""" % DicoPath['listeuce2']
txt += """
-# rm(data1)
+ rm(data1)
"""
if classif_mode == 0:
txt += """
-# rm(data2)
+ rm(data2)
"""
txt += """
chd.result <- Rchdtxt("%s",mincl=%i,classif_mode=%i, nbt = nbt)
txt += """
PARCEX<-%s
- xmin <- min(afc$rowcoord[,1]) + (0.1 * min(afc$rowcoord[,1]))
- xmax <- max(afc$rowcoord[,1]) + (0.1 * max(afc$rowcoord[,1]))
- ymin <- min(afc$rowcoord[,2]) + (0.1 * min(afc$rowcoord[,2]))
- ymax <- max(afc$rowcoord[,2]) + (0.1 * max(afc$rowcoord[,2]))
+ xmin <- min(afc$rowcoord[,1], na.rm = TRUE) + (0.1 * min(afc$rowcoord[,1], na.rm = TRUE))
+ xmax <- max(afc$rowcoord[,1], na.rm = TRUE) + (0.1 * max(afc$rowcoord[,1], na.rm = TRUE))
+ ymin <- min(afc$rowcoord[,2], na.rm = TRUE) + (0.1 * min(afc$rowcoord[,2], na.rm = TRUE))
+ ymax <- max(afc$rowcoord[,2], na.rm = TRUE) + (0.1 * max(afc$rowcoord[,2], na.rm = TRUE))
+ print(xmin)
+ print(xmax)
+ print(ymin)
+ print(ymax)
""" % taillecar
txt += """
PlotAfc2dCoul(afc, as.data.frame(chistabletot), "%s", what='coord', deb=1, fin=(debsup-1), xlab = xlab, ylab = ylab, xmin=xmin, xmax=xmax, ymin = ymin, ymax=ymax)
if self.param['tchi'] : tchi = 'TRUE'
else : tchi = 'FALSE'
+ if self.param['svg'] : svg = 'TRUE'
+ else : svg = 'FALSE'
+
with open(self.RscriptsPath['afc_graph'], 'r') as f:
txt = f.read()
tchi,\
self.param['tchi_min'],\
self.param['tchi_max'],\
- ffr(os.path.dirname(self.fileout)))
+ ffr(os.path.dirname(self.fileout)),\
+ svg)
return scripts
def print_simi3d(self):
if not intxt :
#FIXME
txt = """
- inf <- NA
di <- matrix(data=%s, nrow=%i, byrow = TRUE)
- di[is.na(di)] <- max(di, na.rm=TRUE) + 2
+ toinf <- which(di == Inf)
+ tominf <- which(di == -Inf)
+ if (length(toinf)) {
+ di[toinf] <- NA
+ valmax <- max(di, na.rm = TRUE)
+ if (valmax <= 0) {
+ valmax <- 2
+ } else {
+ valmax <- valmax + 2
+ }
+ di[toinf] <- valmax
+ }
+ if (length(tominf)) {
+ di[tominf] <- NA
+ valmin <- min(di, na.rm = TRUE)
+ if (valmin >=0) {
+ valmin <- -2
+ } else {
+ valmin <- valmin - 2
+ }
+ di[tominf] <- valmin
+ }
rownames(di)<- %s
colnames(di) <- %s
""" % (txttable, rownb, rownames, colnames)
par(mar=c(0,0,0,0))
layout(matrix(c(1,2),1,2, byrow=TRUE),widths=c(3,lcm(7)))
par(mar=c(2,2,1,0))
- coord <- barplot(as.matrix(di), beside = TRUE, col = color, space = c(0.1,0.6))
+ yp = ifelse(length(toinf), 0.2, 0)
+ ym = ifelse(length(tominf), 0.2, 0)
+ ymin <- ifelse(!length(which(di < 0)), 0, min(di) - ym)
+ coord <- barplot(as.matrix(di), beside = TRUE, col = color, space = c(0.1,0.6), ylim=c(ymin, max(di) + yp))
+ if (length(toinf)) {
+ coordinf <- coord[toinf]
+ valinf <- di[toinf]
+ text(x=coordinf, y=valinf + 0.1, 'i')
+ }
+ if (length(tominf)) {
+ coordinf <- coord[toinf]
+ valinf <- di[toinf]
+ text(x=coordinf, y=valinf - 0.1, 'i')
+ }
c <- colMeans(coord)
c1 <- c[-1]
c2 <- c[-length(c)]
self.txtgraph = ''
self.packages(['igraph', 'proxy', 'Matrix'])
self.sources([self.analyse.parent.RscriptsPath['simi'], self.analyse.parent.RscriptsPath['Rgraph']])
- txt = """
- dm.path <- "%s"
- cn.path <- "%s"
- selected.col <- "%s"
- """ % (self.pathout['mat01.csv'], self.pathout['actives.csv'], self.pathout['selected.csv'])
- txt += """
- dm <-readMM(dm.path)
- cn <- read.table(cn.path, sep=';', quote='"')
- colnames(dm) <- cn[,1]
- sel.col <- read.csv2(selected.col)
- dm <- dm[, sel.col[,1] + 1]
- """
-
- if self.parametres['coeff'] == 0 :
- method = 'cooc'
+ txt = ''
+ if not self.parametres['keep_coord'] :
+ txt += """
+ dm.path <- "%s"
+ cn.path <- "%s"
+ selected.col <- "%s"
+ """ % (self.pathout['mat01.csv'], self.pathout['actives.csv'], self.pathout['selected.csv'])
txt += """
- method <- 'cooc'
- mat <- make.a(dm)
+ dm <-readMM(dm.path)
+ cn <- read.table(cn.path, sep=';', quote='"')
+ colnames(dm) <- cn[,1]
+ sel.col <- read.csv2(selected.col)
+ dm <- dm[, sel.col[,1] + 1]
"""
else :
txt += """
- dm <- as.matrix(dm)
- """
+ load("%s")
+ """ % self.pathout['RData.RData']
+
+ if self.parametres['coeff'] == 0 :
+ method = 'cooc'
+ if not self.parametres['keep_coord'] :
+ txt += """
+ method <- 'cooc'
+ mat <- make.a(dm)
+ """
+ else :
+ if not self.parametres['keep_coord'] :
+ txt += """
+ dm <- as.matrix(dm)
+ """
if self.parametres['coeff'] == 1 :
method = 'prcooc'
txt += """
"""
elif self.analyse.indices[self.parametres['coeff']] == 'binomial' :
method = 'binomial'
- txt += """
- method <- 'binomial'
- mat <- binom.sim(dm)
- """
+ if not self.parametres['keep_coord'] :
+ txt += """
+ method <- 'binomial'
+ mat <- binom.sim(dm)
+ """
elif self.parametres['coeff'] != 0 :
method = self.analyse.indices[self.parametres['coeff']]
+ if not self.parametres['keep_coord'] :
+ txt += """
+ method <-"%s"
+ mat <- simil(dm, method = method, diag = TRUE, upper = TRUE, by_rows = FALSE)
+ """ % self.analyse.indices[self.parametres['coeff']]
+ if not self.parametres['keep_coord'] :
txt += """
- method <-"%s"
- mat <- simil(dm, method = method, diag = TRUE, upper = TRUE, by_rows = FALSE)
- """ % self.analyse.indices[self.parametres['coeff']]
- txt += """
- mat <- as.matrix(stats::as.dist(mat,diag=TRUE,upper=TRUE))
- mat[is.na(mat)] <- 0
- mat[is.infinite(mat)] <- 0
- """
+ mat <- as.matrix(stats::as.dist(mat,diag=TRUE,upper=TRUE))
+ mat[is.na(mat)] <- 0
+ mat[is.infinite(mat)] <- 0
+ """
if self.parametres['layout'] == 0 : layout = 'random'
if self.parametres['layout'] == 1 : layout = 'circle'
if self.parametres['layout'] == 2 : layout = 'frutch'
if self.parametres['layout'] == 3 : layout = 'kawa'
if self.parametres['layout'] == 4 : layout = 'graphopt'
+
self.filename=''
if self.parametres['type_graph'] == 0 : type = 'tkplot'
if self.parametres['type_graph'] == 1 :
txt += """
et <- list()
"""
- print self.parametres
- for i,et in enumerate(self.parametres['stars']) :
+ for i, line in enumerate(self.parametres['listet']) :
txt+= """
et[[%i]] <- c(%s)
- """ % (i+1, ','.join(et[1:]))
+ """ % (i+1, ','.join([`val + 1` for val in line]))
txt+= """
unetoile <- c('%s')
- """ % ("','".join([val[0] for val in self.tableau.etline]))
+ """ % ("','".join([val for val in self.parametres['selectedstars']]))
txt += """
fsum <- NULL
rs <- rowSums(dm)
cols <- vertex.label.color
chivertex.size <- norm.vec(toblack, vcexminmax[1], vcexminmax[2])
- """ % (self.parent.RscriptsPath['chdfunct'])
+ """ % (self.analyse.parent.RscriptsPath['chdfunct'])
else :
txt += """
vertex.label.color <- 'black'
projects / iramuteq / blobdiff