H8__PAGEZERO__TEXT__text__TEXT"{__cstring__TEXT__DATA__data__DATAP__dyld__DATAPP__bss__DATAl__IMPORT__pointers__IMPORT__jump_table__IMPORT@@8__LINKEDIT0- 8 P, ! /usr/lib/dyldnkJPQP" 4/usr/lib/libgcc_s.1.dylib 4o/usr/lib/libSystem.B.dylibj]\$ML$ˉ\$u\$ ND$|X7wXgUS[ED$D$$8[US[E$D$ D$XD$,$D$ D$^D$$D$ D$9D$$D$ D$`D$$$~D$ D$3D$$R[UWS[EEE}HEE ||HEE@D$$EE@D$$EEEEEGE@D$$l‹EEE@D$$K‹EEEE@;EE+EUEEEEEEE;E|E0EMEEEE‹EEE;E|EEEEEEEEHEE H8uEE}}EEEċEEEEEȋEEEEE̋E;E~=E;E~5EEE‹ẺEEE‹EE;E~=E;E|5EEE‹EȉEEE‹EE;E|:E;E|2EEE‹EĉEEE‹E]D$ D$D$$?ẺD$EȉD$ EĉD$ѤD$$EE@;E9EE@;EEEEEEEԃ)čD$ EEE}}UJEEԃ)čD$ EEE}}UJEEԃE؋EԃE܋EEEEEEEEEE;Eu^M؋EEHEEEM܋EE HEEEEEEE 8EEEE;Eu3U؋E-EM܋EE HEEEELEEE;Eu1M؋EEHEEEU܋E-EE}~?}3M؋EEHEEEU܋E-EE}1U؋E-EM܋EE HEEEE}ɋUEE؍xxHEE@D$$ EUEE܍ttHEE@D$$EUE؍D$E$(EEUE܍D$E$EE$EUEUEBUEBUEB UEBUEЉBE+EE$XEE$EEE@;E̋E$,E$!Eee[_U}t9Et E$E@tE@$E$US[TED$hD$$[US[ED$2$$$|b$n$`ʞ$R $Dj$6$([US$[G<#D$ $E}u.D$ D$=D$O$viEE@$0E}-ED$ D$D$$ED$D$$UID$D$$$[US[زtز$fܲ[UWS@[EEԸ}HEE@$tEED$E$EEEEErEEU􍃚8tSU􍃚EEED$$FE}xED$ED$E $MLEE}~EEEEEE;E]E$E@[_U(EEE EE0EE8tEE;E~ EBEEEt EuEu Et EEEUWVS[qD$ D$ D$Ŝ$EgfffE)ȉEEEEEEUЉEEE;E|ED$$EEEEEE;E|EEEE}ЍPE)@EEEE‹ED$$BEċEEȋuTD$$‹EEȉEEEȋEE9E|ڋEEȋEEE;ELE9ED$$耾E̍D$$eEЍD$$JEԍD$$/E؍D$$EEEEdEEEE9E|EE}ЍPE)@EEEE‹ED$$@EċEEȋtXEBEt(EEEEȋEEËE9E|EE;E\E#EEEEE9E|EEHE EEЋEEЋ9 E}yڃ}xoE7EEЃEEЉEEԃEEԉEE;E|EEЋEEЉEUԋEE9E(EEEEEEEԋEED$D$ D$L$$ EEPEE؋9~1EPEE؉EEE܉E$E9E5EE؋9|EE܋tEEEE؋EU}}M9ЅuWU}}M9EMq0L$T$ ED$D$4$%E9EEEUljE0T$ L$D$4$踹ED$ ED$9D$$萹ED$iD$$oD$ D$BD$$YEEE؋9EE܋EE܋T$$=EEE؋0ExEEE@EEt$|$ED$}|$ T$НD$ $NE9EE'EEȋtEEȋ$EE;E|ыEȉ$EЉ$Eԉ$E؉$E܉$طĜ[^_UWVS[}E D$$uRE ,(Dž$,($t FO)ȅE $$ Ea  1D[D$$}çç[0E Ot$ T$ÔD$ $5$[D$$ǧǧuK[0E Ot$ T$D$ $ĵ$詵˧D$E D$E$觵E}h[$LccE OT$'D$ $/$[$ggKE OT$WD$ $Ҵ$跴[$薴kkE OT$D$ $u$Z[D$$H[OT$D$ $ $E OED$ T$ەD$ $ѳ$足W;E_OD$ D$D$4$舳ϧ$w9קOD$ D$D$P$8#7ۧקD$$ߧקD$$DzקD$$襲קD$$胲קD$$aקD$$?קD$$קD$$E#EHW9WE D$$躱WE 0E Ot$ T$D$ $j$OE $$68EߧEߧ@ EߧEӧL$$NEEߧ$(pEEӧHEEEEEEӧۧED$T$ $96Eק9Eϧ$\4OD$ D$D$l$蝯˧OD$ D$D$$aEEEEEӧEE~EߧEۧT$$3EEEE;E~EEEӧEEEߧ@;EaۧED$$C3EEߧ@oEEEߧE@EEEߧE@EEEߧ@;E8EEELEߧEEۧED$$1EEEEߧEEEӧD$E$軬ttۧED$$Z1EEߧED$$8EӧEߧL$$z8EEߧ@;EEEߧ@;EEק9EPOD$$ wEEEߧ@EEEӧEEEߧEۧT$$/EEEE;E~3EuEEEӧEEEߧ@;ELۧED$$0/EEEEEWEߧEEۧED$$.EEEEߧ@;EEק9EEzE\ECEEpEߧEۧT$$-EEtEӧPEEEߧ@;EoEEnEߧEۧT$$5-EEEӧHEӧ@ЍM9uEMEEMEEӧEߧL$$3/EEߧEEBEEߧ@;EqEק9EuOD$ D$D$$覦קD$$fEv*EקD$$CEEEEEEӧHEEӧED$T$E$,ErEӧEEEU˝ EӧEEӧE:EEӧD$E$*E}xhEEȋu$+‹EEȉEEȋ@ EӧEEȋED$L$$@/+EӧED$T$E$*E}EӧEELjEE;EEק9EEEEEӧHEEEEEק9E|EEӧEEEU˝ EӧEEӧE:E<EӧD$E$'E} EEuEӧPEEEEEȋEEӧEEȋEL$$裢uOEEȋE@EEEuEӧPEEEEEEȋ@;EVEE}dEӧEELjEE;EEE};EEEEӧHEӧ@ЍE9uEMEEMEE‹@EӧEߧED$L$$*Eק9EEק9E E'EEȋtEEȋ$C'Eק9E|̋Eȉ$E$s$קD$$蠟EEJEM̋EӧEM̋EAEק9E|קSD$ D$T$Ẻ$[2D$ D$\D$ǖ$EEE̋ۧT$$#EEQE0E8Eӧ@0E4E8EBEU؋EEEUu9ЅucUu9קO0L$T$ ED$ٗD$4$茓Eק9EDçD$ D$D$$`EEgEEЋTEE؋0EEԋ8EEЋlEӧpEӧ@tEи)щʍçt$|$lt$p|$tD$ T$|D$ $SEbEE܋EçT$D$ $EEЋH;EtçD$$,EEEЋ;EçD$$ őEק9EjDžhh[^_ÐUS[$ED$hrD$$^[US[ED$r$^r$ZJs$Ls$>s$0s$"t$Ft$t$[UWVSL[$$0T$ L$>tD$4$o $T$LtD$ $I|xt08$EЉT$L$t$ |$\tD$EЉ$$ED$tD$$؏$E D$tD$$跏$ED$tD$$薏$D$ D$ D$t$耏E>EEpEE$t$ T$tD$ $*EE;E |h$$0T$ L$>tD$4$َ $T$LtD$ $賎|xt08$EԉT$L$t$ |$\tD$Eԉ$c$ED$tD$$B$E D$tD$$!$ED$tD$$$D$ D$ D$t$E>EEpEE$t$ T$tD$ $蔍EE;E |L[^_UWS0[EE}ЍPE E}H9t8D$ D$,D$q$$EJE Ѝ8})ȉE<}9E} ENEE<.uENEE EE}uE0[_UWSP[EEEEHE܋EH< u EHƄ}|ЉEԋEԹЍP|)E|~|EEԉD$$EԹHƄ}|ЉE؋EعЍP|)E|~|EE؉D$$dEUE|t}uD$EЉ$(EUB )ȉE䍃|D$D$$g EЉ${EEЉ$JEED$ ED$ED$E$mEЉ$P[_UWS`[EEEEHE؋EH< u EHƄEED$ EЉ$ȉ@EЍEE;E|D$ EЉ$褉@ED$ EЉ$草D$ Eԉ$wZzEEйЍP^z)EZzEEԹЍP^z)Ebz~zbz‹EйH9sbzEbz‹EԹH9sbzEEԉD$EЉ$E܋U܍Enzt}uEЉD$Ẻ$M EvzD$D$$襇Ẻ$ EẺ$[GEED$ ED$ED$E$Ẻ$ `[_UWVSl[}aE ZdEԉUEuԋ}ЋMt FO)ȅt"E qD$$KE $z$跆EcEȃ}Uf0AAAAAAA@AAAAAD$:$胆E}uE $$E$wE@$ʅw lD$E D$E$مE}$~w벍w뤍w떍kD$$Sww`T$kD$ $$IEă}3UvAjw w(w!@zw w(w@뿍w w(w@뙍w w(w@pw w)w!GЍT$kD$ $腃$j@$HwwnwT$kD$ $$$ w)E $l$߂;Eu'wwEH9uqE eD$$}wwuE T$lD$ $:hE $$ wt1E T$6lD$ $$Ёwzwjw9u8D$ D$%D$bl$葁$bE D$.$詁u>E T$lD$ $$E D$.$ElEUEu}Mt FO)ȅtVE D$.$lEUEu}Mt FO)ȅu!wwE D$.$xlEUEu}Mt FO)ȅuw뇍E T$lD$ $$Kwtn8D$ D$/D$l$l$=l[^_US[~ED$eD$$[UWVSl[}E $$~EHEE EE dEЉUEuЋ}̋Mt FO)ȅuED$E$'EE eEĉUEuċ}Mt FO)ȅuED$E$iEE  eEUEu}Mt FO)ȅuED$E$$ElE eEUE u}Mt FO)ȅuED$E$IEE $-$Q}Eԃl[^_UWV0EEEƉEU׋EU+EUEUu}}ЉEԋEЋUԉЉEUE1U1+EUƁ׃E1U1+EUEUEE}ESE0^_US[EEEE$EUb8uEE E}~֋EEEEEEtE;E EuE[US$[$|ED$${‹EEu,{D$ D$ D$b${EQEEE}~ۋE$[U(E1EEtEE$mE}~ƋE${E${U8E $EEEE D$$E}y E#EEE@EEU(E $#EEEE D$$AU(E $EEEE D$$U(E $EEEED$E D$$UEEEEPEE}~ڋEU(E $g_EEԸ}ЍPE)@EEg_EEEEg_EEEg_EE_T$$xEg_EE_ED$T$ $g_EEEEEE;EE_9E}t#nED$WD$$^m@[_US[}u8lD$ D$ND$YV$,m$l[USD@[EE̋E@ ̿<#]D$̿D$Ẻ$D$ ̿$lEЃ}u.lD$ D$LD$UV$tliEED$ ̿$lEԃ}tE]u]T$̿D$ $]P]]D$D$?̿$k]D$$k}]]D$$}k]]D$$[k]]D$$9k]]D$$k]]D$$jy]EHE̋EEE̋E@ED$ E$kEE$PEED$:E$jEЋEЉ$$EED$ EЉ$jEE$EED$ E$|jEE$EED$ E$PjEE$EED$ E$$jEE$tEED$ E$iEԃ}tED$ E$iEԃ}tEE$SiE}]EЉ$1iE]E$iE]E$hE]E$hE]E$hEy]E]9Eu]P]9t?lD$ D$@D$V$khu]P]Ẻ$D@[UWVS[gD$ D$D$R$hX~(XgT$+RD$ $ggD$ D$D$ER$gXDždgfffd)ȉEEEEEUЉEEE;E|ED$$gEEEEEE;E|E XEЍPE)@EEXEE‹ED$$EEEuTXD$$/f‹EEEEEEEX9E|ڋEEEEE;EJEX9EXD$$eEčXD$$eEȍXD$$jeEEEX~6XD$$5eEЍXD$$eEEEU}dd9ЅucU}dd9ddXg0L$T$ ED$6DD$4$dEXXE@XX9‹EEȉEEXxEEEEX9E|ߍXE||ЍPE)@EEXEE‹ED$$EEEtcEMEEEt0EEċEEEEEĉEX9E|EE;EOE#EEEEEX9E|EXHEEEċEEЋ9 E}yۃ}xnE7EEЃEEЉEEԃEEԉEE;E|EEċEEЉEUԋEEX9ECE)EEԋXEXEEԋD$D$ D$L$$.EEPEE̋9EPEE̋9~6EEȋ$q‹EEȉEPEẺEEԋXEEԋEEȋL$T$$E$誛EX9EEXEXED$D$ D$L$$EEPEE̋9EPEE̋9~6EEȋ$A‹EEȉEPEẺXEEEȋED$L$$|E$芚EX9EEEE̋EEX9E6}~(U؍}dd9dd}EEXXE@XX9]EEȋ@WXEEX$|^EEȋ@@D$$:^EXE@EEȋEHEXEEEEȋ@;EEXEEȋ@ZEEȋ@5WXEEEȋHEXEEȋ@ƅEE)EEȋE@E䍃XEXED$D$ D$L$$zEEEȋ@H;E~LR ?EPEH EpExE@dD$T$L$t$|$ dL$ORD$$b\D$$O\E$EEEȋ@;ExxHEE$[E܍D$E܉$[EEXEX0EXD$D$ D$L$$EEPEH EpExE@T$L$t$|$ D$`RD$$[ttHEE$ZE܍D$E܉$ZEEE$pEX‹E܉EX9E4Eĉ$LZE'EEȋtEEȋ$aEX9E|̋Eȉ$ZẺ$YX~EЉ$YEԉ$Yļ[^_UWVS[}E $$}Y}&E CD$$YuRE 6xtDžpxtpt FO)ȅE $$XEllnlnHlctWZY0E NYt$ T$xHD$ $X$Xlotyls멍ZY$JXbJDD$E D$E$YXE}:ZY$W^J벍ZY>D$$WrJrJuZYNYT$ZHD$ $W$WfJJ8E2J|E:JEE6JEE2JEE.JE*JErJEL$(t$$|$ |D$ML$ut$}|$ED$ T$aED$U$LVJEЍvJ9u/rJD$ D$D$BH$WLVJEЍzI9u/rJD$ D$D$~E$L`VJEЍI9u/rJD$ D$D$E$KVJEЍI9u/rJD$ D$D$E$jKVJEЍ~I9u,rJD$ D$D$E$KvVJEЍI9u,rJD$ D$D$E$J*rJD$ D$D$E$JVJEЍI9ERJk"JERJ@E"JERJ0E&JrJt$ T$ED$ $IrJD$ D$ D$E$IErJ"J0ERJE@&JL$$/IERJExrJD$$;HEERJE9rJD$$ HErJ"J0ERJEL$$WHERJExrJD$$;HEERJELVJEЍ~I9t VJEЍI9u3EZJrJT$"ID$ $nGrJD$$ [GENJ9EqED$ED$E܉D$E؉D$ EԉD$EЉD$D$0GE$,GE4*JE@EEBJE6J0E>J8E2JEE:JEE6JEE2JEE.JE*JEL$$t$ |$ML$ut$}|$UT$ ML$D$aE$EVJEЍvJ9uBH$EVJEЍzI9u~E$EVJEЍI9uE$XEVJEЍI9uE$%EnVJEЍ~I9uE$D>VJEЍI9uE$DE$DVJEЍI9ERJ"JERJ@E"JERJE&JL$D$E$CE$CE"JERJE@&JD$F$uCERJEx $;GCEERJEG$ CE~"JERJED$F$BERJEx $;BEERJEZVJEЍ~I9t VJEЍI9u'EZJD$"I$A$ AENJ9E[^_U(EEE EEPE@9~ E EPE@9} EEEU(EEE EEPE@9~ E$EPE@9} EEEUS[E@ED$ D$L$$@E@ [U(EEE EEET$$@US[E@ED$ D$L$$z@E@ [UWS@[E$7EED$$?EEE#EEEEEԸ}H@$?EEEED$E$?EEEEи}HEEUEEMEEE@AEEEE@;EE}UD$ D$T$E$>E@[_US[&>ED$*D$$`>[US[ED$*$`>+$\>P+$N>+$@><.D$+$>[UWS@[E<#D$ $=E}u.=D$ D$?D$+$=cEED$ E$=E}tE..T$ED$ $ .P.-D$D$$<.D$$<..D$$<.-$<Ec<#TD$ $<E}u1=D$ D$?D$+$E<EED$ E$Y<E}tEHEE$;E썅D$E$<EEE.‹EEHEE$;EED$E$;EEE.‹EE-D$D$$:s.$ .9tF=D$ D$DD$h&$:.$.@[_US[Eu8&:D$ D$D$($b:$3:EEPE[UWVS [D$ E$M:Ẽ}tED$ E$+:EȍEȉ$BED$ $ :EčEĉ$!ED$ $9EčEĉ$ED$ $9EE$ED$ $9EE$ED$ $9EE$ED$ $e9EE$|ED$ $D9EE$[E(Džt FO)ȅED$ $8EE$ED$ $8EE$EEE(Džt FO)ȅuDED$ $E8EE$\ED$:$$8Ẽ}tE@EE(Džt FO)ȅU*T$$oE؃}E(|Džx|xt FO)ȅu=E*0Eȉ$6 E*:E(tpDžltplt FO)ȅu=E*0Eȉ$K6 E*E(hdDž`hd`t FO)ȅgE+0Eȉ$5 E+*EED$;$5Ẽ}t EEED$;$5EЃ}t EEED$:$5EԋEE$&5E܋E:U*T$$.E؃}a*9EPE+0Eȉ$4 E+E+txE+D$$4\\Hf;E+$N4ƅED$$g4XXHEE@$4ED$E$+4EEE+‹EẺEEЉEEt EĬ [^_UWVS|@[}E $$M3}E D$$3uRE Džt FO)ȅE ${$2E؉ctLo*30E 3t$ T$H"D$ $w2$\2*3$;2j#d"D$E D$E$J2E؃}[h*3D$$2f#f#u*33T$*"D$ $1$1EH&39}E $ $1EH&39uU.3b#&3E D$$B1^#b#E&39ud&3E D$$0b#&3E D$$0^#sE $$03D$ D$D$m"$0$P0^#3D$ D$D$$70UJ&39t&3&3E 3T$"D$ $/$/3D$ D$D$"$/肳J$V$D$$C/Z$V$D$$!/^$V$D$$.b$V$D$$.f$V$D$$.j$V$D$$.n$EEZ$E^$Eb$Ef$Ej$En$EV$9ET3D$ D$D$"$-Eؿ<#tؿ$yb#D$D$?ؿ$t-uDEE@ EE^$Eb$Ef$Ej$EZ$EN$E܉D$T$E$褶EV$9EPE$&f#f#D$ D$&D$"${,ExEE@E܋Ej$0Ef$8Eb$E^$EZ$ĿER$ȿEN$f#t$ |$t$|$ĿD$ȿt$ T$"D$ $L+En$t3En$f#T$"D$ $+f#D$$ *EV$9Ew"$*EHEE@E܋Ej$Ef$0Eb$8E^$̿EZ$пER$ԿEN$L$t$|$̿|$пT$ ԿL$D$"$)En$t'En$D$"$)$ )EV$9E|@[^_%s: [-g gap_score] [-a match_score] [-i mismatch_score] [-n] sequence_1 sequence2 -g, gap_score n aligns with a gap score of n (should be negative to act as a penalty) -a, match_score n aligns with a match score of n (should be positive to encourage matching) -i, mismatch_score n aligns with a mismatch score of n -n, no header does not print initial line with counts of mismatches, insertions, and deletes Default scores are gap: -1, match: 5, mismatch: -1 didn't find max: %d %d %d usage: %s [-s stats_file] [-a align_file] [-f] [-c cutoff] [-n k] [-m min] [-o output_file] [input_file] input_file gives a list of sequences with respective counts to be clustered; if no input_file specified, reads from stdin -s FILE calculates additional statistics and outputs them to FILE -a FILE stores alignment results in FILE -f forces entries to be clustered to, at most, one core -c N only performs alignments if align score is at least N -n N aligns the top N candidates during the aligning phase; defaults to 0 to skip aligning -m N a minimum of N counts will be required for a sequence to become a core -o FILE additionally outputs results to FILEWarning: an entry is not in expected format (sequence count) Warning: an entry has a non-positive count associated with it: %s %d Aligning remaining sequences... %d of %d entries [%d%%] #Alignment score cutoff: %d Aligned top %d candidates #Aligned sequences: %d Unaligned sequences: %d #Average best-alignment score: %d #Core sequence Core count Aligning sequence Align seq count Score %s %d %s %d %d ?%s: Could not open statistics file %s for writing %s: Could not open align file %s for writing %s: Only positive align score cutoffs allowed %s: Only positive n allowed for aligning top n candidates %s: Only positive count mins allowed Could not open %s for writing %s: Unrecognized command line option (%c) s:fc:n:a:m:o:r%s: Could not access file %s Building data from file... Finding mismatch counts... Forming initial clusters... (forced single clustering) Forming secondary clusters... #core sequence score total count core count mm1 count mm2 count [sequence:count:mmcount]... %s %d:%d %d %d %d %d %s:%d:%d%s %d:%d %d %d %d %d #core sequence score total count core count mm1 count mm2 count [sequence:count:mmcount]...Generating cluster statistics... %d of %d performed [%d%%] #Degeneracy Sequence Count Sequence Proximal Clusters Largest Proximal Cluster Smallest Proximal Cluster All proximal cluster sizes %d %d %s %d %d %d %dusage: %s [-i 5':3'] [-u n] [-f|q] [-o output_file] [-m S|X|I|J|L] [-c] [input_file] usage: %s [-i 5':3'] [-u n] [-f|q] [-o output_file] [-m S|X|I|J] [-c] [input_file] input_file specifies the file with entries either in qseq or fastq format; if none provided, reads stdin -i X:Y trim X bases on 5' end and Y bases on 3' end -u N truncate sequence to N bases -f force input file to be parsed as a fastq file -q force input file to be parsed as a qsec file -o FILE additionally prints results to FILE -m S|X|I|J filters by Sanger, Solexa, Illumina 1.3+, Illumina 1.5+ (respectively) -c only unfiltered results will be reported in output#trim: %d:%d #truncate: %d #quality lo: %d hi: %d adj: %d cutoff: %d #total reads: %d #unique reads: %d #filtered bases: %d #read count %s %d Sequence length and quality length mismatch wCould not access %s for writing Unrecognized quality filter method (%c) Invalid quality cutoff: %d i:u:fqo:m:cCould not read from file %s %s: Both fastq and qsec flags indicated Reading from stdin requires -f or -q Cannot determine file format of %s .fastq.fq.txtExpected .fastq/.fq or .txt file (%s) Could not determine input type (fastq or qseq) usage: %s count|cluster|map|tabulate [OPTIONS]... countclustermaptabulateACGTNCould not allocate enough space Ran out of memory Usage: %s [-c min_count_cutoff] [-n align_top_n] [-o output_file] [-s] [cluster_file] barcode_file Generates a list of best-matching barcodes for each cluster sequencecluster_file specifies clusters to match to barcodes, if unspecified, will read stdinbarcode_file specifies barcodes available for matching -c CUTOFF clusters require a count of CUTOFF or more to be aligned -n N clusters try only to align to the top N candidate barcodes -s skips aligning clustersWarning: an entry is not in expected format (details sequence) %s Warning: there are non-unique barcode_sequences in the barcode file Warning: barcode sequence file has %dmer word overlaps Error: a cluster entry is not in the valid format: seq mm1n:mm2n mm0 mm1 mm2 Warning: an entry is not in expected format (sequence (cluster details)...) Warning: there are non-unique cluster cores in the cluster file Aligning remaining sequences (top %d candidates only)... ;%d:%s:%d:%d:%d%s%d:%s:%d:%d:%dhelpc:n:o:sNo cluster input file Could not open barcode file Building data from files... Performing mismatch matches... Skipping (clusters longer than barcodes) Skipping alignments #contains: %d # mm0s: %d # mm1s: %d # mm2s: %d #aligns: %d #misses: %d #core seq count score mm0 mm1n mm1 mm2n mm2 match id seq [score:alignment:mis:ins:del]... %s %d %d:%d %d %d %d %d %d mm0 mm1 mm2 align N/A %s %sMULTIPLE:#core seq count score mm0 mm1n mm1 mm2n mm2 match id seq [score:alignment:mis:ins:del]...%sUsage: %s [-c align_cutoff] [-o output_file] [map_file] barcode_file Usage: %s [map_file] barcode_file Matches the mapped clusters to the barcodes of interestmap_file specifies the mapped clusters; if unspecified, will read from stdinbarcode_file specifies the barcodes of interest -c N Align score needs to be at least N to match a barcode, default is %d Warning: an entry is not in expected format (sequence details) Error: a map entry is not in the valid format: seq total score mm0 mm1n mm1 mm2n mm2 match type barcode id barcode seq aligns nonealignmm0mm1mm2Could not open %s for writing%s: Unknown parameter (%s) c:n:o:No map file supplied %s Building barcodes... Assigning entries... #bcid barcode total mm0 mm1 mm2 align %s %s %d %d %d %d %d %s#bcid barcode total mm0 mm1 mm2 alignP(@ F Ů d d f44!P." $"$6N6.,#" $,#$N.&$6 $&$$3N3.Y+= $Y+$GNGd dP dZ f44!P.+ $+$6N6.+ $+$N.n, $n,$.N..- $-$9N9.- $-$!N!.. $.$N.~/ $~/$" N" .8 $8$/&N/& && &3 &J &lP &pW &t` &xi &|v &y & & & & & & & & & & &d d d f44!P.^+ $^$6N6._@ $_$N._T $_$ANA.bc $b$N.cs $c$yNy.Ff $Ff$N.i $i$N & &$ &( & & & & & & & & &d d d' f44!P.qe $q$6N6.Uqz $Uq$Nd d d f44!P. s $ s$N.s $s$N.bt $bt$N.u $u$cNc.hu $hu$mNm.u$u$5N5. v$ v$5N5.?v&$?v$<N<.{v6${v$ANA.vD$v$<N<.vW$v$5N5d djdqf44!P.-w$-w$N.w$w$N.Bx$Bx$*N*.lx$lx$N.Iy$Iy$VNV.y$y$gNg.z $z$:N:.@z$@z$TNT.z)$z$hNh.z?$z$N.|R$|$Nd dedkf44!P.}$}$6N6.}$}$N.z~$z~$N.`$`$N.$$QNQ.X $X$N..$.$sNs.<$$$N$F&,U&0b&4w&8&<&&&&&&&&&)&0&G&U&\&h& y&&&&& &$&(d ddf44!P.Ů$Ů$PNP.)$$XNX.mD$m$HNH.X$$.N..w$$HNH.+$+$Nd ddf44!P.α$α$6N6.$$lNl.p$p$^N^.ε'$ε$iNi.7E$7$N.ѼW$Ѽ$> N> f q x &L&,&0&4&8&<&@&D&H&L$&Pd"".+C+Wn,d-u-~.~/^__bcFfqBx'z=}R}fz~`X.αpε/7ASgt $(,048<L lpt#x,|9<ER^eq}&9IWex  + 6$=(I,W0h4{8<@DHLP  &$&Y+98GiSŮen@yDHbtv vu{vuhuv?v ss.+C^}-wzzwlxIyy|@z m1Uq7A,#U"jѼy"   " * 2 ; A H P Y a i q y    @   @ dyld_stub_binding_helper__dyld_func_lookup_print_usage_message_print_help_message_build_table_extract_entries_overlap_in_n_degen_align_general_print_usage_message_print_help_message_print_results_quality_filter_process_fastq_process_qsec_print_usage_message_bsearch_comparator_list_insert_location_print_usage_message_print_help_message_build_barcode_sequences_build_words_cluster_format_check_build_clusters_align_against_barcode_sequences_print_usage_message_print_help_message_build_barcode_links_map_format_check_and_process_process_map_linedyld__mach_header_align_score_cutoff_align_top_n_min_unclustered_count_quality_hi_quality_adj_quality_cutoff_MATCH_CONTAIN_MATCH_ALIGN_MATCH_ALIGNMULTIPLE_MATCH_MM1_MATCH_MM2_min_align_cutoff_f_in_f_out_f_stats_f_align_single_flag_h_entries_num_entries_index_link_lists_mm1_counts_mm2_counts_totals_mm1_totals_mm2_totals_used_core_trim_start_trim_end_trunc_fastq_flag_qsec_flag_clean_flag_quality_lo_f_in_f_out_barcode_sequences_barcode_details_cluster_sequences_cluster_totals_cluster_mm1n_cluster_mm2n_cluster_total_mm0_cluster_total_mm1_cluster_total_mm2_words_num_barcode_sequences_num_clusters_match_match_type_match_alignment_align_top_n_align_count_minimum_skip_alignment_f_cluster_f_barcode_f_out_MATCH_NONE_barcode_link_barcode_details_barcode_sequences_num_barcode_sequences_barcode_totals_barcode_mm0s_barcode_mm1s_barcode_mm2s_barcode_aligns_barcode_align_seq_NXArgc_NXArgv___progname__mh_execute_header_align_alignment_destroy_cluster_main_count_main_entry_comparator_environ_f_barcode_f_map_f_out_hash_create_hash_create_entry_hash_decrement_hash_destroy_hash_entries_hash_increment_hash_lookup_hash_remove_entry_hash_set_value_hash_slot_hash_slot_nmer_hash_sorted_entries_indirect_entry_comparator_indirect_entry_key_comparator_list_create_list_create_entry_list_decrement_list_destroy_list_find_list_increment_list_increment_n_list_remove_entry_list_set_value_list_sort_by_key_list_sort_by_value_main_map_main_print_help_message_print_usage_message_tabulate_mainstart___stderrp___stdinp___stdoutp_atoi_bsearch_calloc_exit_fgets_fopen_fprintf_fputc_fputs$UNIX2003_free_fwrite$UNIX2003_getopt$UNIX2003_malloc_optarg_optind_printf_putchar_puts_qsort_rewind_sprintf_strcat_strchr_strcmp_strcpy_strrchr_strstr/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/alignment.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/alignment.o_print_usage_message_print_help_message_align_alignment_destroycluster.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/cluster.o_print_usage_message_print_help_message_build_table_extract_entries_overlap_in_n_degen_align_general_cluster_main_align_score_cutoff_align_top_n_min_unclustered_count_f_in_f_out_f_stats_f_align_single_flag_h_entries_num_entries_index_link_lists_mm1_counts_mm2_counts_totals_mm1_totals_mm2_totals_used_corecount.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/count.o_print_usage_message_print_help_message_print_results_quality_filter_process_fastq_process_qsec_count_main_quality_hi_quality_adj_quality_cutoff_trim_start_trim_end_trunc_fastq_flag_qsec_flag_clean_flag_quality_lo_f_in_f_outbarseq.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/barseq.o_print_usage_message_mainhash.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/hash.o_hash_slot_hash_slot_nmer_hash_create_hash_destroy_hash_lookup_hash_increment_hash_decrement_hash_set_value_hash_entries_hash_create_entry_hash_remove_entrylist.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/list.o_list_create_list_destroy_bsearch_comparator_list_find_list_increment_list_increment_n_list_decrement_list_set_value_list_insert_location_list_create_entry_list_remove_entrymap.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/map.o_print_usage_message_print_help_message_build_barcode_sequences_build_words_cluster_format_check_build_clusters_align_against_barcode_sequences_map_main_MATCH_CONTAIN_MATCH_ALIGN_MATCH_ALIGNMULTIPLE_MATCH_MM1_MATCH_MM2_barcode_sequences_barcode_details_cluster_sequences_cluster_totals_cluster_mm1n_cluster_mm2n_cluster_total_mm0_cluster_total_mm1_cluster_total_mm2_words_num_barcode_sequences_num_clusters_match_match_type_match_alignment_align_top_n_align_count_minimum_skip_alignment_f_cluster_f_barcode_f_out_MATCH_NONEsort.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/sort.o_entry_comparator_indirect_entry_comparator_list_sort_by_value_indirect_entry_key_comparator_list_sort_by_key_hash_sorted_entriestabulate.c/Volumes/HipX1RAID/HipFolders/Users/aganeshen/barseq/tabulate.o_print_usage_message_print_help_message_build_barcode_links_map_format_check_and_process_process_map_line_tabulate_main_f_barcode_f_map_f_out_min_align_cutoff_barcode_link_barcode_details_barcode_sequences_num_barcode_sequences_barcode_totals_barcode_mm0s_barcode_mm1s_barcode_mm2s_barcode_aligns_barcode_align_seq