-cache": "/usr/local/bin/fc-cache",
+    "fc-cat": "/usr/local/bin/fc-cat",
+    "fc-conflist": "/usr/local/bin/fc-conflist",
+    "fc-list": "/usr/local/bin/fc-list",
+    "fc-match": "/usr/local/bin/fc-match",
+    "fc-pattern": "/usr/local/bin/fc-pattern",
+    "fc-query": "/usr/local/bin/fc-query",
+    "fc-scan": "/usr/local/bin/fc-scan",
+    "fc-validate": "/usr/local/bin/fc-validate",
+    "freetype-config": "/usr/local/bin/freetype-config",
+    "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",
+    "haplogrep3": "/usr/local/bin/haplogrep3",
+    "haplogrep3.jar": "/usr/local/bin/haplogrep3.jar",
+    "haplogrep3.yaml": "/usr/local/bin/haplogrep3.yaml",
+    "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",
+    "infocmp": "/usr/local/bin/infocmp",
+    "infotocap": "/usr/local/bin/infotocap",
+    "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",
+    "jstack": "/usr/local/bin/jstack",
+    "jstat": "/usr/local/bin/jstat",
+    "jstatd": "/usr/local/bin/jstatd",
+    "jwebserver": "/usr/local/bin/jwebserver",
+    "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",
+    "libpng-config": "/usr/local/bin/libpng-config",
+    "libpng16-config": "/usr/local/bin/libpng16-config",
+    "linkicc": "/usr/local/bin/linkicc",
+    "makeconv": "/usr/local/bin/makeconv",
+    "ncurses6-config": "/usr/local/bin/ncurses6-config",
+    "ncursesw6-config": "/usr/local/bin/ncursesw6-config",
+    "openssl": "/usr/local/bin/openssl",
+    "pal2rgb": "/usr/local/bin/pal2rgb",
+    "pcre2-config": "/usr/local/bin/pcre2-config",
+    "pcre2grep": "/usr/local/bin/pcre2grep",
+    "pcre2test": "/usr/local/bin/pcre2test",
+    "pkgdata": "/usr/local/bin/pkgdata",
+    "png-fix-itxt": "/usr/local/bin/png-fix-itxt",
+    "pngfix": "/usr/local/bin/pngfix",
+    "ppm2tiff": "/usr/local/bin/ppm2tiff",
+    "psicc": "/usr/local/bin/psicc",
+    "raw2tiff": "/usr/local/bin/raw2tiff",
+    "rdjpgcom": "/usr/local/bin/rdjpgcom",
+    "reset": "/usr/local/bin/reset",
+    "rmiregistry": "/usr/local/bin/rmiregistry",
+    "sclient": "/usr/local/bin/sclient",
+    "serialver": "/usr/local/bin/serialver",
+    "sim_client": "/usr/local/bin/sim_client",
+    "tabs": "/usr/local/bin/tabs",
+    "tic": "/usr/local/bin/tic",
+    "tiff2bw": "/usr/local/bin/tiff2bw",
+    "tiff2pdf": "/usr/local/bin/tiff2pdf",
+    "tiff2ps": "/usr/local/bin/tiff2ps",
+    "tiff2rgba": "/usr/local/bin/tiff2rgba",
+    "tiffcmp": "/usr/local/bin/tiffcmp",
+    "tiffcp": "/usr/local/bin/tiffcp",
+    "tiffcrop": "/usr/local/bin/tiffcrop",
+    "tiffdither": "/usr/local/bin/tiffdither",
+    "tiffdump": "/usr/local/bin/tiffdump",
+    "tiffinfo": "/usr/local/bin/tiffinfo",
+    "tiffmedian": "/usr/local/bin/tiffmedian",
+    "tiffset": "/usr/local/bin/tiffset",
+    "tiffsplit": "/usr/local/bin/tiffsplit",
+    "tificc": "/usr/local/bin/tificc",
+    "tjbench": "/usr/local/bin/tjbench",
+    "toe": "/usr/local/bin/toe",
+    "tput": "/usr/local/bin/tput",
+    "transicc": "/usr/local/bin/transicc",
+    "tset": "/usr/local/bin/tset",
+    "unzstd": "/usr/local/bin/unzstd",
+    "uuclient": "/usr/local/bin/uuclient",
+    "wrjpgcom": "/usr/local/bin/wrjpgcom",
+    "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