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HH1HDžDžHHtHHHuHH1HHIF0HDžHDžH9tHEdH3%(He[A\A]A^A_]HHHDžDžH1|WHHH2HHHDžDžH1wH`HH@LHHHLHLHf.UHAWAVLAUATSHIH8H8dH%(HE1IF0HHHDžHHDžHDžDž ?HDž(HDž0HxHLIHH;LHt L HHHHI|$H@HDžHƅPHDžhƅpHHEEH@H@HEEH0H`H@HPHEH@HpHEKH[HHHHHUHHHGxLHP L`(HjLXZI$H@LAHH#HH@Hc؉HHG0H+G(H9E8LMMiMIME1E1HDžI*MM)HE11HPIAHH<HHHL9HABDDZADZH9EBAD5uI9v_HLHL)H9 HEL11HIHIHL9@2uLH[HHHHHGxHxL8LhL@HHHH1HcHyHHHIHt4HHqI9t*H HtHcA1HHI9tLE1fL@LJ<(1LHHHL}IGMHI9HrJLIHL1HLLLMLI1\HIH1LMDHLHLLM~I|$MH}H@HpH9tH}H@HPH9tH`H@H0H9tH@H@HH9tHHHǐHLHH HH1HDžDžHHtHHHuHH1HHIF0HDžHDžH9tHEdH3%(He[A\A]A^A_]HHHDžDžH1|WHHH2HHHDžDžH1wb`HH@LHHHLHLHf.AWAVIAUATIUSHIԉHXMdH%(HD$H1H\$ t.I $HCMd$HD$ HLt|HuwDLHHu|@LLLH|$ HH9tHD$HdH3%([HX[]A\A]A^A_@ILd$weI#MH{u}Ld$(B'vHoHub@LLLYHt$H1HL$HHD$ HD$HL$HD$0LHLd$H|$ iHtHt>Ht-HT$ H|$1HD$D$@LLLfH{D$0H|$ HHH9tHff.AWAVIAUATUSHHxH<$H$`dH%(H$h1L-Ƅ$@H|$`H HDŽ$`1HDŽ$8Ƅ$AIEHDŽ$HHDŽ$PHDŽ$XHDŽ$`Ll$`HL`HD$hI}HD$`HD$`HDŽ$`HxHD$`Ht$pHHD$`HuHxHH|$`HD$`.Hx1H$HD$0Lt$PHD$(D$0HD$ ÉD$ HD$`H@HPH${8SCHt$ H|$`HHRD HD$(H\$ L$HHH,FfD{{{HH9;uI9;L$ H<$HT$@Ht$ MLt$@HD$HD$PH|$@L9fDHH H@0H= HfDLH)HHtlH;I9?fHI9k+fDHI9SfDHI9;;H;H;qH|$ HD$0H9tH|$pHD$`HDŽ$`HD$pH$H$HD$pIEH H$`HL`HDŽ$`H$hdH3%(Hx[]A\A]A^A_HUH|$1HD$D$8Hxw HH|$`HH|$@HT$PHH9tH|$ HT$0H9tHH|$pHHIUH HHL`H$`HDŽ$`HHHt H`D1Ht fDSH_HtH;HCH9tH[@[fsa/read_store.cppiter != ids_in_file_.end()basic_string::substrUnrecognized the suffix of %s.fasta.fasta.gz.fa.fa.gz.fastq.fastq.gz.fofn.txtfsa/sequence.hppindex/4 < data_.size()Failed to load a readw%d %s Failed to open outfile: %sACGTvector::_M_fill_insertid >= 0!item.head.empty()Failed to open file: %sfastafasta.gzfastq.gztxtfastqfofn0 <= id && (size_t)id < names_.size()basic_string::_M_construct null not valid%s: __pos (which is %zu) > this->size() (which is %zu)id >= 0 && id < (int)names_.size()No all reads in file are loaded: %sLoad %zd reads from fasta file: %sLoad %zd reads from fastq file: %sFailed to recognize read files type: %sSHH`HCpH9tH{@HCPH9tH{ HC0H9tH;HH9t [@[9f=        2E;:blW9!YA6|    M })!%r} T;?Q) z$tm8 ;?Q;?Q6   B  <6   B  <4Gj@  :   '    USHHHHtfDHHHuHEH}1H0HH}HEHEH9t H[]H[]SHHtot+[fGPWuHPC PS HPC uHH[H@AVIAUATUiSHHvI>Hk1IHHHHt(HIHK0I9t*HHtHK01HHI9t[1]A\A]A^fDIVH;SuHtHsI>uH[]A\A]A^AWAVIAUATUSHHHWL?dH%(HD$1HL)IIMKD-I9ILHUL}IHL)LtaM>MvHCHLLtMuIL4$:IhMHLsB2HUL}I9QIO IGH)HIt0LH4fDH HHJHHHJH@H@H H H9t*HtHJH HHH9uHHXHJHZ@L}H]HHMt@I9t%H;HCH9tH I9uL}MtLLeMLuHD$dH3%(LeH[]A\A]A^A_A sD1HHHHH$HCLLL4$HfDASHMt$ ]3fDHHH9Hu*E1E1HMtLIHHEH+EH8HH9tHAWAVAUATUSHxdH%(HD$h1HH4$HT$IHIIGIWH)HH9H)HD$PHYHD$@HHbHYHGMgHHI/L9tH}HEH9tH L9uM'MtLHD$I_IHD$IGHD$hdH3%(/Hx[]A\A]A^A_DIHHH)HH)H9T$H9HHBHr H9{H$HD$H|$H)HHHD$(HD$H\$Ld$H\$ HtXM.InHCHLHtMufDHHl$8HHHHk*H IuIH9$HD$H<$HJ HBH)HHt:0HT$H7DH HHJHHHJH@H@H H H9^HtHJH HHH9uLLPLJLRHt$81HHHHD$8HCHLHl$8Hf.AUSHHH\$8HoHHD$PH\$HMgH|$LH+$HD$HH9NHLHH)L9HEIt$LdH%(HD$1Io1IHIHIHt%HHK`I9ttHHtHK`1HHI9tHL$HT$LLt$LHLLH(f.H|$dH3<%(u>H([]A\A]A^A_ÐIVH;SuHtHsI>iDHC(AUATUSHHHHHIH9L,LL1HILU0HMHEHt[E1LMfHHHHHHtH[]A\A]HCHI$LctI$1Hc@HsL$H HCH)HLHHAUAT1USHLc&LOLIHHHHt(HMDAE9tYH HtHcA1IIH9tIHAUHHHHPLH[]A\A]ÐHH1[]A\A]void fsa::ReadStore::Insert(fsa::Seq::Id, const fsa::SeqReader::Item&, fsa::SeqReader*, bool)void fsa::DnaSeq::Reset(const string&)const std::unordered_set& fsa::ReadStore::IdsInFile(const string&) constvoid fsa::ReadStore::LoadFastq(const string&, bool, const std::unordered_set&)void fsa::ReadStore::LoadFasta(const string&, bool, const std::unordered_set&)void fsa::ReadStore::SetNameToId(const string&, int)std::__cxx11::string fsa::ReadStore::IdToName(int)St11_Mutex_baseILN9__gnu_cxx12_Lock_policyE2EESt16_Sp_counted_baseILN9__gnu_cxx12_Lock_policyE2EESt15_Sp_counted_ptrIPNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEELN9__gnu_cxx12_Lock_policyE2EEGCC: (Ubuntu 5.4.0-6ubuntu1~16.04.11) 5.4.0 20160609zRx 0DXl*A^ I A0BAA D0  AABE RAF I AzPLRx <$BEB A(F0(A BBB<dBBD A(Gp (A ABBA LBBB B(A0A8G`P 8A0A(B BBBE PBBB B(A0A8GQ 8A0A(B BBBD 0LBAD L@  AABA 0nAAG W AAE DAAbFP J |DBBE A(D0Jp 0A(A BBBA LBEB A(F0P (C BBBG c(A BBBLhBBE B(A0A8GP 8A0A(B BBBD L#BBB 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ual_toIiESt4hashIiENS8_18_Mod_range_hashingENS8_20_Default_ranged_hashENS8_20_Prime_rehash_policyENS8_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNS8_10_Hash_nodeIS6_Lb0EEE.text.unlikely._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S5_EEEESaISD_ENSt8__detail10_Select1stES9_S7_NSF_18_Mod_range_hashingENSF_20_Default_ranged_hashENSF_20_Prime_rehash_policyENSF_17_Hashtable_traitsILb0ELb0ELb1EEEE9_M_rehashEmRKm.rela.text._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S5_EEEESaISD_ENSt8__detail10_Select1stES9_S7_NSF_18_Mod_range_hashingENSF_20_Default_ranged_hashENSF_20_Prime_rehash_policyENSF_17_Hashtable_traitsILb0ELb0ELb1EEEE9_M_rehashEmRKm.text.unlikely._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S5_EEEESaISD_ENSt8__detail10_Select1stES9_S7_NSF_18_Mod_range_hashingENSF_20_Default_ranged_hashENSF_20_Prime_rehash_policyENSF_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSF_10_Hash_nodeISD_Lb0EEE.rela.text._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S5_EEEESaISD_ENSt8__detail10_Select1stES9_S7_NSF_18_Mod_range_hashingENSF_20_Default_ranged_hashENSF_20_Prime_rehash_policyENSF_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSF_10_Hash_nodeISD_Lb0EEE.text.unlikely._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S5_EEEESaISD_ENSt8__detail10_Select1stES9_S7_NSF_18_Mod_range_hashingENSF_20_Default_ranged_hashENSF_20_Prime_rehash_policyENSF_17_Hashtable_traitsILb0ELb0ELb1EEEE10_M_emplaceIJS0_IiSC_EEEES0_INSF_14_Node_iteratorISD_Lb0ELb0EEEbESt17integral_constantIbLb1EEDpOT_.rela.text._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S5_EEEESaISD_ENSt8__detail10_Select1stES9_S7_NSF_18_Mod_range_hashingENSF_20_Default_ranged_hashENSF_20_Prime_rehash_policyENSF_17_Hashtable_traitsILb0ELb0ELb1EEEE10_M_emplaceIJS0_IiSC_EEEES0_INSF_14_Node_iteratorISD_Lb0ELb0EEEbESt17integral_constantIbLb1EEDpOT_.text.unlikely._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPKN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S6_EEEESaISE_ENSt8__detail10_Select1stESA_S8_NSG_18_Mod_range_hashingENSG_20_Default_ranged_hashENSG_20_Prime_rehash_policyENSG_17_Hashtable_traitsILb0ELb0ELb1EEEE9_M_rehashEmRKm.rela.text._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPKN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S6_EEEESaISE_ENSt8__detail10_Select1stESA_S8_NSG_18_Mod_range_hashingENSG_20_Default_ranged_hashENSG_20_Prime_rehash_policyENSG_17_Hashtable_traitsILb0ELb0ELb1EEEE9_M_rehashEmRKm.text.unlikely._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPKN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S6_EEEESaISE_ENSt8__detail10_Select1stESA_S8_NSG_18_Mod_range_hashingENSG_20_Default_ranged_hashENSG_20_Prime_rehash_policyENSG_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSG_10_Hash_nodeISE_Lb0EEE.rela.text._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPKN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S6_EEEESaISE_ENSt8__detail10_Select1stESA_S8_NSG_18_Mod_range_hashingENSG_20_Default_ranged_hashENSG_20_Prime_rehash_policyENSG_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSG_10_Hash_nodeISE_Lb0EEE.text.unlikely._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPKN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S6_EEEESaISE_ENSt8__detail10_Select1stESA_S8_NSG_18_Mod_range_hashingENSG_20_Default_ranged_hashENSG_20_Prime_rehash_policyENSG_17_Hashtable_traitsILb0ELb0ELb1EEEE10_M_emplaceIJS0_IiSD_EEEES0_INSG_14_Node_iteratorISE_Lb0ELb0EEEbESt17integral_constantIbLb1EEDpOT_.rela.text._ZNSt10_HashtableIiSt4pairIKiSt13unordered_mapIiPKN3fsa7OverlapESt4hashIiESt8equal_toIiESaIS0_IS1_S6_EEEESaISE_ENSt8__detail10_Select1stESA_S8_NSG_18_Mod_range_hashingENSG_20_Default_ranged_hashENSG_20_Prime_rehash_policyENSG_17_Hashtable_traitsILb0ELb0ELb1EEEE10_M_emplaceIJS0_IiSD_EEEES0_INSG_14_Node_iteratorISE_Lb0ELb0EEEbESt17integral_constantIbLb1EEDpOT_.rodata.rodata.cst8.comment.note.GNU-stack.rela.eh_frame.group$@ U2$L U3$X U4$d U5$p U6$| U~$ U$ U$ U$ U$ U$ U$ U$ U$ U$ U$ U .@Ђ0U&/,/12/c@2@0T0O@`Uc0Eu23@3U@`0U+3H3C@UWx4K4nF@ HU"14O4J@hU%_5T5nO@HU(; >6 @6 @@HU+/ *8. 08+) @U. \9D `9? @HU1[b:Pp:K@0U47 ;7 ;+2@8U7)L<OP<J@U:gR=`=+@U=>> @xU@7??@PUC!NAJPA+E@UFe|BB @UI Cr"Cm"@xUL#@E> #E#0E6#E$E$@UR%$xMXVI [&simple_align.o/ 0 0 0 644 38304 ` ELF>@@(%AWAVIAUATIUSHIH HHWHwLwHHWHH9XL<LL1HILU0HMHEHtgE1LMfDHHHHHHtDHA 1H9HIH0HuHuH1HMLH9HK IHuDH}L9tL1H]HLuIIMl$ K>HHt2HI$HL HEHL[]A\A]A^A_fDLufHEHI$LetI$1H@ HuM$HEHUJ8I Lu0HE0MHLu(HHLHHAUATUSHLOH?dH%(HD$1LH)HHkL9KHGI9>L_H/H_LgE؉A)D)A9HW I9H0I9uJD9} LH_EA)؉D)9|MLH I9tdHJH I9LHJE+JLjA)DD)9|D9} ALMӉD)9|H/LgH D)I9ufH L H\$dH3%(}H[]A\A]f.DALIHHLIH +ZD9}AfDH+GAD9L끹0fAWAVHAUATUSHHdH%(H$1HT$0HL$ H H|$@DD$\HHB(DL$|HBHD$pHBHHB8HVHSHD$h fH*DY4t$x,\D$XH?HcH96 HHH1HHHD$`T$XHDŽ$HDŽ$HDŽ$DŽ$?HDŽ$Hc…HDŽ$HHD$HH$H$7HD$8D$D$,D$HcD$,HT$89D$T$Ht$HD$HD$PH4Ht$HHH)H?HD$0L@D$fDT$,9 9D$HD$0Dp@A9-D$D$(D+D$IcI9D$v*HT$ HcHBH9vH|$0L H?A 87IEE1@H$1HHH$HHHtRHLI HI9H?HtLO 1LHH9tHy H9H HtHy 1HHH9t޿(t$H$H@@H@@Hډpt$p HAHHHD$0L@@D$(Ht$T$DqDy D$AD.AED9DMM9Dl$sAHD$ McL;x+HcD$Hcl$1H$HHHH)HHHH$HIHt)H0H~ H9H6HtH~ 1HHI9t޿(T$t$H$H@H@@Pp H@L(HpD$;G:D$;G -DD$;A(D$;A HDD$HD$H>D$9D$HD$HHT$PD+L$\H4+D$,9D$,DD$PFH)9D9‰~T$Ht$H|$,HcH4)9oFH)9\9}D$+D$,9D$x|HD$8HD$89D$XH$HtHHHuH$H$1HH$H$HDŽ$HDŽ$H9tH|$`H$dH3%(HD$@H[]A\A]A^A_Ë@f.t$Dpt$(@H0LfH)H)LfM9AE,I9F!It$F8'Iˋ|$,G;D$D$,sBD$D$;FD$;F HF VH|$@F|$|WGG GD$oL$Dt$HDŽ$L$L$IcL$1HIII)ILIH$HIHt+HHs HHL9t5H HtHy 1HII9tD;quŋD$;A uL9pHHtHs 1HII9t޿(T$H$HDp@H@@LP @L)HXDDc DsL$EDcDpD`LHHH@H$DsDkL$DpHLHHH@DhD$H$D3D$KH$Ht$@n;kCDf A9L9DLvLn8HD$@D)A-HcL1Hp HD$@H|$ IcHOHp@CID)I)HL9LFH9HH L1kDcHL9tNC9SD9A99a9@A9@u}~HAL9uHD$@9h(D9`H$L9\HL9HuGf.D;sD$;C yHH|$0Hc)HHt$@HOHv II)L9LFH9HH L1HD$@KA-1LHp@)Hc@Ht$0HcHNH9[)H)Hl$@HLH9HFHD$0Hu IHH1H|$ CIcHu@HOD)HII)L9LFH9HA1HfHH DH*X!HH$HtH/HHuH$H$1HH$H$HDŽ$HDŽ$H9tH|$`HD$@Hx8H9|$ht HD$@HxH9|$ptH111H$HL9H/L9HuHD$DpHfAWAVAUATIUSIHxHQHIdH%(HD$h1AD$HH)HXH9SIHt$PEIH)HHt$@LH9HGLHtMuHH\$iHHH|$P~H\$HI$IL$I]H)H9HD$0H)HD$ HIEH9HGIHtMuDHH\$HGHH|$0DL$HL$@HT$ H\$(ELHH|$ HD$0H9tH|$@HD$PH9tI$EEID$E EHHt$hdH34%(Hx[]A\A]A^A_Ht$H|$ 1HHD$ HD$HD$0HLH\$H|$ 2H|$@Ht$1LD$HHD$@HD$LD$HD$PHLH\$H|$@hfAH|$PD$PMfDAEH|$0D$0HH|$@HD$PH9tHHپ1Hپ1H|$ HHD$0H9t@w @PHHHt}H1Q3wJ$H H9uH1@ff1fDAH3wTҍ$ @wL@H!Ð1@֐ffAWAVHAUATUSHHhHH@H|$H@HH@HT$dH %(HL$X1L$HAH )1HD$@HHD$HHD$PHHHH9L4LHHL1J|5Hl$HD$E1LHHMHI)IMt$H+F1IHD)HHHDM9rH9HUH9LuL}IM9HEH9tjHuH9u8@M9HBM9rMIHH9t=L@HL2L9LXLM9rM9HBM9rHL>IH9ufML+t$IL9<$zHt$HL\$@L)HHHHD$I LHHLHL`L(HD$L(LhL`L`Ld$Ll$(E1$D$AD$'E111Of9~9KLgM$D$AD$'HLHH@H\$(HD$II9t2HI K HH HLLL)yMI1I9uE|$'|$tHD$H\$HX<$t HD$L`HH|$@HtH\$XdH3%(HD$nHh[]A\A]A^A_ÐMHD$8Ht$Ht1M~3HtH>H|$8HHt$HLHH)H|$8HH99HHHH+B1D)HHHPL9rL9wH$H;TwH9t$PuHt$8H|$@HD$Ht$HH|$8HLHDLIMHI1@L}E1@HL9L9{IIpHD$11|HHH|$@HtHHD$H\$(HFHD$LhCHff.AWAVIAUATUSHH(HHGHGLB~dH%(HD$1LH)HHII6IHE1HIA+DADHQHHA L$LawHI9JHH$H$HH 0basic_string::insertbasic_string::substr!"never come here"k <= 16 && target.size() >= kP+P6%/g}%Y"|   2=`Z;?Q  path_nodes.find({dxy,d}) ==path_nodes.end()path_nodes.find(curr_node) !=path_nodes.end()result.query_start == cxy[0] && result.target_start == cxy[1]nxy[0] >= cxy[0] && nxy[1] >= cxy[1]%s: __pos (which is %zu) > this->size() (which is %zu)cxy[0] == nxy[0] && cxy[1] == nxy[1]result.query_end == cxy[0] && result.target_end == cxy[1]basic_string::_M_construct null not validnext_same.size() == target.size() - k + 1k <= 16 && target_.size() >= kuint8_t fsa::Acgt2Num(char)static uint32_t fsa::SimpleAlign::CalcKmer(const char*, size_t)????static uint32_t fsa::SimpleAlign::KmerMask(uint8_t)fsa::SimpleAlign::Result fsa::SimpleAlign::Align(const string&, const string&, int, bool)fsa::SimpleAlign::SimpleAlign(const string&, uint8_t)std::array fsa::SimpleAlign::KmerMatch::DiffMinMax() constfsa::SimpleAlign::KmerList::KmerList(const string&, uint8_t)AVAUATUISHGHH+HHtHH9vzIALHL3HSI $IL)HHItI $Hu)IMtLH+LLcHk[]A\A]A^ÐLHIHH9sE11HtHIlAWAVIAUATUSHHHGH+HHtHH9I fDALHL3HSIL)HHItI7II4$I|$Hu1IMtLH+LLcHkH[]A\A]A^A_LHIHH9]E11HoHIXAUATUSHHHHHIH9L,LL1HILU0HMHEHt[E1LMfHHHHHHt=>>.F3N =S Z:_5g =l s:.  !  + 0 R5)Ei      R)%4,-..B#/..=.E3o5 @    R)F5.3H1E h< h <k6...=;>e=>.3. = :5 =# *:G. F L     R ) ! d!L3",".#  &# +# 0#)#  # # e#)#/#.$-7$.D$.L$3Q$5{$N$  $ $ $)   ) @& + 0)    ( 08 @ H P X ` h p x                    ( 08 @ H P X ` h p x    p (08@HPX`hpxp (08@HP X`hpx (08@HP X`hpx         ( 0 8 @ H P X ` h p x                      ( 0 8 @ H P X ` h p x ! !   !            !  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HDž(HDž0HbH?H9HHL,H1HIH L0H0L(IHu2@E<$HMtLHIHH{ H+{D{HHIHHUUUUUUUH9vHsH{ IH)HHIHt HLH{8H+{0HHIHTHUUUUUUUH9Hs0H{8HH)HHIH HHE<$H HH H HtHH,dff.@ LMAV4;P [fDH(*YC ?,9MIcFxAHlj|1HH HIHt'L AL$9t5M$$MtIcD$1HHI9tHDžHDžHDžI\$Ml$ L9u~H I9trH@ 9C|fHH;fZ*Ch`{HtH`HhH0HxH HI9Hu|HHAFHDžHDžHDžHDž HDž(HDž0I\$0Md$8I9H@ 9CfxZf*HH;`f*Ch`HtH`HhH0HxHHCfxZf*H(H;0`f*ChHtH`HhH0HxHH(H I9DxHHDDHAF(H DDHH AF HtHHtHHtM6MHAV4;P H`H (H`HH`H HHH|LHHLHHLHHHH9tHHHH9tHHxXHHt7HHHH9IvH;HI9wHLHI9I\$ M,$HtHt H`Dfsa/overlap_filter.cppvector::_M_range_inserto.b_.id == idcov.back() == 0m4m4apafovlTODObasic_string::append/.coverage.txt.gzfiltered_reads.txt.gzfiltered_overlaps.txt.gzActual coverage = %dAuto Select min_length = %d w%d %d %d %d Fail to open coverage file %s%d %d %f %d %d %f %f %f rs.sub[1] == 0fsa/utility.hppsz >= 1 && high >= lowend == 1best.first >= s1.0fsa_ol_filter minimum length of readsmin_lengthmaximum length of readsmax_length minimum identity of overlapsmin_identitymin_aligned_lengthmax_overhangmin_coveragemax_coveragemax_diff_coveragecoverage_discard"|m4|m4a|paf|ovl"overlap_file_typebestnINTgenome_sizecoveragedirectory for output filesoutput_directorynumber of threadsthread_sizeidentity_global_deviation1identity_global_deviation2overhang_global_deviation1overhang_global_deviation2identity_local_deviation1identity_local_deviation2overhang_local_deviation1overhang_local_deviation2identity_local_conditionlocal_low_coverageinput filenameoverlapsouput filenamefiltered_overlaps Arguments: %sFailed to load file: %sloc == Overlap::Loc::Rightg != groups_.end()ContainedCoverageNoLongest%d %s %d %d SimpleDuplicateBestNFilteredReadLackOfSupportLocalUnknown%d %d %s %d %d filter_id2name.txt.gzcoverage0.txt.gzm4.gzm4a.gzpaf.gzovl.gzOverlap size: %zdNo overlap was loadeddata.size() > 0id == o.b_.idAuto select min_identity = %fAuto select max_overhang = %dreadinfos.gzri.second.len >= min_length_rri != readinfos.end()StartAuto select parametersLoad overlap fileFilter low-quality overlapsCheck CoverageCheck SupportRemove contained readsSelect BestN overlapsSave Overlaps: %sDumpEndrs.type >= OlReason::RS_OK && rs.type <= OlReason::RS_UNKNOWNbasic_string::_M_construct null not valido.Location(0) != Overlap::Loc::AbnormalFailed to recognize overlap files type: %sgenome_size_ > 0 && coverage_ > 0loc == Overlap::Loc::ContainingFail to open ReadInfos file %sagroup != groups_.end() && bgroup != groups_.end()0 <= percent && percent <= 100k % 2 == 1 && data.size() >= kFilters out low-quality overlaps for assemblingminimum aligned length of overlaps maximum overhang of overlaps, negative number = determined by the program.minimum base coverage, negative number = determined by the program.maximum base coverage, negative number = determined by the programmaximum difference of base coverage, negative number = determined by the programdiscard ratio of base coverage. If max_coverage or max_diff_coverage is negative, it will be reset to (100-coverage_discard)th percentile.overlap file format. "" = filename extension, "m4" = M4 format, "paf" = PAF format generated by minimap2, "ovl" = OVL format generated by FALCON. output best n overlaps on 5' or 3' end for each readgenome size. It determines the maximum length of reads with coverage togethercoverage. It determines the maximum length of reads with genome_size togetherIf min_identity < 0, min_identity is set to min(m, deviation1) - 1.4826*mad*deviation2If max_overhang < 0, max_overhang is set to max(m, deviation1) + 1.4826*mad*deviation2The local threshold of identity is set to min(m, deviation1) - 1.4826*mad*deviation2The local threshold of overhang is set to max(m, deviation1) + 1.253*mad*deviation2Local filtering conditions. 0 = overlap idenitity < threshold, 1 = overlap idenitity < threshold and query identity >= target identityIf the coverage of reads is less than local_low_coverage, min_identity and max_overhang are used to filter out low-quality overlaps. Otherwise, the local threshold is used.sub_inputs.size() == thread_sizemin_coverage = %d, max_coverage = %d, max_diff_coverage = %dFail to open filterd reads file %sFailed to convert line to overlap %sNo all overlaps in file are loaded: %sdeque::_M_new_elements_at_frontdeque::_M_new_elements_at_backStat identity median=%f, mad=%fEstimated min_identity is less than %.01fStat overhang: median=%f, mad=%fEstimated max_overhang_ is greater than %dGroup overlaps and remove duplicatedEstimated min_identity is less than 90.0Estimated max_overhang_ is greater than 500%/L}E;%]%J5-j"   "   "    9`pE:           Y#,Yu BbBb3EFWFyEEEDDDDDDDCDCCBDBBBDBBADA A @ D @ @ ? D ? ? ? D ? ? >D>>>>=<D<<<D<<<<;:D:::D999998D887D777D776D665D554D44 4 D!4!4!3"D"3"3"2#D#2#2$1$D%1%1%1&D&1&1&0'D'0'0(0(0)/).*D*.*.+.+.+.,-. 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HtHcA1IIH9tIHAUHHHHPLH[]A\A]ÐHH1[]A\A]AWAVAAUATIUSHHHOHHw(HGHH)HHJT%H<H9vQH)IHELDM$L#L9HQH)HHHLHL9LHCLlHI9J<HT$IHT$ILH)HELDHs(M$HCHMHPH)HHHH;L;LkHLc(I$HCHHC ID,HCHHHC8HHC@H[]A\A]A^A_HQHH)HHHtHH)LfLnHO@HG0HQH9tOHt>HHHVHPHVHPHVHPHV HP HV(HP(HV0HP0HV8HP8H@HG0ATUHSLgHHHOLH+HH)HID$HE0Ht>HHHSHPHSHPHSHPHS HP HS(HP(HS0HP0HS8HP8HEHHPHUHH@HHE8HE0HU@[]A\f1ҾLeHdAUATUSHHW(HOHHG0H+G8H)HHHLHG H+GHHHH)H9rlH+LnIIHI9wFMt*@ID$(HڿHH,HHEI9sH[]A\A]L뫿HǽHtID$(HHHH<H9uHHAUATUSHHWHHG0H+G8HH+O(HHHLHG H+GHHHH)H9rhH+LnHGIIIMHH)H9v 1LMt'ID$HH,HHEI9sH[]A\A]ÿHǽHtID$HH&, size_t, size_t)static int fsa::OverlapFilter::Percentile(const std::vector&, double)static fsa::OverlapFilter::OlReason fsa::OverlapFilter::GetOlReason(const fsa::Overlap&)static void fsa::OverlapFilter::SetOlReason(const fsa::Overlap&, fsa::OverlapFilter::OlReason)bool fsa::OverlapFilter::IsContained(const fsa::Overlap&, std::array&)std::unordered_set fsa::OverlapFilter::FindBestN(const std::pair >&) constbool fsa::OverlapFilter::HasAlignment(int, int, int, int, bool) conststd::pair fsa::OverlapFilter::CalcMinMaxCoverage(int, const std::unordered_map&)std::vector > fsa::SplitRange(size_t, T, T) [with T = int; size_t = long unsigned int]void fsa::MultiThreadRun(size_t, S, W) [with S = fsa::OverlapFilter::GroupAndFilterDuplicateMt()::; W = fsa::OverlapFilter::GroupAndFilterDuplicateMt()::)>; size_t = long unsigned int]void fsa::OverlapFilter::AutoSelectMinLength(std::vector&)void fsa::OverlapFilter::AutoSelectParams()fsa::OverlapFilter::FilterBestNMt()::&)>decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) fsa::MultiThreadRun(size_t, const I&, S, W, C) [with I = std::unordered_map >; S = std::vector, std::allocator > > (*)(long unsigned int, const std::unordered_map >&); W = fsa::OverlapFilter::FilterBestNMt()::&)>; C = std::unordered_set (*)(const std::vector, std::allocator > >&); decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) = std::unordered_set; decltype (work_func(split_func(thread_size, inputs)[0])) = std::unordered_set; size_t = long unsigned int]decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) fsa::MultiThreadRun(size_t, const I&, S, W, C) [with I = std::array; S = fsa::OverlapFilter::FilterLackOfSupportMt()::&)>; W = fsa::OverlapFilter::FilterLackOfSupportMt()::&)>; C = std::unordered_set (*)(const std::vector, std::allocator > >&); decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) = std::unordered_set; decltype (work_func(split_func(thread_size, inputs)[0])) = std::unordered_set; size_t = long unsigned int]decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) fsa::MultiThreadRun(size_t, const I&, S, W, C) [with I = std::unordered_map >; S = std::vector, std::allocator > > (*)(long unsigned int, const std::unordered_map >&); W = fsa::OverlapFilter::FilterCoverageMt()::&)>; C = std::unordered_map > (*)(const std::vector >, std::allocator > > >&); decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) = std::unordered_map >; decltype (work_func(split_func(thread_size, inputs)[0])) = std::unordered_map >; size_t = long unsigned int]void fsa::MultiThreadRun(size_t, S, W) [with S = fsa::OverlapFilter::FilterContainedMt()::; W = fsa::OverlapFilter::FilterContainedMt()::&)>; size_t = long unsigned int]void fsa::OverlapFilter::ModifyEnd(const fsa::Overlap&, int)void fsa::ComputeMedianAbsoluteDeviation(const std::vector >&, T&, T&) [with T = double]void fsa::OverlapFilter::CalcLocalThreshold(fsa::Seq::Id, const std::unordered_map&)void fsa::ComputeMeanAbsoluteDeviation(std::vector >&, T&, T&) [with T = double]void fsa::MultiThreadRun(size_t, S, W) [with S = fsa::OverlapFilter::FilterLowQuality()::; W = fsa::OverlapFilter::FilterLowQuality()::&)>; size_t = long unsigned int]std::vector > fsa::SplitRange(size_t, T, T) [with T = long unsigned int; size_t = long unsigned int]void fsa::MultiThreadRun(size_t, S, W) [with S = fsa::OverlapFilter::FilterLowQuality()::; W = fsa::OverlapFilter::FilterLowQuality()::&)>; size_t = long unsigned int]void fsa::MultiThreadRun(size_t, I&, S, W) [with I = std::unordered_map >; S = std::vector, std::allocator > > (*)(long unsigned int, const std::unordered_map >&); W = fsa::OverlapFilter::StatLowQuality()::&)>; size_t = long unsigned int]void fsa::MultiThreadRun(size_t, I&, S, W) [with I = std::unordered_map >; S = std::vector, std::allocator > > (*)(long unsigned int, const std::unordered_map >&); W = fsa::OverlapFilter::StatLowQuality()::&)>; size_t = long unsigned 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HHT$(HPHT$0HPHT$8HPHT$@HP HT$HHP(HT$PHP0HT$XHP8HCxHPHSxH@HHChHC`HSpHH|$`HD$pH9tHD1ҾLL{x>H4$H$pH$HDŽ$hƄ$pH$`H$H$H$H$`H$H$H$H9tH$h{Hl$ L$D$Pf.C(rsD$49D$ tiHKpHC`HQH9HtGHT$ HHT$(HPHT$0HPHT$8HPHT$@HP HT$HHP(HT$PHP0HT$XHP8H@HC`H$H$H$`H$H$L9tH$hH$`HLHD$XH$`H|$1HD$D$bH$HHD$ D$(H11ҾLL{xH$Hl$ H$HtH$H$H9tH$`H$pH9CLcHl$ H$1HD$ D$(HH$Hl$ HD$ D$(HH1$L{xHK8LH+C0HH)HIGHC`HtGHT$ HHT$(HPHT$0HPHT$8HPHT$@HP HT$HHP(HT$PHP0HT$XHP8HCxHPHSxH@HHChHC`HSpH$HHD$ D$(H1H4$H$H$HDŽ$Ƅ$H$H$H$H$H$H$H$H$H9tH$3Hl$ L$D$Pf.C(rsD$49D$ tiHKpHC`HQH9HtGHT$ HHT$(HPHT$0HPHT$8HPHT$@HP HT$HHP(HT$PHP0HT$XHP8H@HC`H$H$H$H$H$L9tH$tSH$HLHD$XH$H|$1HD$D$fH$Hl$ H$HtH$H$H9tH$H$H9nH$Hl$ HD$ D$(HH1[L{xHK8LH+C0HH)HIGHC`HtGHT$ HHT$(HPHT$0HPHT$8HPHT$@HP HT$HHP(HT$PHP0HT$XHP8HCxHPHSxH@HHChHC`HSp+H$HHD$ D$(H1;H 1ҾLL{xH$Hl$ HD$ D$(HH11ҾLL{xH$HHD$ D$(H1H$Hl$ HD$ D$(HH1HH$`H$pH9tH$IL9HH$H$H9uH$HHH$H$H9uH$ HH$PHH$HH$H$H9IIHHLLLRLPLRLPLRLPLR LP LR(LP(LR0LP0LR8LP8H@H9H@I9uLk0H{8LK@LCHHLMHEPH8MtLHl$(H\$ H9tH;HCH9tH H9uHl$ HtHH$dH3%(HĘ[]A\A]A^A_HFHH*HHHFLNL)II8ILIH{HH)HH9L$HH+T$LK LC(HHT$HH)HLMMHRfHt>H HHJHHHJHHHJHHHJ HH HJ(HH(HJ0HH0HJ8HH8H@L9t;H@I9uHsH{LK LC(OHt$HH)HC0HK@ICILHHHHIH)I8HHLH4$HHHHHt$HH)HCH{HH)HHEHH|$@H1HD$@D$HHHHHcHD$0HD$(E1HŸHtHHMtLLd$(Hl$ I9t H}HEH9tH I9uLd$ MtLHH몉HHøHtLzfDH gHt H`Dfsa/overlap_trim.cppo.b_.id == idcov.back() == 0best.first >= sw%d %d %d %d Fail to open coverage file %sfsa/utility.hppsz >= 1 && high >= lowFailed to load file: %sminmax:, %d, %d coverage_params_ %d, %d, %d m4m4.gzm4a.gzpaf.gzovl.gzOverlap size: %zdNo overlap was loadedm4apafovlSHH?HtH{HH9t [@[ATUHSLH_xI9tKfH{@HCPH9tH{ HC0H9tH;HCH9tHxI9uLexMtLLehH]`I9tF@H{@HCPH9tH{ HC0H9tH;HCH9tHxI9uLe`MtLH}@HEPH9tH} HE0H9tH}HH9t[]A\[]A\k % 2 == 1 && data.size() >= kbasic_string::_M_construct null not validsub_inputs.size() == thread_sizeFailed to convert line to overlap %sNo all overlaps in file are loaded: %sFailed to recognize overlap files type: 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H+GHHHH)H9rlH+LnIIHI9wFMt*@ID$(HڿHH,HHEI9sH[]A\A]L뫿HǽHtID$(HHHH<H9uHHAUATUSHHWHHG0H+G8HH+O(HHHLHG H+GHHHH)H9rhH+LnHGIIIMHH)H9v 1LMt'ID$HH,HHEI9sH[]A\A]ÿHǽHtID$HHHHHHHNHHHNHHHNHH HN HH(HN(HH0HN0HH8HN8H@H9 H@I9W H9uHD$L}MLu(I)HL$8IHEH$HE HL{HD$0H+CHHHD$LL)HHDIM<Lt$ Hl$(DLH)HLH)HHH9HNL9IO1HHH~hH<$fH<H<H|H|H|H|H|H|H| H| H|(H|(H|0H|0H|8H|8H@H9uH<$HHL)HHHv-HHH HIH)M$HMIHHH)HHHv-HHH HIH)I*HLHLI)MHD$HsL)H HD$@HHD$0H|$HL$HH)H?~^HfDH H@HHHJHHHJHHHJHHHJ HHHJ(HHHJ0HHHJ8HHH9 H@H9uHX[]A\A]A^A_@Hw@HL)HHI9OL<$J HLL$MHHt$LHL$ L)H)HHL$LHLH)L9H LSHsH{HM0Lm8H}@HEHHL)HL)HUHHH HL40H)HM.MItHMHHD$0HHt$(cfDHt>H2H0HrHpHrHpHrHpHr Hp Hr(Hp(Hr0Hp0Hr8Hp8H@L9H@H9H9uHD$ L}HLL]8Ht$(L<$HE0HD$HE@HHHD$HCHHD$(HCH)HD$ HL)HHHTHH)HH,H!HMHL)M)HIHIFHHMlIL$AHH9IHNL9LNLHI)1L)HIIIH~`H|H|H|H|H|H|H|H|H|H|H|H|H|H|H|H|H@I9uLL)HHHHHM)I=HIL)HHD$H+D$H?HT$HD$LD$ Ht$(H|$DH H@HHHJHHHJHHHJHHHJ HHHJ(HHHJ0HHHJ8HHH99H@H9usIIHIK L)HHHHHHHHM4H)HM>ILHD$H4$HHHHI< H)HLII UHHH-HM<H HHJHHHJHHHJHHHJ HH HJ(HH(HJ0HH0HJ8HH8H@L9;H@I9uH $IbDHt>HHHQHPHQHPHQHPHQ HP HQ(HP(HQ0HP0HQ8HP8H@H9H@I9I9uHD$ ML]8L}HHT$HE0HD$HE@HsH{HhH H@HHHJHHHJHHHJHHHJ HHHJ(HHHJ0HHHJ8HHH9H@L9u HD$M)LM IH](HUMJ4L$HD$a@Ht>L"L LbL`LbL`LbL`Lb L` Lb(L`(Lb0L`0Lb8L`8H@L9 H@I9H9uHT$[Ht>H:H8HzHxHzHxHzHxHz Hx Hz(Hx(Hz0Hx0Hz8Hx8H@L9rH@H9uHD$HT$L}Lu(HEH$HE HH)H?Lt$ @HH@HAHFHAHFHAHFHAHF HAHF(HAHF0HAHF8HAL9H@H9uLHT$ LD$H)LM0L}8LeHHu@LD$HT$ LL<$L)HsLL$H)HHMHEHu LU(L$HHD$(H)Ht$ HwLIIHH9IHIL)ILHMHII)M<$IO DHHH~DHIH)M.HIt_fMLDHHpDHHHH뭐LHHHnfDHHHHfDHHHHBH|$0Ht$(HHH|$0HLL$HHL$8I1ILL$HLIJILICILzIILHSHLHGHHCIGIH?I@IHHL$0HAHHL$0HIRIL]I$ILNHOHH-ID$ILHHH~zHIH)IHHH%HHHHIIIIHHHHkHHHHHHHH HHHHtHHHHEHHint fsa::OverlapTrim::FirstTrough(const std::vector&, size_t, size_t) conststd::pair fsa::OverlapTrim::CalcMinMaxCoverage(int, const std::unordered_map&)decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) fsa::MultiThreadRun(size_t, const I&, S, W, C) [with I = std::unordered_map >; S = std::vector, std::allocator > > (*)(long unsigned int, const std::unordered_map >&); W = fsa::OverlapTrim::FilterCoverageMt()::&)>; C = std::unordered_map > (*)(const std::vector >, std::allocator > > >&); decltype (combine_func(std::vector(1, work_func(split_func(thread_size, inputs)[0])))) = std::unordered_map >; decltype (work_func(split_func(thread_size, inputs)[0])) = std::unordered_map >; size_t = long unsigned int]std::vector > fsa::SplitRange(size_t, T, T) [with T = int; size_t = long unsigned int]void fsa::MultiThreadRun(size_t, S, W) [with S = fsa::OverlapTrim::GroupAndFilterDuplicate()::; W = fsa::OverlapTrim::GroupAndFilterDuplicate()::)>; size_t = long unsigned 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