0b79f38c15c80abf6f73f62916530c06e7efe99b hiram Thu Feb 27 12:22:35 2025 -0800 VGP update and a couple user requests refs #29545 diff --git src/hg/makeDb/doc/asmHubs/master.run.list src/hg/makeDb/doc/asmHubs/master.run.list index a9cc24e2534..6451facbbd4 100644 --- src/hg/makeDb/doc/asmHubs/master.run.list +++ src/hg/makeDb/doc/asmHubs/master.run.list @@ -1218,30 +1218,31 @@ ./runBuild GCA_019023105.1_LSU_DiBr_2.0 birds Diglossa_brunneiventris ./runBuild GCA_019049465.1_Diul.assembly.v1.1 invertebrate Dryas_iulia_moderata ./runBuild GCA_019049475.1_ASM1904947v1 invertebrate Eueides_isabella ./runBuild GCA_019059535.1_ASM1905953v1 invertebrate Entamoeba_histolytica_KU48 ./runBuild GCA_019059595.1_ASM1905959v1 invertebrate Cnaphalocrocis_exigua ./runBuild GCA_019096175.1_IZB_EATRO1125_Draft_genome_1.0 invertebrate Trypanosoma_brucei ./runBuild GCA_019096205.1_PxLV.1 invertebrate Plutella_xylostella ./runBuild GCA_019207075.1_Bb-hap invertebrate Branchiostoma_floridae_x_Branchiostoma_belcheri ./runBuild GCA_019345075.1_ASM1934507v1 birds Alectoris_rufa ./runBuild GCA_019393635.1_mDroGli1.pri mammals Dromiciops_gliroides ./runBuild GCA_019395325.1_mDroGli1.alt mammals Dromiciops_gliroides ./runBuild GCA_019425515.1_ASM1942551v1 invertebrate Rhopalosiphum_padi ./runBuild GCA_019425605.1_ASM1942560v1 invertebrate Sitobion_avenae ./runBuild GCA_019425755.1_ASM1942575v1 plants Amaranthus_cruentus ./runBuild GCA_019455555.1_Gpyr_1.0 mammals Galemys_pyrenaic +./runBuild GCA_019514585.1_ASM1951458v1 plants Dendrobium_officinale ./runBuild GCA_019593555.1_cma1 birds Crossoptilon_mantchuricum ./runBuild GCA_019677235.1_HNU_Msal_1.0 fish Micropterus_salmoides ./runBuild GCA_019721115.1_AMEX_1.1 fish Astyanax_mexicanus ./runBuild GCA_019802505.1_Lin1PacBio.ctg.fa.r3p3_pilon_3_oneline.fasta fish Corydoras_sp._C115 ./runBuild GCA_019844115.2_ASM1984411v2 invertebrate Cryptosporidium_parvum ./runBuild GCA_019903745.2_ULRtarCaribou_2v2 mammals Rangifer_tarandus_caribou ./runBuild GCA_019925205.1_ASM1992520v1 invertebrate Metopolophium_dirhodum ./runBuild GCA_019968985.2_MNHN_PgigB_v1.1 invertebrate Porospora_cf._gigantea_B ./runBuild GCA_019973935.1_Tncv_1.0 invertebrate Trichonephila_clavipes ./runBuild GCA_019985065.2_ddArcGlau1.1p plants Arctostaphylos_glauca ./runBuild GCA_019985075.1_ddArcGlau1.0.a plants Arctostaphylos_glauca ./runBuild GCA_020169535.1_solTubStieglitzHap2 plants Solanum_tuberosum ./runBuild GCA_020169555.1_solTubStieglitzHap1 plants Solanum_tuberosum ./runBuild GCA_020169575.1_solTubHeraHap2 plants Solanum_tuberosum ./runBuild GCA_020169585.1_solTubHeraHap1 plants Solanum_tuberosum @@ -1846,32 +1847,37 @@ ./runBuild GCA_040955705.1_LycPic1.final.hap2 mammals Lycaon_pictus ./runBuild GCA_041222355.1_F344_StmMcwi mammals Rattus_norvegicus ./runBuild GCA_041834305.1_ASM4183430v1 mammals Megaptera_novaeangliae ./runBuild GCA_042242105.1_fPemKlu1.hap1 fish Pempheris_klunzingeri ./runBuild GCA_042242115.1_fArrGeo1.hap1 fish Arripis_georgiana ./runBuild GCA_042242125.1_fPemKlu1.hap2 fish Pempheris_klunzingeri ./runBuild GCA_042242135.1_fArrGeo1.hap2 fish Arripis_georgiana ./runBuild GCA_043159975.1_mMacNem.hap1 primates Macaca_nemestrina ./runBuild GCA_043161795.1_mMacNem.hap2 primates Macaca_nemestrina ./runBuild GCA_043250625.1_fSebFas1.pri fish Sebastes_fasciatus ./runBuild GCA_043290065.1_mRhyPet1.hap2 mammals Rhynchocyon_petersi ./runBuild GCA_043290085.1_mRhyPet1.hap1 mammals Rhynchocyon_petersi ./runBuild GCA_043640875.1_fEnoArm2.hap2 fish Enoplosus_armatus ./runBuild GCA_043727835.1_ASM4372783v1 mammals Aselliscus_stoliczkanus ./runBuild GCA_043727955.1_ASM4372795v1 mammals Hipposideros_larvatus +./runBuild GCA_043728065.1_ASM4372806v1 mammals Rhinolophus_affinis +./runBuild GCA_043728145.1_ASM4372814v1 mammals Rhinolophus_trifoliatus +./runBuild GCA_043748575.1_ASM4374857v1 mammals Rhinolophus_perniger_lanosus ./runBuild GCA_043748645.1_ASM4374864v1 mammals Mops_condylurus ./runBuild GCA_043880285.1_ASM4388028v1 mammals Doryrhina_cyclops +./runBuild GCA_043880425.1_ASM4388042v1 mammals Rhinolophus_yonghoiseni +./runBuild GCA_043880595.1_ASM4388059v1 mammals Megaderma_spasma ./runBuild GCA_044231645.1_SynOce1_v1.hap2 fish Neosynchiropus_ocellatus ./runBuild GCA_044231665.1_SynOce1_v1.hap1 fish Neosynchiropus_ocellatus ./runBuild GCA_044231675.1_ASM4423167v1 fish Synchiropus_picturatus ./runBuild GCA_044231685.1_ASM4423168v1 fish Synchiropus_picturatus ./runBuild GCA_044704955.1_sPriJap1.hap1 vertebrate Pristiophorus_japonicus ./runBuild GCA_044704965.1_sPriJap1.hap2 vertebrate Pristiophorus_japonicus ./runBuild GCA_045345405.1_bGuaGua1_haplotype_1 birds Guaruba_guarouba ./runBuild GCA_045345505.1_bMorGui1_haplotype_1 birds Morphnus_guianensis ./runBuild GCA_045345515.1_bMorGui1_haplotype_2 birds Morphnus_guianensis ./runBuild GCA_045362485.1_fLetNeb1.hap2 fish Lethrinus_nebulosus ./runBuild GCA_045362495.1_fLetNeb1.hap1 fish Lethrinus_nebulosus ./runBuild GCA_045363885.1_fPriTyp1.hap2 fish Pristipomoides_typus ./runBuild GCA_045363895.1_fPriTyp1.hap1 fish Pristipomoides_typus ./runBuild GCA_045364785.1_rPodExp1_haplotype_1 vertebrate Podocnemis_expansa ./runBuild GCA_045364795.1_bWilVid1_haplotype_1 birds Willisornis_vidua @@ -1890,30 +1896,32 @@ ./runBuild GCA_046129705.1_bLonStr1.pat birds Lonchura_striata ./runBuild GCA_046255685.1_fAmbSpe1.hap1 fish Amblyopsis_spelaea ./runBuild GCA_046255725.1_fAmbSpe1.hap2 fish Amblyopsis_spelaea ./runBuild GCA_046562875.1_mPanOnc1_haplotype_2 mammals Panthera_onca ./runBuild GCA_046562885.1_mPanOnc1_haplotype_1 mammals Panthera_onca ./runBuild GCA_046562895.1_mTriInu1_haplotype_2 mammals Trichechus_inunguis ./runBuild GCA_046562985.1_mTriInu1_haplotype_1 mammals Trichechus_inunguis ./runBuild GCA_047511565.1_fPolLow2.hap1 fish Polymixia_lowei ./runBuild GCA_047511595.1_fPolLow2.hap2 fish Polymixia_lowei ./runBuild GCA_047511605.1_mCasCan1.hap2 mammals Castor_canadensis ./runBuild GCA_047511655.1_mCasCan1.hap1 mammals Castor_canadensis ./runBuild GCA_047511675.1_mMarFla1.hap1 mammals Marmota_flaviventris ./runBuild GCA_047512175.1_mMarFla1.hap2 mammals Marmota_flaviventris ./runBuild GCA_047715955.1_rBraPum1.hap2 vertebrate Bradypodion_pumilum ./runBuild GCA_047715975.1_rBraPum1.hap1 vertebrate Bradypodion_pumilum +./runBuild GCA_047948205.1_ASM4794820v1 invertebrate Lycorma_delicatula +./runBuild GCA_047948215.1_ASM4794821v1 invertebrate Lycorma_delicatula ./runBuild GCA_900002395.1_PYYM01 invertebrate Plasmodium_yoelii ./runBuild GCA_900006655.3_Susie3 primates Gorilla_gorilla_gorilla ./runBuild GCA_900011295.1_ATCC19606_assembly bacteria Acinetobacter_baumannii ./runBuild GCA_900029915.1_F._proliferatum_NRRL62905_version_1 fungi Fusarium_proliferatum ./runBuild GCA_900036025.1_v1.0 invertebrate Lymnaea_stagnalis ./runBuild GCA_900044135.1_GZPH1RResV1 fungi Fusarium_graminearum ./runBuild GCA_900088365.1_Bl71nemr invertebrate Branchiostoma_lanceolatum ./runBuild GCA_900090025.2_PowCR01 invertebrate Plasmodium_ovale ./runBuild GCA_900090035.2_PocGH01 invertebrate Plasmodium_ovale ./runBuild GCA_900093555.2_GCA_900093555 invertebrate Plasmodium_vivax ./runBuild GCA_900094665.2_CAROLI_EIJ_v1.1 mammals Mus_caroli ./runBuild GCA_900095595.1_PPRFG01 invertebrate Plasmodium_sp._gorilla_clade_G1 ./runBuild GCA_900097025.1_PRG01 invertebrate Plasmodium_reichenowi ./runBuild GCA_900097035.1_PBLACG01 invertebrate Plasmodium_sp._gorilla_clade_G3 ./runBuild GCA_900097045.1_PGABG01 invertebrate Plasmodium_gaboni @@ -2306,30 +2314,31 @@ ./runBuild GCA_963455305.1_mPleAur1.1 mammals Plecotus_auritus ./runBuild GCA_963455315.2_mGloMel1.2 mammals Globicephala_melas ./runBuild GCA_963455335.1_mMarMar1.1 mammals Martes_martes ./runBuild GCA_963457625.1_fCycLum2.1 fish Cyclopterus_lumpus ./runBuild GCA_963457635.1_fMicVar1.1 fish Microchirus_variegatus ./runBuild GCA_963457725.1_fSprSpr1.1 fish Sprattus_sprattus ./runBuild GCA_963513975.1_bFriCoe1.1 birds Fringilla_coelebs ./runBuild GCA_963514005.1_sRajBra1.1 vertebrate Raja_brachyura ./runBuild GCA_963514075.1_fConCon1.1 fish Conger_conger ./runBuild GCA_963514085.1_fCheLab1.1 fish Chelon_labrosus ./runBuild GCA_963514095.1_fEutGur1.1 fish Eutrigla_gurnardus ./runBuild GCA_963662255.1_bCinCin1.1 birds Cinclus_cinclus ./runBuild GCA_963691815.1_fEchVip8.1 fish Echiichthys_vipera ./runBuild GCA_963691925.1_fScoSco1.1 fish Scomber_scombrus ./runBuild GCA_963692335.1_fOsmEpe2.1 fish Osmerus_eperlanus +./runBuild GCA_963693515.1_mPipNat.pri mammals Pipistrellus_nathusii ./runBuild GCA_963853865.1_ilHelHell1.1 invertebrate Helleia_helle ./runBuild GCA_963854185.1_fSarPil1.1 fish Sardina_pilchardus ./runBuild GCA_963854745.1_fScoMax1.1 fish Scophthalmus_maximus ./runBuild GCA_963855885.1_ilCoeGlyc1.1 invertebrate Coenonympha_glycerion ./runBuild GCA_963921795.1_fNanAch1.1 fish Nannobrachium_achirus ./runBuild GCA_963921805.1_bPhaCar2.1 birds Phalacrocorax_carbo ./runBuild GCA_963924005.1_fProBol1.1 fish Protomyctophum_bolini ./runBuild GCA_963924245.1_bChrRid1.1 birds Chroicocephalus_ridibundus ./runBuild GCA_963924515.1_mVesMur1.1 mammals Vespertilio_murinus ./runBuild GCA_963924565.1_kaAscAspe10.1 invertebrate Ascidiella_aspersa ./runBuild GCA_963924665.1_mMicMin1.1 mammals Micromys_minutus ./runBuild GCA_963924675.1_mPhoPho1.1 mammals Phocoena_phocoena ./runBuild GCA_963924715.1_fThuThy2.1 fish Thunnus_thynnus ./runBuild GCA_963930665.1_mMunRee1.1_alternate_haplotype mammals Muntiacus_reevesi ./runBuild GCA_963930695.1_fLabBer1.1 fish Labrus_bergylta @@ -2414,64 +2423,71 @@ ./runBuild GCA_964237585.1_bGalChl1.hap1.1 birds Gallinula_chloropus ./runBuild GCA_964251985.1_rPodErh1.hap2.1 vertebrate Podarcis_erhardii ./runBuild GCA_964252035.1_rPodErh1.hap1.1 vertebrate Podarcis_erhardii ./runBuild GCA_964261635.1_aLisHel1.1 vertebrate Lissotriton_helveticus ./runBuild GCA_964263255.1_aLisVul1.1 vertebrate Lissotriton_vulgaris ./runBuild GCA_964263835.1_fCorLav1.hap2.1 fish Coregonus_lavaretus ./runBuild GCA_964263955.1_fCorLav1.hap1.1 fish Coregonus_lavaretus ./runBuild GCA_964264875.1_mNycLei1.hap1.1 mammals Nyctalus_leisleri ./runBuild GCA_964264895.1_mNycLei1.hap2.1 mammals Nyctalus_leisleri ./runBuild GCA_964266715.1_fMicKit1.1 fish Microstomus_kitt ./runBuild GCA_964270355.1_Elg.assembly.v.1.0 mammals Alces_alces ./runBuild GCA_964270875.1_rPodFil1.hap2.1 vertebrate Podarcis_filfolensis ./runBuild GCA_964270895.1_rPodFil1.hap1.1 vertebrate Podarcis_filfolensis ./runBuild GCA_964270905.1_mLagAcu1.hap1.1 mammals Lagenorhynchus_acutus ./runBuild GCA_964270935.1_mLagAcu1.hap2.1 mammals Lagenorhynchus_acutus +./runBuild GCA_964271855.1_mAcoMin1 mammals Acomys_minous ./runBuild GCA_964273445.1_bStrDea1.hap1.1 birds Streptopelia_decaocto ./runBuild GCA_964273585.1_bStrDea1.hap2.1 birds Streptopelia_decaocto ./runBuild GCA_964273705.1_rNatHel1.hap1.1 vertebrate Natrix_helvetica ./runBuild GCA_964273795.1_rNatHel1.hap2.1 vertebrate Natrix_helvetica ./runBuild GCA_964276385.1_fGasAcu3.hap2.1 fish Gasterosteus_aculeatus ./runBuild GCA_964276395.1_fGasAcu3.hap1.1 fish Gasterosteus_aculeatus ./runBuild GCA_964289735.1_bPhaAeh10.maternal.1 birds Phaethon_aethereus ./runBuild GCA_964289755.1_bPhaAeh10.paternal.1 birds Phaethon_aethereus +./runBuild GCA_964339955.1_mPipHan1.1 mammals Pipistrellus_hanaki ./runBuild GCA_964341445.1_mMesMir1.hap1.1 mammals Mesoplodon_mirus ./runBuild GCA_964341485.1_mMesMir1.hap2.1 mammals Mesoplodon_mirus ./runBuild GCA_964374135.1_mGraGri1.hap1.1 mammals Grampus_griseus ./runBuild GCA_964374185.1_mGraGri1.hap2.1 mammals Grampus_griseus ./runBuild GCA_964374335.1_fAstCal68.1 fish Astatotilapia_calliptera ./runBuild GCA_964417125.1_bLarArg3.hap2.1 birds Larus_argentatus +./runBuild GCA_964417175.1_bLarArg3.hap1.1 birds Larus_argentatus ./runBuild GCA_964638095.1_fPorCra3.hap1.1 fish Poromitra_crassiceps ./runBuild GCA_964638665.1_fPorCra3.hap2.1 fish Poromitra_crassiceps ./runBuild GCA_964656075.1_mPipNat1.hap2.1 mammals Pipistrellus_nathusii ./runBuild GCA_964656225.1_mPipNat1.hap1.1 mammals Pipistrellus_nathusii ./runBuild GCA_964656455.1_mHalGry1.hap1.1 mammals Halichoerus_grypus ./runBuild GCA_964656465.1_mHalGry1.hap2.1 mammals Halichoerus_grypus ./runBuild GCA_964662095.1_mMusNiv2.hap2.1 mammals Mustela_nivalis ./runBuild GCA_964662115.1_mMusNiv2.hap1.1 mammals Mustela_nivalis ./runBuild GCA_965112155.1_rPodLio1.hap1.1 vertebrate Podarcis_liolepis ./runBuild GCA_965113295.1_fLeuLeu2.hap1.1 fish Leuciscus_leuciscus ./runBuild GCA_965113305.1_rPodVau1.hap2.1 vertebrate Podarcis_vaucheri ./runBuild GCA_965113315.1_rPodVau1.hap1.1 vertebrate Podarcis_vaucheri ./runBuild GCA_965115925.1_mMyoEma1.hap1.1 mammals Myotis_emarginatus ./runBuild GCA_965115945.1_mMyoEma1.hap2.1 mammals Myotis_emarginatus +./runBuild GCA_965119305.1_aPelLes1.hap1.1 vertebrate Pelophylax_lessonae +./runBuild GCA_965119315.1_aPelLes1.hap2.1 vertebrate Pelophylax_lessonae ./runBuild GCA_965140185.1_bAthNoc1.hap2.1 birds Athene_noctua ./runBuild GCA_965140235.1_rCarCar1.hap1 vertebrate Caretta_caretta ./runBuild GCA_965140245.1_bAthNoc1.hap1.1 birds Athene_noctua ./runBuild GCA_965140255.1_rLepOli2.hap2 vertebrate Lepidochelys_olivacea ./runBuild GCA_965140275.1_rCarCar1.hap2 vertebrate Caretta_caretta ./runBuild GCA_965140295.1_rLepOli2.hap1 vertebrate Lepidochelys_olivacea +./runBuild GCA_965140915.1_bAytMar2.hap1.1 birds Aythya_marila +./runBuild GCA_965140925.1_bAytMar2.hap2.1 birds Aythya_marila ./runBuild GCA_965151615.1_bCygCol1.1 birds Cygnus_columbianus ./runBuild GCA_965152195.1_rNatDep2.hap2 vertebrate Natator_depressus ./runBuild GCA_965152275.1_rNatDep2.hap1 vertebrate Natator_depressus ./runBuild GCA_965152285.1_rEreImb1.hap2 vertebrate Eretmochelys_imbricata ./runBuild GCF_000001215.4_Release_6_plus_ISO1_MT invertebrate Drosophila_melanogaster ./runBuild GCF_000001405.39_GRCh38.p13 primates Homo_sapiens ./runBuild GCF_000001405.40_GRCh38.p14 primates Homo_sapiens ./runBuild GCF_000001635.26_GRCm38.p6 mammals Mus_musculus ./runBuild GCF_000001635.27_GRCm39 mammals Mus_musculus ./runBuild GCF_000001735.3_TAIR10 plants Arabidopsis_thaliana ./runBuild GCF_000001735.4_TAIR10.1 plants Arabidopsis_thaliana ./runBuild GCF_000001895.5_Rnor_6.0 mammals Rattus_norvegicus ./runBuild GCF_000001905.1_Loxafr3.0 mammals Loxodonta_africana ./runBuild GCF_000001985.1_JCVI-PMFA1-2.0 fungi Talaromyces_marneffei_ATCC_18224 ./runBuild GCF_000002035.6_GRCz11 fish Danio_rerio