@@ -1,7 +1,7 @@

 Package: ggtree

 Type: Package

 Title: a phylogenetic tree viewer for different types of tree annotations

-Version: 0.99.12

+Version: 0.99.13

 Author: Guangchuang Yu

 Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>

 Description: ggtree extends the ggplot2 plotting system which implemented the

@@ -1,3 +1,7 @@

+CHANGES IN VERSION 0.99.13

+------------------------

+ o two dimensional tree <2015-02-06, Fri>

+ 

 CHANGES IN VERSION 0.99.12

 ------------------------

  o update vignette <2015-02-04, Wed>

@@ -201,7 +201,14 @@ setMethod("get.placements", signature(object = "jplace"),

                   colnames(place.df) <- object@fields

               }

-              return(as.data.frame(place.df))

+              res <- as.data.frame(place.df)

+              ## res[] <- lapply(res, as.character)

+              ## for (i in 1:ncol(res)) {

+              ##     if (all(grepl("^[0-9\\.e]+$", res[,i]))) {

+              ##         res[,i] <- as.numeric(res[,i])

+              ##     }

+              ## }

+              return(res)

           })

@@ -330,7 +330,9 @@ fortify.jplace <- function(model, data,

                            ladderize=TRUE, right=FALSE, ...) {

     df <- get.treeinfo(model, layout, ladderize, right, ...)

     place <- get.placements(model, by="best")

+

     df <- df %add2% place

+

     scaleY(model@phylo, df, yscale, ...)

 }

@@ -192,8 +192,10 @@ is.character_beast <- function(stats3, cn) {

         if ( is.na(stats3[i,cn]) ) {

             next

         } else {

-            res <- grepl("[a-df-zA-DF-Z]+", unlist(stats3[i, cn]))

-            return(all(res == TRUE))

+            ## res <- grepl("[a-df-zA-DF-Z]+", unlist(stats3[i, cn]))

+            ## return(all(res == TRUE))

+            res <- grepl("^[0-9eE\\.]+$", unlist(stats3[i, cn]))

+            return(all(res == FALSE))

         }

     }

     return(FALSE)

@@ -215,6 +217,44 @@ is.tree <- function(x) {

     return(FALSE)

 }

+

+

+color_scale <- function(c1="grey", c2="red") {

+    pal <- colorRampPalette(c(c1, c2))

+    colors <- pal(100)

+    return(colors)

+}

+

+getIdx <- function(v, MIN, MAX) {

+    if (is.na(v)) {

+        return(NA)

+    }

+    if ( MIN == MAX ) {

+        return(100)

+    }

+    intervals <- seq(MIN, MAX, length.out=100)

+    max(which(intervals <= v))

+}

+

+

+get_color_attribute <- function(p) {

+    p$data[, "color"]

+}

+

+is.tree_attribute <- function(df, var) {

+    if(length(var) == 1 &&

+       !is.null(var)    &&

+       var %in% colnames(df)) {

+        return(TRUE)

+    } 

+    return(FALSE)

+}

+

+is.tree_attribute_ <- function(p, var) {

+    is.tree_attribute(p$data, var)

+}

+

+

 `%add%` <- function(p, data) {

     p$data <- p$data %add2% data

     return(p)

@@ -274,38 +314,3 @@ roundDigit <- function(d) {

     structure(as.list(match.call()[-1]), env = .env, class = "quoted")

 }

-

-color_scale <- function(c1="grey", c2="red") {

-    pal <- colorRampPalette(c(c1, c2))

-    colors <- pal(100)

-    return(colors)

-}

-

-getIdx <- function(v, MIN, MAX) {

-    if (is.na(v)) {

-        return(NA)

-    }

-    if ( MIN == MAX ) {

-        return(100)

-    }

-    intervals <- seq(MIN, MAX, length.out=100)

-    max(which(intervals <= v))

-}

-

-

-get_color_attribute <- function(p) {

-    p$data[, "color"]

-}

-

-is.tree_attribute <- function(df, var) {

-    if(length(var) == 1 &&

-       !is.null(var)    &&

-       var %in% colnames(df)) {

-        return(TRUE)

-    } 

-    return(FALSE)

-}

-

-is.tree_attribute_ <- function(p, var) {

-    is.tree_attribute(p$data, var)

-}

new file mode 100644

@@ -0,0 +1,611 @@

+#NEXUS

+

+Begin taxa;

+	Dimensions ntax=299;

+	Taxlabels

+		'AB019355_A_Nagasaki_76_98_H3N2_1998.50'

+		'AB019356_A_Nagasaki_93_98_H3N2_1998.50'

+		'AB019357_A_Nagasaki_97_95_H3N2_1995.50'

+		'AB295605_A_Aichi_2_1968_H3N2_1968.50'

+		'AF382321_A_Hong_Kong_1144_1999_H3N2_1999.50'

+		'AJ252129_A_Berlin_6_88_H3N2_1988.50'

+		'AJ252131_A_Cottbus_42_88__H3N2_1988.50'

+		'AJ311466_A_Sydney_5_1997_H3N2_1997.50'

+		'AY032978_A_Switzerland_7729_98_H3N2_1998.50'

+		'AY035588_A_Hong_Kong_1143_99_H3N2_1999.50'

+		'AY589648_A_Cheju_274_2002_H3N2_2002.50'

+		'AY661042_A_Bilthoven_5930_1974_H3N2_1974.50'

+		'AY661043_A_Bilthoven_2600_1975_H3N2_1975.50'

+		'AY661053_A_Colorado_2_1986_H3N2_1986.50'

+		'AY661056_A_Stockholm_12_1988_H3N2_1988.50'

+		'AY661059_A_Hong_Kong_1_1989_H3N2_1989.50'

+		'AY884276_A_Stockholm_26_2002_H3N2_2002.50'

+		'CY000641_A_New_York_163_1999_H3N2_1999.98'

+		'CY000729_A_New_York_179_1999_H3N2_1999.90'

+		'CY001269_A_New_York_164_1999_H3N2_1999.99'

+		'CY001528_A_New_York_188_1999_H3N2_1999.95'

+		'CY001824_A_New_York_314_1999_H3N2_1999.10'

+		'CY001872_A_New_York_323_1999_H3N2_1999.07'

+		'CY001912_A_New_York_336_1999_H3N2_1999.15'

+		'CY001936_A_New_York_340_1999_H3N2_1999.07'

+		'CY001976_A_New_York_324_1999_H3N2_1999.07'

+		'CY002080_A_New_York_244_2004_H3N2_2004.99'

+		'CY002088_A_Memphis_66_1986_H3N2_1986.50'

+		'CY002120_A_New_York_254_1998_H3N2_1999.00'

+		'CY002272_A_Memphis_24_1995_H3N2_1995.50'

+		'CY002440_A_New_York_365_2004_H3N2_2004.96'

+		'CY002752_A_Memphis_1_1986_H3N2_1986.50'

+		'CY003064_A_Memphis_1_1990_H3N2_1990.50'

+		'CY003096_A_New_York_403_2002_H3N2_2002.01'

+		'CY003104_A_New_York_404_2002_H3N2_2002.02'

+		'CY003496_A_Hong_Kong_14_1974_H3N2_1974.50'

+		'CY003512_A_Hong_Kong_2_1988_H3N2_1988.50'

+		'CY003520_A_Hong_Kong_24_1985_H3N2_1985.50'

+		'CY003528_A_Hong_Kong_11_1973_H3N2_1973.50'

+		'CY003544_A_Hong_Kong_7_1987_H3N2_1987.50'

+		'CY003592_A_New_York_453_1999_H3N2_1999.04'

+		'CY003656_A_New_York_468_2004_H3N2_2004.72'

+		'CY003712_A_Hong_Kong_14_1992_H3N2_1992.50'

+		'CY003728_A_Hong_Kong_43_1975_H3N2_1975.50'

+		'CY003736_A_Hong_Kong_5_1983_H3N2_1983.50'

+		'CY006044_A_Beijing_39_1975_H3N2_1975.50'

+		'CY006052_A_Hong_Kong_1_1982_H3N2_1982.50'

+		'CY006155_A_New_York_258_2005_H3N2_2005.05'

+		'CY006163_A_New_York_397_1999_H3N2_1999.10'

+		'CY006203_A_Nanjing_13_1980_H3N2_1980.50'

+		'CY006243_A_New_York_508_1997_H3N2_1997.98'

+		'CY006299_A_Hong_Kong_3_1969_H3N2_1969.50'

+		'CY006307_A_Hong_Kong_50_1972_H3N2_1972.50'

+		'CY006475_A_New_York_518_1998_H3N2_1998.02'

+		'CY006563_A_New_York_533_1998_H3N2_1998.09'

+		'CY006683_A_Hong_Kong_46_1971_H3N2_1971.50'

+		'CY006691_A_Memphis_2_1978_H3N2_1978.50'

+		'CY006699_A_Memphis_12_1978_H3N2_1978.50'

+		'CY006755_A_Nanjing_2_1982_H3N2_1982.50'

+		'CY006763_A_Nanjing_49_1977_H3N2_1977.50'

+		'CY006819_A_Memphis_102_1974_H3N2_1974.50'

+		'CY006851_A_Nanjing_36_1983_H3N2_1983.50'

+		'CY006907_A_Hong_Kong_49_1974_H3N2_1974.50'

+		'CY007315_A_Bay_of_Plenty_383_2004_H3N2_2004.71'

+		'CY007611_A_Memphis_19_1978_H3N2_1978.50'

+		'CY007971_A_Guandong_243_1972_H3N2_1972.50'

+		'CY007979_A_New_York_526_1997_H3N2_1998.00'

+		'CY008452_A_Memphis_5_1985_H3N2_1985.50'

+		'CY008468_A_Memphis_3_1980_H3N2_1980.50'

+		'CY008692_A_Memphis_106_1976_H3N2_1976.50'

+		'CY008708_A_Memphis_7_1985_H3N2_1985.50'

+		'CY008724_A_Memphis_5_1988_H3N2_1988.50'

+		'CY008980_A_New_York_550_1998_H3N2_1998.07'

+		'CY009052_A_Memphis_33_1983_H3N2_1983.50'

+		'CY009068_A_Memphis_2_1985_H3N2_1985.50'

+		'CY009132_A_Canterbury_55_2000_H3N2_2000.61'

+		'CY009356_A_England_1972_H3N2_1972.50'

+		'CY009684_A_New_York_580_1996_H3N2_1996.93'

+		'CY009692_A_New_York_581_1997_H3N2_1997.05'

+		'CY009700_A_New_York_585_1997_H3N2_1997.06'

+		'CY009716_A_New_York_587_1996_H3N2_1996.89'

+		'CY010516_A_New_York_617_1996_H3N2_1996.22'

+		'CY010620_A_New_York_606_1995_H3N2_1995.91'

+		'CY010692_A_New_York_622_1996_H3N2_1996.02'

+		'CY011120_A_Northern_Territory_60_1968_H3N2_1968.50'

+		'CY011456_A_New_York_636_1996_H3N2_1996.06'

+		'CY011472_A_Memphis_12_1985_H3N2_1985.50'

+		'CY011544_A_New_York_672_1995_H3N2_1995.05'

+		'CY011672_A_Wellington_83_2002_H3N2_2002.50'

+		'CY011816_A_New_York_652_1996_H3N2_1996.25'

+		'CY011888_A_New_York_716_1994_H3N2_1994.05'

+		'CY011896_A_New_York_719_1994_H3N2_1994.06'

+		'CY011904_A_New_York_720_1994_H3N2_1994.07'

+		'CY012128_A_New_York_758_1993_H3N2_1993.10'

+		'CY012184_A_New_York_765_1993_H3N2_1993.17'

+		'CY012200_A_New_York_556_1996_H3N2_1996.89'

+		'CY012208_A_New_York_598_1996_H3N2_1996.97'

+		'CY012352_A_Waikato_156_2003_H3N2_2003.48'

+		'CY012776_A_New_York_779_1993_H3N2_1993.09'

+		'CY013072_A_Waikato_5_2001_H3N2_2001.37'

+		'CY013080_A_Wellington_9_2002_H3N2_2002.50'

+		'CY013192_A_New_York_782_1993_H3N2_1993.26'

+		'CY013327_A_New_York_688_1994_H3N2_1994.95'

+		'CY013359_A_New_York_744_1994_H3N2_1994.05'

+		'CY013375_A_Dunedin_3_2000_H3N2_2000.14'

+		'CY013637_A_New_York_772_1993_H3N2_1993.19'

+		'CY013677_A_New_York_784_1993_H3N2_1993.30'

+		'CY013733_A_New_York_794_1993_H3N2_1993.18'

+		'CY015852_A_Western_Australia_47_2003_H3N2_2003.76'

+		'CY016204_A_Waikato_8_2000_H3N2_2000.72'

+		'CY016507_A_New_South_Wales_2_1999_H3N2_1999.50'

+		'CY016555_A_New_South_Wales_21_1999_H3N2_1999.50'

+		'CY016627_A_New_South_Wales_4_1999_H3N2_1999.50'

+		'CY016659_A_South_Australia_23_2005_H3N2_2005.50'

+		'CY017539_A_Queensland_23_2002_H3N2_2002.62'

+		'CY017805_A_South_Australia_2_2000_H3N2_2000.50'

+		'CY017973_A_Queensland_46_2004_H3N2_2004.78'

+		'CY018925_A_Western_Australia_67_2005_H3N2_2005.52'

+		'CY019899_A_Albany_1_1969_H3N2_1969.50'

+		'CY020221_A_Albany_14_1978_H3N2_1978.50'

+		'CY020325_A_Memphis_16_1978_H3N2_1978.50'

+		'CY021077_A_Albany_42_1975_H3N2_1975.50'

+		'CY021093_A_Albany_20_1974_H3N2_1974.50'

+		'CY021597_A_Memphis_3_1971_H3N2_1971.50'

+		'CY021781_A_South_Australia_81_2000_H3N2_2000.50'

+		'CY021829_A_Albany_15_1976_H3N2_1976.50'

+		'CY021845_A_Albany_10_1968_H3N2_1968.50'

+		'CY021941_A_Albany_1_1976_H3N2_1976.50'

+		'CY022309_A_Memphis_104_1976_H3N2_1976.50'

+		'CY022525_A_Auckland_602_2001_H3N2_2001.64'

+		'CY022946_A_Albany_3_1970_H3N2_1970.50'

+		'CY025349_A_Colorado_UR06_0206_2007_H3N2_2007.10'

+		'CY025747_A_Texas_UR06_0480_2007_H3N2_2007.17'

+		'CY026019_A_Illinois_UR06_0036_2007_H3N2_2007.04'

+		'CY026771_A_Washington_UR06_0252_2007_H3N2_2007.12'

+		'CY031555_A_Kentucky_UR06_0571_2007_H3N2_2007.20'

+		'CY032961_A_Yucatan_844_2003_H3N2_2003.22'

+		'CY033638_A_New_York_55_2004_H3N2_2004.50'

+		'CY035214_A_Siena_10_1990_H3N2_1990.05'

+		'CY036831_A_Siena_1_1991_H3N2_1991.96'

+		'CY036847_A_Siena_1_1997_H3N2_1997.02'

+		'CY038503_A_Siena_3_1995_H3N2_1995.08'

+		'CY039503_A_Hong_Kong_HKU50_2005_H3N2_2005.28'

+		'CY039879_A_New_York_537_1998_H3N2_1998.10'

+		'CY040082_A_Taiwan_9_2004_H3N2_2004.01'

+		'CY040338_A_Hong_Kong_HKU75_2005_H3N2_2005.46'

+		'CY041458_A_Ohio_UR07_0013_2008_H3N2_2008.12'

+		'CY112313_A_Bilthoven_23337_1972_H3N2_1972.50'

+		'CY112337_A_Bilthoven_4273_1975_H3N2_1975.50'

+		'CY112404_A_Beijing_352_1989_H3N2_1989.50'

+		'CY112789_A_Nanchang_933_1995_H3N2_1995.50'

+		'CY112813_A_Victoria_75_1995_H3N2_1995.57'

+		'CY112861_A_Nice_491_1996_H3N2_1997.00'

+		'CY113045_A_Bilthoven_908_1969_H3N2_1969.50'

+		'CY113053_A_Bilthoven_17938_1969_H3N2_1969.50'

+		'CY113061_A_Bilthoven_21438_1971_H3N2_1971.50'

+		'CY113069_A_Bilthoven_21801_1971_H3N2_1971.50'

+		'CY113141_A_Bilthoven_9459_1974_H3N2_1974.50'

+		'CY113149_A_Bilthoven_334_1975_H3N2_1975.50'

+		'CY113157_A_Bilthoven_1843_1975_H3N2_1975.50'

+		'CY113173_A_Bilthoven_2813_1975_H3N2_1975.50'

+		'CY113189_A_Bilthoven_628_1976_H3N2_1976.50'

+		'CY113197_A_Bilthoven_1761_1976_H3N2_1976.50'

+		'CY113221_A_Bilthoven_6545_1976_H3N2_1976.50'

+		'CY113261_A_Texas_1_1977_1977.5'

+		'CY113317_A_Guildford_V728_1985_H3N2_1985.50'

+		'CY113325_A_Netherlands_330_1985_H3N2_1985.01'

+		'CY113389_A_Netherlands_450_1988_H3N2_1988.17'

+		'CY114181_A_Finland_381_1995_H3N2_1995.50'

+		'CY114277_A_Lyon_1781_1996_H3N2_1996.82'

+		'CY114373_A_California_7_2004_2004.5'

+		'CY114429_A_Bangkok_1_1979_H3N2_1979.50'

+		'CY114477_A_Brisbane_8_1996_H3N2_1996.50'

+		'CY117760_A_Malaysia_13328_1997_H3N2_1997.59'

+		'CY117800_A_Malaysia_13381_1997_H3N2_1997.60'

+		'CY118450_A_Malaysia_10360_1996_H3N2_1996.51'

+		'CY118610_A_Malaysia_17332_1998_H3N2_1998.47'

+		'CY118634_A_Malaysia_10759_1999_H3N2_1999.06'

+		'CY121157_A_England_42_1972_H3N2_1972.50'

+		'CY121373_A_Moscow_10_1999_H3N2_1999.50'

+		'CY147430_A_Port_Chalmers_JY2_1973_H3N2_1973.5'

+		'CY167524_A_Tennessee_F2019A_2011_H3N2_2011.07'

+		'DQ086157_A_Moscow_343_2003_H3N2_2003.50'

+		'DQ227424_A_Fujian_411_02_like_H3N2_2003.50'

+		'DQ415319_A_TW_872_02_H3N2_2002.50'

+		'DQ415323_A_TW_3286_03_H3N2_2003.50'

+		'DQ415325_A_TW_220_04_H3N2_2004.50'

+		'DQ487341_A_Moscow_10_1999_H3N2_1999.50'

+		'DQ508825_A_Bangkok_1_1979_H3N2_1979.50'

+		'DQ508929_A_Udorn_307_1972_H3N2_1972.50'

+		'DQ883601_A_Norway_623_2005_H3N2_2005.50'

+		'EF409245_A_Hong_Kong_68_H3N2_1968.50'

+		'EPIISL101338_A_HYOGO_2004_2011_2011.92'

+		'EPIISL101920_A_Chungbuk_644_2011_2011.90'

+		'EPIISL103314_A_Catalonia_S4451_2012_2012.04'

+		'EPIISL104139_A_Ireland_11v9451_2011_2011.99'

+		'EPIISL107036_A_Kyrgyzstan_119_2012_2012.06'

+		'EPIISL108258_A_Boston_DOA85_2011_2011.23'

+		'EPIISL108451_A_Sweden_3_2012_2012.14'

+		'EPIISL109752_A_Washington_11_2012_2012.09'

+		'EPIISL111421_A_TOYAMA_161_2011_2011.93'

+		'EPIISL118764_A_Iasi_92652_2012_2012.07'

+		'EPIISL121974_A_Ukraine_155_2012_2012.20'

+		'EPIISL122008_A_New_Mexico_11_2012_2012.30'

+		'EPIISL127613_A_Wisconsin_03_2007_2007.50'

+		'EPIISL130204_A_Kentucky_16_2012_2012.77'

+		'EPIISL132003_A_Buenos_Aires_10435982_2012_2012.57'

+		'EPIISL134009_A_Michigan_33_2012_2012.93'

+		'EPIISL136451_A_Texas_JMM_15_2012_2012.90'

+		'EPIISL137431_A_Maryland_01_2013_2013.03'

+		'EPIISL138445_A_Stockholm_55_2012_2012.98'

+		'EPIISL143033_A_Singapore_C2011_507V_2011_2011.51'

+		'EPIISL145115_A_Esteli_816_2013_2013.35'

+		'EPIISL149718_A_Stockholm_26_2011_2011.77'

+		'EPIISL150179_A_Puerto_Rico_19_2013_2013.71'

+		'EPIISL150604_A_Moldova_440_2013_2013.26'

+		'EPIISL152187_A_Peru_PER043_2011_2011.65'

+		'EPIISL152445_A_Peru_PER169_2010_2010.78'

+		'EPIISL152697_A_Peru_PER295_2010_2010.97'

+		'EPIISL156903_A_Diyarbakir_4212_2013_2013.99'

+		'EPIISL159638_A_Switzerland_9884248_2014_2014.04'

+		'EPIISL160491_A_Boston_YGA_01182_2013_2013.06'

+		'EPIISL160684_A_Chicago_YGA_04038_2012_2012.96'

+		'EPIISL160733_A_Chicago_YGA_04130_2013_2013.01'

+		'EPIISL160879_A_New_York_1079_2007_2007.12'

+		'EPIISL161270_A_BRISBANE_24_2013_2013.16'

+		'EPIISL162114_A_Norway_1003_2014_2014.18'

+		'EPIISL162157_A_Zhitomir_286_2014_2014.14'

+		'EPIISL164606_A_Centre_1329_2014_2014.27'

+		'EPIISL165120_A_KANAGAWA_146_2014_2014.21'

+		'EPIISL165906_A_VICTORIA_806_2014_2014.33'

+		'EPIISL20360_A_Canada_281_2007_2007.08'

+		'EPIISL20482_A_Hebei_Yunhe33_2007_2007.04'

+		'EPIISL20631_A_Zagreb_1216_2007_2007.50'

+		'EPIISL20668_A_Mexico_2222_2007_2007.34'

+		'EPIISL25034_A_Pennsylvania_PIT05_2008_2008.06'

+		'EPIISL28217_A_Kenya_1599_2008_2008.60'

+		'EPIISL29670_A_Mississippi_UR07_0042_2008_2008.14'

+		'EPIISL60752_A_Wisconsin_15_2009_2009.44'

+		'EPIISL60761_A_Perth_16_2009_2009.50'

+		'EPIISL62778_A_Boston_23_2008_2008.09'

+		'EPIISL68567_A_Stockholm_89_2009_2009.69'

+		'EPIISL71950_A_Laos_184_2009_2009.73'

+		'EPIISL79674_A_Brisbane_11_2010_2010.40'

+		'EPIISL84067_A_South_Carolina_03_2010_2010.76'

+		'EPIISL87522_A_Cambodia_NHRCC00006_2009_2009.79'

+		'EPIISL87875_A_North_Dakota_02_2010_2010.95'

+		'EPIISL89758_A_California_18_2011_2011.09'

+		'EPIISL96025_A_Norway_1775_2011_2011.58'

+		'EU103708_A_Denmark_03_2004_H3N2_2004.50'

+		'EU103793_A_Denmark_181_2005_H3N2_2005.50'

+		'EU199250_A_Brisbane_10_2007_H3N2_2007.10'

+		'EU199280_A_Memphis_07_2007_H3N2_2007.11'

+		'EU199284_A_Virginia_01_2007_H3N2_2007.20'

+		'EU199359_A_Pennsylvania_05_2007_H3N2_2007.19'

+		'EU199378_A_Minnesota_17_2007_H3N2_2007.21'

+		'EU604298_A_Guangdong_03_2005_H3N2_2005.50'

+		'EU620763_A_Guangdong_07_2005_H3N2_2005.50'

+		'EU856823_A_Hong_Kong_CUHK10537_1998_H3N2_1998.04'

+		'EU856829_A_Hong_Kong_CUHK10954_1998_H3N2_1998.08'

+		'EU856831_A_Hong_Kong_CUHK10960_1998_H3N2_1998.08'

+		'EU856835_A_Hong_Kong_CUHK11241_1999_H3N2_1999.12'

+		'EU856836_A_Hong_Kong_CUHK11255_1999_H3N2_1999.12'

+		'EU856839_A_Hong_Kong_CUHK12160_1997_H3N2_1997.36'

+		'EU856858_A_Hong_Kong_CUHK13278_2002_H3N2_2002.18'

+		'EU856863_A_Hong_Kong_CUHK13510_2001_H3N2_2001.21'

+		'EU856883_A_Hong_Kong_CUHK18351_1998_H3N2_1998.70'

+		'EU856893_A_Hong_Kong_CUHK20213_1997_H3N2_1997.51'

+		'EU856894_A_Hong_Kong_CUHK20217_1997_H3N2_1997.51'

+		'EU856916_A_Hong_Kong_CUHK21742_2002_H3N2_2002.27'

+		'EU856923_A_Hong_Kong_CUHK22078_2000_H3N2_2000.17'

+		'EU856925_A_Hong_Kong_CUHK22162_2000_H3N2_2000.18'

+		'EU856956_A_Hong_Kong_CUHK27157_2000_H3N2_2000.60'

+		'EU856962_A_Hong_Kong_CUHK28044_2000_H3N2_2000.68'

+		'EU856964_A_Hong_Kong_CUHK28501_2000_H3N2_2000.71'

+		'EU856966_A_Hong_Kong_CUHK30419_1999_H3N2_1999.51'

+		'EU856967_A_Hong_Kong_CUHK30423_1999_H3N2_1999.51'

+		'EU856973_A_Hong_Kong_CUHK32796_1999_H3N2_1999.72'

+		'EU856977_A_Hong_Kong_CUHK33199_2002_H3N2_2002.51'

+		'EU856983_A_Hong_Kong_CUHK33829_1999_H3N2_1999.82'

+		'EU857001_A_Hong_Kong_CUHK41114_1997_H3N2_1997.98'

+		'EU857002_A_Hong_Kong_CUHK41222_1997_H3N2_1997.99'

+		'EU857003_A_Hong_Kong_CUHK41459_1997_H3N2_1998.00'

+		'EU857004_A_Hong_Kong_CUHK4147_1997_H3N2_1997.19'

+		'EU857008_A_Hong_Kong_CUHK4245_1997_H3N2_1997.20'

+		'EU857012_A_Hong_Kong_CUHK4391_1997_H3N2_1997.23'

+		'EU857022_A_Hong_Kong_CUHK50552_1998_H3N2_1998.98'

+		'EU857080_A_Hong_Kong_CUHK69904_2006_H3N2_2007.00'

+		'EU885499_A_Minnesota_05_2008_H3N2_2008.02'

+		'EU885520_A_Nebraska_02_2008_H3N2_2008.06'

+		'J02132_A_Memphis_1_1971_H3N2_1971.50'

+		'JX518888_A_Wuhan_359_1995_1995.5'

+		'KC296480_A_Bilthoven_16190_1968_H3N2_1968.5'

+		'KJ942680_A_Victoria_361_2011_2011.5'

+		'U08858_A_Philippines_2_1982_H3N2_1982.50'

+		'U26830_A_Beijing_32_1992_H3N2_1992.50'

+		'U97740_A_Beijing_353_1989_H3N2_1989.50'

+		'V01086_A_Victoria_3_1975_H3N2_1975.50'

+		'X05907_A_England_321_1977_H3N2_1977.50'

+		;

+End;

+

+Begin trees;

+	Translate

+		1 'AB019355_A_Nagasaki_76_98_H3N2_1998.50',

+		2 'AB019356_A_Nagasaki_93_98_H3N2_1998.50',

+		3 'AB019357_A_Nagasaki_97_95_H3N2_1995.50',

+		4 'AB295605_A_Aichi_2_1968_H3N2_1968.50',

+		5 'AF382321_A_Hong_Kong_1144_1999_H3N2_1999.50',

+		6 'AJ252129_A_Berlin_6_88_H3N2_1988.50',

+		7 'AJ252131_A_Cottbus_42_88__H3N2_1988.50',

+		8 'AJ311466_A_Sydney_5_1997_H3N2_1997.50',

+		9 'AY032978_A_Switzerland_7729_98_H3N2_1998.50',

+		10 'AY035588_A_Hong_Kong_1143_99_H3N2_1999.50',

+		11 'AY589648_A_Cheju_274_2002_H3N2_2002.50',

+		12 'AY661042_A_Bilthoven_5930_1974_H3N2_1974.50',

+		13 'AY661043_A_Bilthoven_2600_1975_H3N2_1975.50',

+		14 'AY661053_A_Colorado_2_1986_H3N2_1986.50',

+		15 'AY661056_A_Stockholm_12_1988_H3N2_1988.50',

+		16 'AY661059_A_Hong_Kong_1_1989_H3N2_1989.50',

+		17 'AY884276_A_Stockholm_26_2002_H3N2_2002.50',

+		18 'CY000641_A_New_York_163_1999_H3N2_1999.98',

+		19 'CY000729_A_New_York_179_1999_H3N2_1999.90',

+		20 'CY001269_A_New_York_164_1999_H3N2_1999.99',

+		21 'CY001528_A_New_York_188_1999_H3N2_1999.95',

+		22 'CY001824_A_New_York_314_1999_H3N2_1999.10',

+		23 'CY001872_A_New_York_323_1999_H3N2_1999.07',

+		24 'CY001912_A_New_York_336_1999_H3N2_1999.15',

+		25 'CY001936_A_New_York_340_1999_H3N2_1999.07',

+		26 'CY001976_A_New_York_324_1999_H3N2_1999.07',

+		27 'CY002080_A_New_York_244_2004_H3N2_2004.99',

+		28 'CY002088_A_Memphis_66_1986_H3N2_1986.50',

+		29 'CY002120_A_New_York_254_1998_H3N2_1999.00',

+		30 'CY002272_A_Memphis_24_1995_H3N2_1995.50',

+		31 'CY002440_A_New_York_365_2004_H3N2_2004.96',

+		32 'CY002752_A_Memphis_1_1986_H3N2_1986.50',

+		33 'CY003064_A_Memphis_1_1990_H3N2_1990.50',

+		34 'CY003096_A_New_York_403_2002_H3N2_2002.01',

+		35 'CY003104_A_New_York_404_2002_H3N2_2002.02',

+		36 'CY003496_A_Hong_Kong_14_1974_H3N2_1974.50',

+		37 'CY003512_A_Hong_Kong_2_1988_H3N2_1988.50',

+		38 'CY003520_A_Hong_Kong_24_1985_H3N2_1985.50',

+		39 'CY003528_A_Hong_Kong_11_1973_H3N2_1973.50',

+		40 'CY003544_A_Hong_Kong_7_1987_H3N2_1987.50',

+		41 'CY003592_A_New_York_453_1999_H3N2_1999.04',

+		42 'CY003656_A_New_York_468_2004_H3N2_2004.72',

+		43 'CY003712_A_Hong_Kong_14_1992_H3N2_1992.50',

+		44 'CY003728_A_Hong_Kong_43_1975_H3N2_1975.50',

+		45 'CY003736_A_Hong_Kong_5_1983_H3N2_1983.50',

+		46 'CY006044_A_Beijing_39_1975_H3N2_1975.50',

+		47 'CY006052_A_Hong_Kong_1_1982_H3N2_1982.50',

+		48 'CY006155_A_New_York_258_2005_H3N2_2005.05',

+		49 'CY006163_A_New_York_397_1999_H3N2_1999.10',

+		50 'CY006203_A_Nanjing_13_1980_H3N2_1980.50',

+		51 'CY006243_A_New_York_508_1997_H3N2_1997.98',

+		52 'CY006299_A_Hong_Kong_3_1969_H3N2_1969.50',

+		53 'CY006307_A_Hong_Kong_50_1972_H3N2_1972.50',

+		54 'CY006475_A_New_York_518_1998_H3N2_1998.02',

+		55 'CY006563_A_New_York_533_1998_H3N2_1998.09',

+		56 'CY006683_A_Hong_Kong_46_1971_H3N2_1971.50',

+		57 'CY006691_A_Memphis_2_1978_H3N2_1978.50',

+		58 'CY006699_A_Memphis_12_1978_H3N2_1978.50',

+		59 'CY006755_A_Nanjing_2_1982_H3N2_1982.50',

+		60 'CY006763_A_Nanjing_49_1977_H3N2_1977.50',

+		61 'CY006819_A_Memphis_102_1974_H3N2_1974.50',

+		62 'CY006851_A_Nanjing_36_1983_H3N2_1983.50',

+		63 'CY006907_A_Hong_Kong_49_1974_H3N2_1974.50',

+		64 'CY007315_A_Bay_of_Plenty_383_2004_H3N2_2004.71',

+		65 'CY007611_A_Memphis_19_1978_H3N2_1978.50',

+		66 'CY007971_A_Guandong_243_1972_H3N2_1972.50',

+		67 'CY007979_A_New_York_526_1997_H3N2_1998.00',

+		68 'CY008452_A_Memphis_5_1985_H3N2_1985.50',

+		69 'CY008468_A_Memphis_3_1980_H3N2_1980.50',

+		70 'CY008692_A_Memphis_106_1976_H3N2_1976.50',

+		71 'CY008708_A_Memphis_7_1985_H3N2_1985.50',

+		72 'CY008724_A_Memphis_5_1988_H3N2_1988.50',

+		73 'CY008980_A_New_York_550_1998_H3N2_1998.07',

+		74 'CY009052_A_Memphis_33_1983_H3N2_1983.50',

+		75 'CY009068_A_Memphis_2_1985_H3N2_1985.50',

+		76 'CY009132_A_Canterbury_55_2000_H3N2_2000.61',

+		77 'CY009356_A_England_1972_H3N2_1972.50',

+		78 'CY009684_A_New_York_580_1996_H3N2_1996.93',

+		79 'CY009692_A_New_York_581_1997_H3N2_1997.05',

+		80 'CY009700_A_New_York_585_1997_H3N2_1997.06',

+		81 'CY009716_A_New_York_587_1996_H3N2_1996.89',

+		82 'CY010516_A_New_York_617_1996_H3N2_1996.22',

+		83 'CY010620_A_New_York_606_1995_H3N2_1995.91',

+		84 'CY010692_A_New_York_622_1996_H3N2_1996.02',

+		85 'CY011120_A_Northern_Territory_60_1968_H3N2_1968.50',

+		86 'CY011456_A_New_York_636_1996_H3N2_1996.06',

+		87 'CY011472_A_Memphis_12_1985_H3N2_1985.50',

+		88 'CY011544_A_New_York_672_1995_H3N2_1995.05',

+		89 'CY011672_A_Wellington_83_2002_H3N2_2002.50',

+		90 'CY011816_A_New_York_652_1996_H3N2_1996.25',

+		91 'CY011888_A_New_York_716_1994_H3N2_1994.05',

+		92 'CY011896_A_New_York_719_1994_H3N2_1994.06',

+		93 'CY011904_A_New_York_720_1994_H3N2_1994.07',

+		94 'CY012128_A_New_York_758_1993_H3N2_1993.10',

+		95 'CY012184_A_New_York_765_1993_H3N2_1993.17',

+		96 'CY012200_A_New_York_556_1996_H3N2_1996.89',

+		97 'CY012208_A_New_York_598_1996_H3N2_1996.97',

+		98 'CY012352_A_Waikato_156_2003_H3N2_2003.48',

+		99 'CY012776_A_New_York_779_1993_H3N2_1993.09',

+		100 'CY013072_A_Waikato_5_2001_H3N2_2001.37',

+		101 'CY013080_A_Wellington_9_2002_H3N2_2002.50',

+		102 'CY013192_A_New_York_782_1993_H3N2_1993.26',

+		103 'CY013327_A_New_York_688_1994_H3N2_1994.95',

+		104 'CY013359_A_New_York_744_1994_H3N2_1994.05',

+		105 'CY013375_A_Dunedin_3_2000_H3N2_2000.14',

+		106 'CY013637_A_New_York_772_1993_H3N2_1993.19',

+		107 'CY013677_A_New_York_784_1993_H3N2_1993.30',

+		108 'CY013733_A_New_York_794_1993_H3N2_1993.18',

+		109 'CY015852_A_Western_Australia_47_2003_H3N2_2003.76',

+		110 'CY016204_A_Waikato_8_2000_H3N2_2000.72',

+		111 'CY016507_A_New_South_Wales_2_1999_H3N2_1999.50',

+		112 'CY016555_A_New_South_Wales_21_1999_H3N2_1999.50',

+		113 'CY016627_A_New_South_Wales_4_1999_H3N2_1999.50',

+		114 'CY016659_A_South_Australia_23_2005_H3N2_2005.50',

+		115 'CY017539_A_Queensland_23_2002_H3N2_2002.62',

+		116 'CY017805_A_South_Australia_2_2000_H3N2_2000.50',

+		117 'CY017973_A_Queensland_46_2004_H3N2_2004.78',

+		118 'CY018925_A_Western_Australia_67_2005_H3N2_2005.52',

+		119 'CY019899_A_Albany_1_1969_H3N2_1969.50',

+		120 'CY020221_A_Albany_14_1978_H3N2_1978.50',

+		121 'CY020325_A_Memphis_16_1978_H3N2_1978.50',

+		122 'CY021077_A_Albany_42_1975_H3N2_1975.50',

+		123 'CY021093_A_Albany_20_1974_H3N2_1974.50',

+		124 'CY021597_A_Memphis_3_1971_H3N2_1971.50',

+		125 'CY021781_A_South_Australia_81_2000_H3N2_2000.50',

+		126 'CY021829_A_Albany_15_1976_H3N2_1976.50',

+		127 'CY021845_A_Albany_10_1968_H3N2_1968.50',

+		128 'CY021941_A_Albany_1_1976_H3N2_1976.50',

+		129 'CY022309_A_Memphis_104_1976_H3N2_1976.50',

+		130 'CY022525_A_Auckland_602_2001_H3N2_2001.64',

+		131 'CY022946_A_Albany_3_1970_H3N2_1970.50',

+		132 'CY025349_A_Colorado_UR06_0206_2007_H3N2_2007.10',

+		133 'CY025747_A_Texas_UR06_0480_2007_H3N2_2007.17',

+		134 'CY026019_A_Illinois_UR06_0036_2007_H3N2_2007.04',

+		135 'CY026771_A_Washington_UR06_0252_2007_H3N2_2007.12',

+		136 'CY031555_A_Kentucky_UR06_0571_2007_H3N2_2007.20',

+		137 'CY032961_A_Yucatan_844_2003_H3N2_2003.22',

+		138 'CY033638_A_New_York_55_2004_H3N2_2004.50',

+		139 'CY035214_A_Siena_10_1990_H3N2_1990.05',

+		140 'CY036831_A_Siena_1_1991_H3N2_1991.96',

+		141 'CY036847_A_Siena_1_1997_H3N2_1997.02',

+		142 'CY038503_A_Siena_3_1995_H3N2_1995.08',

+		143 'CY039503_A_Hong_Kong_HKU50_2005_H3N2_2005.28',

+		144 'CY039879_A_New_York_537_1998_H3N2_1998.10',

+		145 'CY040082_A_Taiwan_9_2004_H3N2_2004.01',

+		146 'CY040338_A_Hong_Kong_HKU75_2005_H3N2_2005.46',

+		147 'CY041458_A_Ohio_UR07_0013_2008_H3N2_2008.12',

+		148 'CY112313_A_Bilthoven_23337_1972_H3N2_1972.50',

+		149 'CY112337_A_Bilthoven_4273_1975_H3N2_1975.50',

+		150 'CY112404_A_Beijing_352_1989_H3N2_1989.50',

+		151 'CY112789_A_Nanchang_933_1995_H3N2_1995.50',

+		152 'CY112813_A_Victoria_75_1995_H3N2_1995.57',

+		153 'CY112861_A_Nice_491_1996_H3N2_1997.00',

+		154 'CY113045_A_Bilthoven_908_1969_H3N2_1969.50',

+		155 'CY113053_A_Bilthoven_17938_1969_H3N2_1969.50',

+		156 'CY113061_A_Bilthoven_21438_1971_H3N2_1971.50',

+		157 'CY113069_A_Bilthoven_21801_1971_H3N2_1971.50',

+		158 'CY113141_A_Bilthoven_9459_1974_H3N2_1974.50',

+		159 'CY113149_A_Bilthoven_334_1975_H3N2_1975.50',

+		160 'CY113157_A_Bilthoven_1843_1975_H3N2_1975.50',

+		161 'CY113173_A_Bilthoven_2813_1975_H3N2_1975.50',

+		162 'CY113189_A_Bilthoven_628_1976_H3N2_1976.50',

+		163 'CY113197_A_Bilthoven_1761_1976_H3N2_1976.50',

+		164 'CY113221_A_Bilthoven_6545_1976_H3N2_1976.50',

+		165 'CY113261_A_Texas_1_1977_1977.5',

+		166 'CY113317_A_Guildford_V728_1985_H3N2_1985.50',

+		167 'CY113325_A_Netherlands_330_1985_H3N2_1985.01',

+		168 'CY113389_A_Netherlands_450_1988_H3N2_1988.17',

+		169 'CY114181_A_Finland_381_1995_H3N2_1995.50',

+		170 'CY114277_A_Lyon_1781_1996_H3N2_1996.82',

+		171 'CY114373_A_California_7_2004_2004.5',

+		172 'CY114429_A_Bangkok_1_1979_H3N2_1979.50',

+		173 'CY114477_A_Brisbane_8_1996_H3N2_1996.50',

+		174 'CY117760_A_Malaysia_13328_1997_H3N2_1997.59',

+		175 'CY117800_A_Malaysia_13381_1997_H3N2_1997.60',

+		176 'CY118450_A_Malaysia_10360_1996_H3N2_1996.51',

+		177 'CY118610_A_Malaysia_17332_1998_H3N2_1998.47',

+		178 'CY118634_A_Malaysia_10759_1999_H3N2_1999.06',

+		179 'CY121157_A_England_42_1972_H3N2_1972.50',

+		180 'CY121373_A_Moscow_10_1999_H3N2_1999.50',

+		181 'CY147430_A_Port_Chalmers_JY2_1973_H3N2_1973.5',

+		182 'CY167524_A_Tennessee_F2019A_2011_H3N2_2011.07',

+		183 'DQ086157_A_Moscow_343_2003_H3N2_2003.50',

+		184 'DQ227424_A_Fujian_411_02_like_H3N2_2003.50',

+		185 'DQ415319_A_TW_872_02_H3N2_2002.50',

+		186 'DQ415323_A_TW_3286_03_H3N2_2003.50',

+		187 'DQ415325_A_TW_220_04_H3N2_2004.50',

+		188 'DQ487341_A_Moscow_10_1999_H3N2_1999.50',

+		189 'DQ508825_A_Bangkok_1_1979_H3N2_1979.50',

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+		;

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