diff --git a/Projet.Rmd b/Projet.Rmd index 7cbc0ce..fc17ca0 100644 --- a/Projet.Rmd +++ b/Projet.Rmd @@ -725,29 +725,32 @@ DataExpMoy$GeneID = rownames(DataExpMoy) # stoquage plus utile du clustering DataExpMoy$Cluster = as.factor(res_kmeans_2$cluster) -# Transforme les données de format large en format long. Chaque colonne (sauf Cluster et GeneID) devient une ligne. -data_long = pivot_longer( +# on transforme les données de format large en format long, +# on renomme la colonne des variables => pratique pour ce qu'on fait après (mais pas indispensable car elle s'appelle "variable" par défaut) +data_long = melt( DataExpMoy, cols = -c(Cluster, GeneID), - names_to = "Condition", - values_to = "Expression" + variable.name = "Relevé", + value.name = "Expression" ) -# Sépare la colonne "Condition" en deux nouvelles colonnes : "Traitement" et "Temps", en utilisant "_" comme séparateur. +# on sépare la colonne "Relevé" en deux nouvelles colonnes "Traitement" et "Temps", en utilisant "_" comme séparateur pour pouvoir faire un graphe en fonction du temps +# et 1 par traitement data_long = separate( data_long, - col = "Condition", + col = "Relevé", into = c("Traitement", "Temps"), sep = "_" ) -# Convertit les valeurs de la colonne Temps en nombres après avoir supprimé le suffixe "H". +# convertit les valeurs de la colonne Temps en nombres après avoir supprimé le "H" du numéro des heures +# pour cela, on ustilise gsub qui permet de match des expressions regulières data_long$Temps = as.numeric(gsub("H", "", data_long$Temps)) -# Groupe les données par Cluster, Traitement et Temps +# groupe les données par Cluster, Traitement et Temps data_grouped = group_by(data_long, Cluster, Traitement, Temps) -# Calcule la moyenne de l'expression génique pour chaque combinaison de Cluster, Traitement et Temps. Chaque moyenne va donner un point du graphe. +# calcule la moyenne de l'expression génique pour chaque combinaison de Cluster, Traitement et Temps. Chaque moyenne va donner un point du graphe data_mean = summarise( data_grouped, Expression = mean(Expression), @@ -814,39 +817,33 @@ set.seed(1234) DataExpMoy$Cluster = as.factor(res_kmeans_3$cluster) -# Transforme les données de format large en format long. Chaque colonne (sauf Cluster et GeneID) devient une ligne. -data_long = pivot_longer( +data_long = melt( DataExpMoy, cols = -c(Cluster, GeneID), - names_to = "Condition", - values_to = "Expression" + variable.name = "Relevé", + value.name = "Expression" ) -# Sépare la colonne "Condition" en deux nouvelles colonnes : "Traitement" et "Temps", en utilisant "_" comme séparateur. data_long = separate( data_long, - col = "Condition", + col = "Relevé", into = c("Traitement", "Temps"), sep = "_" ) -# Convertit les valeurs de la colonne Temps en nombres après avoir supprimé le suffixe "H". data_long$Temps = as.numeric(gsub("H", "", data_long$Temps)) -# Groupe les données par Cluster, Traitement et Temps data_grouped = group_by(data_long, Cluster, Traitement, Temps) -# Calcule la moyenne de l'expression génique pour chaque combinaison de Cluster, Traitement et Temps. Chaque moyenne va donner un point du graphe. data_mean = summarise( data_grouped, Expression = mean(Expression), .groups = "drop" ) -# plot ggplot(data_mean, aes(x = Temps, y = Expression, group = Cluster, color = Cluster)) + geom_line(size = 1.2) + - facet_wrap(~ Traitement, scales = "free_y") + # va créer un sous graphique pour chaque traitement, sans forcément la même échelle sur l'axe y + facet_wrap(~ Traitement, scales = "free_y") + labs( x = "Temps (heures)", y = "Expression génique (moyenne)" @@ -860,10 +857,14 @@ ggplot(data_mean, aes(x = Temps, y = Expression, group = Cluster, color = Cluste ### Analyse -Avec plus de clusters, on retrouve plus de précisions dans les comportements différents, avec différentes trajectoire d'expression pour les gènes qui finissent sous-exprimés et ceux qui finissent sur exprimés dans T2 et T3, et même une classe de gènes qui se sur-exprime, se calme, puis se re-sur exprime. Il est tout de même intéressant de noter que la courbe d'expression moyenne pour les gènes sur-exprimés par T1 ne bouge pas par rapport à l'analyse sur 3 clusters, il semblerait donc que ce cluster n'ait sensiblement pas bougé. On peut confirmer les tendances vues dans la première ACP, comme le fait que T1 vise des gènes qui s'expriment à un horizon temporel moyen. +Avec plus de clusters, on retrouve plus de précisions dans les comportements différents, avec différentes trajectoire d'expression pour les gènes qui finissent sous-exprimés et ceux qui finissent sur exprimés dans T2 et T3, et même une classe de gènes qui se sur-exprime, se calme, puis se re-sur exprime. Il est tout de même intéressant de noter que la courbe d'expression moyenne pour les gènes sur-exprimés par T1 ne bouge pas par rapport à l'analyse sur 3 clusters, il semblerait donc que ce cluster n'ait sensiblement pas bougé. On peut confirmer les tendances vues dans la première ACP, comme le fait que T1 vise des gènes qui s'expriment à un horizon temporel moyen. + +## Question BONUS + +Nous n'avons pas réussi à obtenir quelque-chose que nous étions capables d'interpréter dans la question bonus, mais elle est présente dans le Rmarkdown ```{r} MatriceExp = T[,c(37,38,39)] rownames(MatriceExp) = rownames(T) @@ -903,21 +904,20 @@ res_pam = pam(ds, k = 10) # la variable de résultat ne contient pas les données originales # Or elles sont necessaire car le champ data de fviz_cluster est utilisé # que pour des résultats de kmeans et dbscan -pcoa_res <- cmdscale(as.matrix(ds), k = 10) # Project distance matrix to 2D -res_pam$data <- as.data.frame(pcoa_res) +res_pam$data = ds fviz_cluster( res_pam, - labelsize = 8, # Taille des étiquettes - geom = c("point") # Utiliser des points pour visualiser les données + labelsize = 8 ) -# Visualisation des clusters dans le plan original + +# visualisation des clusters dans le plan original # Ajouter les clusters aux données d'origine -data_with_clusters <- MatriceExp -data_with_clusters$cluster <- as.factor(res_pam$clustering) +res = MatriceExp +res$cluster = as.factor(res_pam$clustering) -ggplot(data_with_clusters, aes(x = ExpT1, y = ExpT2, color = cluster)) + +ggplot(res, aes(x = ExpT1, y = ExpT2, color = cluster)) + geom_point(size = 3) + labs( x = "ExpT1", @@ -925,7 +925,7 @@ ggplot(data_with_clusters, aes(x = ExpT1, y = ExpT2, color = cluster)) + color = "Cluster" ) + theme_minimal() -ggplot(data_with_clusters, aes(x = ExpT1, y = ExpT3, color = cluster)) + +ggplot(res, aes(x = ExpT1, y = ExpT3, color = cluster)) + geom_point(size = 3) + labs( x = "ExpT1", @@ -934,7 +934,7 @@ ggplot(data_with_clusters, aes(x = ExpT1, y = ExpT3, color = cluster)) + ) + theme_minimal() -ggplot(data_with_clusters, aes(x = ExpT2, y = ExpT3, color = cluster)) + +ggplot(res, aes(x = ExpT2, y = ExpT3, color = cluster)) + geom_point(size = 3) + labs( x = "ExpT1", diff --git a/Projet.log b/Projet.log index 6b2e013..a3341ee 100644 --- a/Projet.log +++ b/Projet.log @@ -1,80 +1,90 @@ -This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdflatex 2024.7.25) 15 JAN 2025 17:53 +This is pdfTeX, Version 3.141592653-2.6-1.40.25 (TeX Live 2023/Debian) (preloaded format=pdflatex 2025.1.17) 17 JAN 2025 11:20 entering extended mode restricted \write18 enabled. %&-line parsing enabled. **Projet.tex (./Projet.tex -LaTeX2e <2021-11-15> patch level 1 -L3 programming layer <2022-01-21> (/usr/share/texlive/texmf-dist/tex/latex/base -/article.cls -Document Class: article 2021/10/04 v1.4n Standard LaTeX document class +LaTeX2e <2023-11-01> patch level 1 +L3 programming layer <2024-01-22> +(/usr/share/texlive/texmf-dist/tex/latex/base/article.cls +Document Class: article 2023/05/17 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo -File: size10.clo 2021/10/04 v1.4n Standard LaTeX file (size option) +File: size10.clo 2023/05/17 v1.4n Standard LaTeX file (size option) ) -\c@part=\count185 -\c@section=\count186 -\c@subsection=\count187 -\c@subsubsection=\count188 -\c@paragraph=\count189 -\c@subparagraph=\count190 -\c@figure=\count191 -\c@table=\count192 -\abovecaptionskip=\skip47 -\belowcaptionskip=\skip48 -\bibindent=\dimen138 +\c@part=\count187 +\c@section=\count188 +\c@subsection=\count189 +\c@subsubsection=\count190 +\c@paragraph=\count191 +\c@subparagraph=\count192 +\c@figure=\count193 +\c@table=\count194 +\abovecaptionskip=\skip48 +\belowcaptionskip=\skip49 +\bibindent=\dimen140 ) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty -Package: amsmath 2021/10/15 v2.17l AMS math features -\@mathmargin=\skip49 +Package: amsmath 2023/05/13 v2.17o AMS math features +\@mathmargin=\skip50 For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty Package: amstext 2021/08/26 v2.01 AMS text (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty File: amsgen.sty 1999/11/30 v2.0 generic functions -\@emptytoks=\toks16 -\ex@=\dimen139 +\@emptytoks=\toks17 +\ex@=\dimen141 )) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty Package: amsbsy 1999/11/29 v1.2d Bold Symbols -\pmbraise@=\dimen140 +\pmbraise@=\dimen142 ) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty -Package: amsopn 2021/08/26 v2.02 operator names +Package: amsopn 2022/04/08 v2.04 operator names ) -\inf@bad=\count193 +\inf@bad=\count195 LaTeX Info: Redefining \frac on input line 234. -\uproot@=\count194 -\leftroot@=\count195 +\uproot@=\count196 +\leftroot@=\count197 LaTeX Info: Redefining \overline on input line 399. -\classnum@=\count196 -\DOTSCASE@=\count197 +LaTeX Info: Redefining \colon on input line 410. +\classnum@=\count198 +\DOTSCASE@=\count199 LaTeX Info: Redefining \ldots on input line 496. LaTeX Info: Redefining \dots on input line 499. LaTeX Info: Redefining \cdots on input line 620. -\Mathstrutbox@=\box50 -\strutbox@=\box51 -\big@size=\dimen141 +\Mathstrutbox@=\box51 +\strutbox@=\box52 +LaTeX Info: Redefining \big on input line 722. +LaTeX Info: Redefining \Big on input line 723. +LaTeX Info: Redefining \bigg on input line 724. +LaTeX Info: Redefining \Bigg on input line 725. +\big@size=\dimen143 LaTeX Font Info: Redeclaring font encoding OML on input line 743. LaTeX Font Info: Redeclaring font encoding OMS on input line 744. -\macc@depth=\count198 -\c@MaxMatrixCols=\count199 +\macc@depth=\count266 +LaTeX Info: Redefining \bmod on input line 905. +LaTeX Info: Redefining \pmod on input line 910. +LaTeX Info: Redefining \smash on input line 940. +LaTeX Info: Redefining \relbar on input line 970. +LaTeX Info: Redefining \Relbar on input line 971. +\c@MaxMatrixCols=\count267 \dotsspace@=\muskip16 -\c@parentequation=\count266 -\dspbrk@lvl=\count267 -\tag@help=\toks17 -\row@=\count268 -\column@=\count269 -\maxfields@=\count270 -\andhelp@=\toks18 -\eqnshift@=\dimen142 -\alignsep@=\dimen143 -\tagshift@=\dimen144 -\tagwidth@=\dimen145 -\totwidth@=\dimen146 -\lineht@=\dimen147 -\@envbody=\toks19 -\multlinegap=\skip50 -\multlinetaggap=\skip51 -\mathdisplay@stack=\toks20 -LaTeX Info: Redefining \[ on input line 2938. -LaTeX Info: Redefining \] on input line 2939. +\c@parentequation=\count268 +\dspbrk@lvl=\count269 +\tag@help=\toks18 +\row@=\count270 +\column@=\count271 +\maxfields@=\count272 +\andhelp@=\toks19 +\eqnshift@=\dimen144 +\alignsep@=\dimen145 +\tagshift@=\dimen146 +\tagwidth@=\dimen147 +\totwidth@=\dimen148 +\lineht@=\dimen149 +\@envbody=\toks20 +\multlinegap=\skip51 +\multlinetaggap=\skip52 +\mathdisplay@stack=\toks21 +LaTeX Info: Redefining \[ on input line 2953. +LaTeX Info: Redefining \] on input line 2954. ) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty Package: amssymb 2013/01/14 v3.01 AMS font symbols (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty @@ -84,8 +94,18 @@ Package: amsfonts 2013/01/14 v3.01 Basic AMSFonts support LaTeX Font Info: Redeclaring math symbol \hbar on input line 98. LaTeX Font Info: Overwriting math alphabet `\mathfrak' in version `bold' (Font) U/euf/m/n --> U/euf/b/n on input line 106. -)) (/usr/share/texmf/tex/latex/lm/lmodern.sty -Package: lmodern 2009/10/30 v1.6 Latin Modern Fonts +)) (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty +Package: iftex 2022/02/03 v1.0f TeX engine tests +) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty +Package: fontenc 2021/04/29 v2.0v Standard LaTeX package +) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty +Package: inputenc 2021/02/14 v1.3d Input encoding file +\inpenc@prehook=\toks22 +\inpenc@posthook=\toks23 +) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty +Package: textcomp 2020/02/02 v2.0n Standard LaTeX package +) (/usr/share/texmf/tex/latex/lm/lmodern.sty +Package: lmodern 2015/05/01 v1.6.1 Latin Modern Fonts LaTeX Font Info: Overwriting symbol font `operators' in version `normal' (Font) OT1/cmr/m/n --> OT1/lmr/m/n on input line 22. LaTeX Font Info: Overwriting symbol font `letters' in version `normal' @@ -118,98 +138,86 @@ LaTeX Font Info: Overwriting math alphabet `\mathit' in version `bold' (Font) OT1/cmr/bx/it --> OT1/lmr/bx/it on input line 37. LaTeX Font Info: Overwriting math alphabet `\mathtt' in version `bold' (Font) OT1/cmtt/m/n --> OT1/lmtt/m/n on input line 38. -) (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty -Package: iftex 2020/03/06 v1.0d TeX engine tests -) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty -Package: fontenc 2021/04/29 v2.0v Standard LaTeX package -LaTeX Font Info: Trying to load font information for T1+lmr on input line 11 -2. -(/usr/share/texmf/tex/latex/lm/t1lmr.fd -File: t1lmr.fd 2009/10/30 v1.6 Font defs for Latin Modern -)) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty -Package: inputenc 2021/02/14 v1.3d Input encoding file -\inpenc@prehook=\toks21 -\inpenc@posthook=\toks22 -) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty -Package: textcomp 2020/02/02 v2.0n Standard LaTeX package ) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty Package: upquote 2012/04/19 v1.3 upright-quote and grave-accent glyphs in verba tim ) (/usr/share/texlive/texmf-dist/tex/latex/microtype/microtype.sty -Package: microtype 2021/12/10 v3.0b Micro-typographical refinements (RS) +Package: microtype 2023/03/13 v3.1a Micro-typographical refinements (RS) (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty -Package: keyval 2014/10/28 v1.15 key=value parser (DPC) -\KV@toks@=\toks23 +Package: keyval 2022/05/29 v1.15 key=value parser (DPC) +\KV@toks@=\toks24 ) (/usr/share/texlive/texmf-dist/tex/latex/etoolbox/etoolbox.sty Package: etoolbox 2020/10/05 v2.5k e-TeX tools for LaTeX (JAW) -\etb@tempcnta=\count271 +\etb@tempcnta=\count273 ) -\MT@toks=\toks24 -\MT@count=\count272 -\MT@tempbox=\box52 -LaTeX Info: Redefining \leftprotrusion on input line 1010. -LaTeX Info: Redefining \rightprotrusion on input line 1018. -LaTeX Info: Redefining \textls on input line 1173. -\MT@outer@kern=\dimen148 -LaTeX Info: Redefining \textmicrotypecontext on input line 1759. -\MT@listname@count=\count273 +\MT@toks=\toks25 +\MT@tempbox=\box53 +\MT@count=\count274 +LaTeX Info: Redefining \noprotrusionifhmode on input line 1059. +LaTeX Info: Redefining \leftprotrusion on input line 1060. +\MT@prot@toks=\toks26 +LaTeX Info: Redefining \rightprotrusion on input line 1078. +LaTeX Info: Redefining \textls on input line 1368. +\MT@outer@kern=\dimen150 +LaTeX Info: Redefining \textmicrotypecontext on input line 1988. +\MT@listname@count=\count275 (/usr/share/texlive/texmf-dist/tex/latex/microtype/microtype-pdftex.def -File: microtype-pdftex.def 2021/12/10 v3.0b Definitions specific to pdftex (RS) +File: microtype-pdftex.def 2023/03/13 v3.1a Definitions specific to pdftex (RS) -LaTeX Info: Redefining \lsstyle on input line 897. -LaTeX Info: Redefining \lslig on input line 897. -\MT@outer@space=\skip52 +LaTeX Info: Redefining \lsstyle on input line 902. +LaTeX Info: Redefining \lslig on input line 902. +\MT@outer@space=\skip53 ) Package microtype Info: Loading configuration file microtype.cfg. (/usr/share/texlive/texmf-dist/tex/latex/microtype/microtype.cfg -File: microtype.cfg 2021/12/10 v3.0b microtype main configuration file (RS) +File: microtype.cfg 2023/03/13 v3.1a microtype main configuration file (RS) )) (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty Package: parskip 2021-03-14 v2.0h non-zero parskip adjustments (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty -Package: kvoptions 2020-10-07 v3.14 Key value format for package options (HO) +Package: kvoptions 2022-06-15 v3.15 Key value format for package options (HO) (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty -Package: ltxcmds 2020-05-10 v1.25 LaTeX kernel commands for general use (HO) -) (/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty -Package: kvsetkeys 2019/12/15 v1.18 Key value parser (HO) +Package: ltxcmds 2023-12-04 v1.26 LaTeX kernel commands for general use (HO) +) (/usr/share/texlive/texmf-dist/tex/latex/kvsetkeys/kvsetkeys.sty +Package: kvsetkeys 2022-10-05 v1.19 Key value parser (HO) ))) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty -Package: xcolor 2021/10/31 v2.13 LaTeX color extensions (UK) +Package: xcolor 2023/11/15 v3.01 LaTeX color extensions (UK) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg File: color.cfg 2016/01/02 v1.6 sample color configuration ) -Package xcolor Info: Driver file: pdftex.def on input line 227. +Package xcolor Info: Driver file: pdftex.def on input line 274. (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def -File: pdftex.def 2020/10/05 v1.2a Graphics/color driver for pdftex -) -Package xcolor Info: Model `cmy' substituted by `cmy0' on input line 1352. -Package xcolor Info: Model `hsb' substituted by `rgb' on input line 1356. -Package xcolor Info: Model `RGB' extended on input line 1368. -Package xcolor Info: Model `HTML' substituted by `rgb' on input line 1370. -Package xcolor Info: Model `Hsb' substituted by `hsb' on input line 1371. -Package xcolor Info: Model `tHsb' substituted by `hsb' on input line 1372. -Package xcolor Info: Model `HSB' substituted by `hsb' on input line 1373. -Package xcolor Info: Model `Gray' substituted by `gray' on input line 1374. -Package xcolor Info: Model `wave' substituted by `hsb' on input line 1375. +File: pdftex.def 2022/09/22 v1.2b Graphics/color driver for pdftex +) (/usr/share/texlive/texmf-dist/tex/latex/graphics/mathcolor.ltx) +Package xcolor Info: Model `cmy' substituted by `cmy0' on input line 1350. +Package xcolor Info: Model `hsb' substituted by `rgb' on input line 1354. +Package xcolor Info: Model `RGB' extended on input line 1366. +Package xcolor Info: Model `HTML' substituted by `rgb' on input line 1368. +Package xcolor Info: Model `Hsb' substituted by `hsb' on input line 1369. +Package xcolor Info: Model `tHsb' substituted by `hsb' on input line 1370. +Package xcolor Info: Model `HSB' substituted by `hsb' on input line 1371. +Package xcolor Info: Model `Gray' substituted by `gray' on input line 1372. +Package xcolor Info: Model `wave' substituted by `hsb' on input line 1373. ) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty Package: geometry 2020/01/02 v5.9 Page Geometry (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty Package: ifvtex 2019/10/25 v1.7 ifvtex legacy package. Use iftex instead. ) -\Gm@cnth=\count274 -\Gm@cntv=\count275 -\c@Gm@tempcnt=\count276 -\Gm@bindingoffset=\dimen149 -\Gm@wd@mp=\dimen150 -\Gm@odd@mp=\dimen151 -\Gm@even@mp=\dimen152 -\Gm@layoutwidth=\dimen153 -\Gm@layoutheight=\dimen154 -\Gm@layouthoffset=\dimen155 -\Gm@layoutvoffset=\dimen156 -\Gm@dimlist=\toks25 +\Gm@cnth=\count276 +\Gm@cntv=\count277 +\c@Gm@tempcnt=\count278 +\Gm@bindingoffset=\dimen151 +\Gm@wd@mp=\dimen152 +\Gm@odd@mp=\dimen153 +\Gm@even@mp=\dimen154 +\Gm@layoutwidth=\dimen155 +\Gm@layoutheight=\dimen156 +\Gm@layouthoffset=\dimen157 +\Gm@layoutvoffset=\dimen158 +\Gm@dimlist=\toks27 ) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty Package: graphicx 2021/09/16 v1.2d Enhanced LaTeX Graphics (DPC,SPQR) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty -Package: graphics 2021/03/04 v1.4d Standard LaTeX Graphics (DPC,SPQR) +Package: graphics 2022/03/10 v1.4e Standard LaTeX Graphics (DPC,SPQR) (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty Package: trig 2021/08/11 v1.11 sin cos tan (DPC) ) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg @@ -217,14 +225,18 @@ File: graphics.cfg 2016/06/04 v1.11 sample graphics configuration ) Package graphics Info: Driver file: pdftex.def on input line 107. ) -\Gin@req@height=\dimen157 -\Gin@req@width=\dimen158 +\Gin@req@height=\dimen159 +\Gin@req@width=\dimen160 ) (/usr/share/texlive/texmf-dist/tex/latex/doublestroke/dsfont.sty Package: dsfont 1995/08/01 v0.1 Double stroke roman fonts ) (/usr/share/texlive/texmf-dist/tex/latex/bookmark/bookmark.sty -Package: bookmark 2020-11-06 v1.29 PDF bookmarks (HO) +Package: bookmark 2023-12-10 v1.31 PDF bookmarks (HO) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty -Package: hyperref 2021-06-07 v7.00m Hypertext links for LaTeX +Package: hyperref 2024-01-20 v7.01h Hypertext links for LaTeX +(/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty +Package: kvdefinekeys 2019-12-19 v1.6 Define keys (HO) +) (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty +Package: pdfescape 2019/12/09 v1.15 Implements pdfTeX's escape features (HO) (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty Package: pdftexcmds 2020-06-27 v0.33 Utility functions of pdfTeX for LuaTeX (HO ) @@ -234,140 +246,142 @@ Package: infwarerr 2019/12/03 v1.5 Providing info/warning/error messages (HO) Package pdftexcmds Info: \pdf@primitive is available. Package pdftexcmds Info: \pdf@ifprimitive is available. Package pdftexcmds Info: \pdfdraftmode found. -) (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty -Package: kvdefinekeys 2019-12-19 v1.6 Define keys (HO) -) (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty -Package: pdfescape 2019/12/09 v1.15 Implements pdfTeX's escape features (HO) -) (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty +)) (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty Package: hycolor 2020-01-27 v1.10 Color options for hyperref/bookmark (HO) -) (/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty -Package: letltxmacro 2019/12/03 v1.6 Let assignment for LaTeX macros (HO) ) (/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty Package: auxhook 2019-12-17 v1.6 Hooks for auxiliary files (HO) +) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty +Package: nameref 2023-11-26 v2.56 Cross-referencing by name of section +(/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty +Package: refcount 2019/12/15 v3.6 Data extraction from label references (HO) +) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty +Package: gettitlestring 2019/12/15 v1.6 Cleanup title references (HO) ) -\@linkdim=\dimen159 -\Hy@linkcounter=\count277 -\Hy@pagecounter=\count278 +\c@section@level=\count279 +) +\@linkdim=\dimen161 +\Hy@linkcounter=\count280 +\Hy@pagecounter=\count281 (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def -File: pd1enc.def 2021-06-07 v7.00m Hyperref: PDFDocEncoding definition (HO) +File: pd1enc.def 2024-01-20 v7.01h Hyperref: PDFDocEncoding definition (HO) Now handling font encoding PD1 ... ... no UTF-8 mapping file for font encoding PD1 -) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref-langpatches.def -File: hyperref-langpatches.def 2021-06-07 v7.00m Hyperref: patches for babel la -nguages ) (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty Package: intcalc 2019/12/15 v1.3 Expandable calculations with integers (HO) -) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty -Package: etexcmds 2019/12/15 v1.7 Avoid name clashes with e-TeX commands (HO) ) -\Hy@SavedSpaceFactor=\count279 +\Hy@SavedSpaceFactor=\count282 (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def -File: puenc.def 2021-06-07 v7.00m Hyperref: PDF Unicode definition (HO) +File: puenc.def 2024-01-20 v7.01h Hyperref: PDF Unicode definition (HO) Now handling font encoding PU ... ... no UTF-8 mapping file for font encoding PU ) -Package hyperref Info: Option `unicode' set `true' on input line 4073. -Package hyperref Info: Hyper figures OFF on input line 4192. -Package hyperref Info: Link nesting OFF on input line 4197. -Package hyperref Info: Hyper index ON on input line 4200. -Package hyperref Info: Plain pages OFF on input line 4207. -Package hyperref Info: Backreferencing OFF on input line 4212. +Package hyperref Info: Option `unicode' set `true' on input line 4062. +Package hyperref Info: Hyper figures OFF on input line 4179. +Package hyperref Info: Link nesting OFF on input line 4184. +Package hyperref Info: Hyper index ON on input line 4187. +Package hyperref Info: Plain pages OFF on input line 4194. +Package hyperref Info: Backreferencing OFF on input line 4199. Package hyperref Info: Implicit mode ON; LaTeX internals redefined. -Package hyperref Info: Bookmarks ON on input line 4445. -\c@Hy@tempcnt=\count280 +Package hyperref Info: Bookmarks ON on input line 4446. +\c@Hy@tempcnt=\count283 (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty \Urlmuskip=\muskip17 Package: url 2013/09/16 ver 3.4 Verb mode for urls, etc. ) -LaTeX Info: Redefining \url on input line 4804. -\XeTeXLinkMargin=\dimen160 +LaTeX Info: Redefining \url on input line 4784. +\XeTeXLinkMargin=\dimen162 (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty Package: bitset 2019/12/09 v1.3 Handle bit-vector datatype (HO) (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty Package: bigintcalc 2019/12/15 v1.5 Expandable calculations on big integers (HO ) )) -\Fld@menulength=\count281 -\Field@Width=\dimen161 -\Fld@charsize=\dimen162 -Package hyperref Info: Hyper figures OFF on input line 6076. -Package hyperref Info: Link nesting OFF on input line 6081. -Package hyperref Info: Hyper index ON on input line 6084. -Package hyperref Info: backreferencing OFF on input line 6091. -Package hyperref Info: Link coloring OFF on input line 6096. -Package hyperref Info: Link coloring with OCG OFF on input line 6101. -Package hyperref Info: PDF/A mode OFF on input line 6106. -LaTeX Info: Redefining \ref on input line 6146. -LaTeX Info: Redefining \pageref on input line 6150. +\Fld@menulength=\count284 +\Field@Width=\dimen163 +\Fld@charsize=\dimen164 +Package hyperref Info: Hyper figures OFF on input line 6063. +Package hyperref Info: Link nesting OFF on input line 6068. +Package hyperref Info: Hyper index ON on input line 6071. +Package hyperref Info: backreferencing OFF on input line 6078. +Package hyperref Info: Link coloring OFF on input line 6083. +Package hyperref Info: Link coloring with OCG OFF on input line 6088. +Package hyperref Info: PDF/A mode OFF on input line 6093. (/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty Package: atbegshi-ltx 2021/01/10 v1.0c Emulation of the original atbegshi package with kernel methods ) -\Hy@abspage=\count282 -\c@Item=\count283 -\c@Hfootnote=\count284 +\Hy@abspage=\count285 +\c@Item=\count286 +\c@Hfootnote=\count287 ) Package hyperref Info: Driver (autodetected): hpdftex. (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def -File: hpdftex.def 2021-06-07 v7.00m Hyperref driver for pdfTeX +File: hpdftex.def 2024-01-20 v7.01h Hyperref driver for pdfTeX (/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty Package: atveryend-ltx 2020/08/19 v1.0a Emulation of the original atveryend pac kage with kernel methods ) -\Fld@listcount=\count285 -\c@bookmark@seq@number=\count286 +\Fld@listcount=\count288 +\c@bookmark@seq@number=\count289 (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty -Package: rerunfilecheck 2019/12/05 v1.9 Rerun checks for auxiliary files (HO) +Package: rerunfilecheck 2022-07-10 v1.10 Rerun checks for auxiliary files (HO) (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty Package: uniquecounter 2019/12/15 v1.4 Provide unlimited unique counter (HO) ) Package uniquecounter Info: New unique counter `rerunfilecheck' on input line 2 -86. +85. ) -\Hy@SectionHShift=\skip53 +\Hy@SectionHShift=\skip54 ) (/usr/share/texlive/texmf-dist/tex/latex/bookmark/bkm-pdftex.def -File: bkm-pdftex.def 2020-11-06 v1.29 bookmark driver for pdfTeX (HO) -\BKM@id=\count287 +File: bkm-pdftex.def 2023-12-10 v1.31 bookmark driver for pdfTeX and luaTeX (HO +) +\BKM@id=\count290 )) (/usr/share/texlive/texmf-dist/tex/latex/xurl/xurl.sty Package: xurl 2022/01/09 v 0.10 modify URL breaks +) +LaTeX Font Info: Trying to load font information for T1+lmr on input line 76 +. +(/usr/share/texmf/tex/latex/lm/t1lmr.fd +File: t1lmr.fd 2015/05/01 v1.6.1 Font defs for Latin Modern ) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def -File: l3backend-pdftex.def 2022-01-12 L3 backend support: PDF output (pdfTeX) -\l__color_backend_stack_int=\count288 -\l__pdf_internal_box=\box53 +File: l3backend-pdftex.def 2024-01-04 L3 backend support: PDF output (pdfTeX) +\l__color_backend_stack_int=\count291 +\l__pdf_internal_box=\box54 ) (./Projet.aux) \openout1 = `Projet.aux'. -LaTeX Font Info: Checking defaults for OML/cmm/m/it on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for OMS/cmsy/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for OT1/cmr/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for T1/cmr/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for TS1/cmr/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for OMX/cmex/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for U/cmr/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for PD1/pdf/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Font Info: Checking defaults for PU/pdf/m/n on input line 72. -LaTeX Font Info: ... okay on input line 72. -LaTeX Info: Redefining \microtypecontext on input line 72. -Package microtype Info: Applying patch `item' on input line 72. -Package microtype Info: Applying patch `toc' on input line 72. -Package microtype Info: Applying patch `eqnum' on input line 72. -Package microtype Info: Applying patch `footnote' on input line 72. +LaTeX Font Info: Checking defaults for OML/cmm/m/it on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for OMS/cmsy/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for OT1/cmr/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for T1/cmr/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for TS1/cmr/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for OMX/cmex/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for U/cmr/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for PD1/pdf/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Font Info: Checking defaults for PU/pdf/m/n on input line 76. +LaTeX Font Info: ... okay on input line 76. +LaTeX Info: Redefining \microtypecontext on input line 76. +Package microtype Info: Applying patch `item' on input line 76. +Package microtype Info: Applying patch `toc' on input line 76. +Package microtype Info: Applying patch `eqnum' on input line 76. +Package microtype Info: Applying patch `footnote' on input line 76. +Package microtype Info: Applying patch `verbatim' on input line 76. Package microtype Info: Generating PDF output. Package microtype Info: Character protrusion enabled (level 2). Package microtype Info: Using protrusion set `basicmath'. Package microtype Info: Automatic font expansion enabled (level 2), (microtype) stretch: 20, shrink: 20, step: 1, non-selected. Package microtype Info: Using default expansion set `alltext-nott'. -LaTeX Info: Redefining \showhyphens on input line 72. +LaTeX Info: Redefining \showhyphens on input line 76. Package microtype Info: No adjustment of tracking. Package microtype Info: No adjustment of interword spacing. Package microtype Info: No adjustment of character kerning. @@ -376,17 +390,17 @@ File: mt-cmr.cfg 2013/05/19 v2.2 microtype config. file: Computer Modern Roman (RS) ) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] -\scratchcounter=\count289 -\scratchdimen=\dimen163 -\scratchbox=\box54 -\nofMPsegments=\count290 -\nofMParguments=\count291 -\everyMPshowfont=\toks26 -\MPscratchCnt=\count292 -\MPscratchDim=\dimen164 -\MPnumerator=\count293 -\makeMPintoPDFobject=\count294 -\everyMPtoPDFconversion=\toks27 +\scratchcounter=\count292 +\scratchdimen=\dimen165 +\scratchbox=\box55 +\nofMPsegments=\count293 +\nofMParguments=\count294 +\everyMPshowfont=\toks28 +\MPscratchCnt=\count295 +\MPscratchDim=\dimen166 +\MPnumerator=\count296 +\makeMPintoPDFobject=\count297 +\everyMPtoPDFconversion=\toks29 ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty Package: epstopdf-base 2020-01-24 v2.11 Base part for package epstopdf Package epstopdf-base Info: Redefining graphics rule for `.eps' on input line 4 @@ -429,53 +443,41 @@ e * \@reversemarginfalse * (1in=72.27pt=25.4mm, 1cm=28.453pt) -Package hyperref Info: Link coloring OFF on input line 72. -(/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty -Package: nameref 2021-04-02 v2.47 Cross-referencing by name of section -(/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty -Package: refcount 2019/12/15 v3.6 Data extraction from label references (HO) -) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty -Package: gettitlestring 2019/12/15 v1.6 Cleanup title references (HO) -) -\c@section@level=\count295 -) -LaTeX Info: Redefining \ref on input line 72. -LaTeX Info: Redefining \pageref on input line 72. -LaTeX Info: Redefining \nameref on input line 72. +Package hyperref Info: Link coloring OFF on input line 76. LaTeX Font Info: Trying to load font information for OT1+lmr on input line 7 -4. +8. (/usr/share/texmf/tex/latex/lm/ot1lmr.fd -File: ot1lmr.fd 2009/10/30 v1.6 Font defs for Latin Modern +File: ot1lmr.fd 2015/05/01 v1.6.1 Font defs for Latin Modern ) LaTeX Font Info: Trying to load font information for OML+lmm on input line 7 -4. +8. (/usr/share/texmf/tex/latex/lm/omllmm.fd -File: omllmm.fd 2009/10/30 v1.6 Font defs for Latin Modern +File: omllmm.fd 2015/05/01 v1.6.1 Font defs for Latin Modern ) LaTeX Font Info: Trying to load font information for OMS+lmsy on input line -74. +78. (/usr/share/texmf/tex/latex/lm/omslmsy.fd -File: omslmsy.fd 2009/10/30 v1.6 Font defs for Latin Modern +File: omslmsy.fd 2015/05/01 v1.6.1 Font defs for Latin Modern ) LaTeX Font Info: Trying to load font information for OMX+lmex on input line -74. +78. (/usr/share/texmf/tex/latex/lm/omxlmex.fd -File: omxlmex.fd 2009/10/30 v1.6 Font defs for Latin Modern +File: omxlmex.fd 2015/05/01 v1.6.1 Font defs for Latin Modern ) LaTeX Font Info: External font `lmex10' loaded for size -(Font) <12> on input line 74. +(Font) <12> on input line 78. LaTeX Font Info: External font `lmex10' loaded for size -(Font) <8> on input line 74. +(Font) <8> on input line 78. LaTeX Font Info: External font `lmex10' loaded for size -(Font) <6> on input line 74. -LaTeX Font Info: Trying to load font information for U+msa on input line 74. +(Font) <6> on input line 78. +LaTeX Font Info: Trying to load font information for U+msa on input line 78. (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd File: umsa.fd 2013/01/14 v3.01 AMS symbols A ) (/usr/share/texlive/texmf-dist/tex/latex/microtype/mt-msa.cfg File: mt-msa.cfg 2006/02/04 v1.1 microtype config. file: AMS symbols (a) (RS) ) -LaTeX Font Info: Trying to load font information for U+msb on input line 74. +LaTeX Font Info: Trying to load font information for U+msb on input line 78. (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd File: umsb.fd 2013/01/14 v3.01 AMS symbols B @@ -494,210 +496,212 @@ LaTeX Font Info: External font `lmex10' loaded for size [1 -{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] - - +{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}{/usr/share/texmf/fonts/enc/ +dvips/lm/lm-ec.enc}] + File: Projet_files/figure-latex/unnamed-chunk-2-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-2-1.pdf used -on input line 114. -(pdftex.def) Requested size: 459.74442pt x 208.7922pt. +on input line 115. +(pdftex.def) Requested size: 469.75386pt x 216.80946pt. [2 <./Projet_files/figure-latex/unnamed-chunk-2-1.pdf>] - + File: Projet_files/figure-latex/unnamed-chunk-6-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-6-1.pdf used -on input line 164. -(pdftex.def) Requested size: 459.71637pt x 277.03432pt. - +on input line 162. +(pdftex.def) Requested size: 469.75386pt x 289.07928pt. + + File: Projet_files/figure-latex/unnamed-chunk-7-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-7-1.pdf used -on input line 197. -(pdftex.def) Requested size: 460.72012pt x 315.17673pt. +on input line 193. +(pdftex.def) Requested size: 469.75386pt x 325.2142pt. [3 <./Projet_files/figure-latex/unnamed-chunk-6-1.pdf>] [4 <./Projet_files/figu re-latex/unnamed-chunk-7-1.pdf>] - + File: Projet_files/figure-latex/unnamed-chunk-8-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-8-1.pdf used -on input line 241. -(pdftex.def) Requested size: 255.95561pt x 277.03432pt. +on input line 233. +(pdftex.def) Requested size: 469.75386pt x 289.07928pt. +[5 <./Projet_files/figure-latex/unnamed-chunk-8-1.pdf>] LaTeX Font Info: Trying to load font information for TS1+lmr on input line 2 -67. +57. (/usr/share/texmf/tex/latex/lm/ts1lmr.fd -File: ts1lmr.fd 2009/10/30 v1.6 Font defs for Latin Modern -) [5 <./Projet_files/figure-latex/unnamed-chunk-8-1.pdf>] -LaTeX Font Info: Trying to load font information for T1+lmtt on input line 2 -86. -(/usr/share/texmf/tex/latex/lm/t1lmtt.fd -File: t1lmtt.fd 2009/10/30 v1.6 Font defs for Latin Modern +File: ts1lmr.fd 2015/05/01 v1.6.1 Font defs for Latin Modern ) - +LaTeX Font Info: Trying to load font information for T1+lmtt on input line 2 +75. +(/usr/share/texmf/tex/latex/lm/t1lmtt.fd +File: t1lmtt.fd 2015/05/01 v1.6.1 Font defs for Latin Modern +) + File: Projet_files/figure-latex/unnamed-chunk-11-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-11-1.pdf used - on input line 350. -(pdftex.def) Requested size: 469.74974pt x 230.24353pt. -[6] - File: Projet_files/figure-latex/unnamed-chunk-12-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-12-1.pdf used - on input line 368. -(pdftex.def) Requested size: 469.75067pt x 263.3959pt. + on input line 356. +(pdftex.def) Requested size: 469.75385pt x 264.23653pt. [7 <./Projet_files/figure-latex/unnamed-chunk-11-1.pdf>] - + File: Projet_files/figure-latex/unnamed-chunk-13-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-13-1.pdf used - on input line 454. -(pdftex.def) Requested size: 351.32234pt x 313.17877pt. -[8 <./Projet_files/figure-latex/unnamed-chunk-12-1.pdf>] [9 <./Projet_files/fig -ure-latex/unnamed-chunk-13-1.pdf>] - + on input line 439. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. +[8 <./Projet_files/figure-latex/unnamed-chunk-12-1.pdf>] + File: Projet_files/figure-latex/unnamed-chunk-14-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-14-1.pdf used - on input line 471. -(pdftex.def) Requested size: 351.32234pt x 313.17877pt. - + on input line 456. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. + File: Projet_files/figure-latex/unnamed-chunk-15-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-15-1.pdf used - on input line 489. -(pdftex.def) Requested size: 453.6939pt x 315.17673pt. - + on input line 473. +(pdftex.def) Requested size: 469.75386pt x 325.2142pt. + File: Projet_files/figure-latex/unnamed-chunk-16-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-16-1.pdf used - on input line 507. -(pdftex.def) Requested size: 351.32234pt x 313.17877pt. - + on input line 490. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. +[9 <./Projet_files/figure-latex/unnamed-chunk-13-1.pdf>] [10 <./Projet_files/fi +gure-latex/unnamed-chunk-14-1.pdf>] [11 <./Projet_files/figure-latex/unnamed-ch +unk-15-1.pdf>] + File: Projet_files/figure-latex/unnamed-chunk-17-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-17-1.pdf used - on input line 519. -(pdftex.def) Requested size: 345.2944pt x 315.18153pt. -[10 <./Projet_files/figure-latex/unnamed-chunk-14-1.pdf>] [11 <./Projet_files/f -igure-latex/unnamed-chunk-15-1.pdf>] [12 <./Projet_files/figure-latex/unnamed-c -hunk-16-1.pdf>] [13 <./Projet_files/figure-latex/unnamed-chunk-17-1.pdf>] - + on input line 502. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. + File: Projet_files/figure-latex/unnamed-chunk-18-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-18-1.pdf used - on input line 542. -(pdftex.def) Requested size: 267.02126pt x 267.02126pt. - + on input line 524. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. +[12 <./Projet_files/figure-latex/unnamed-chunk-16-1.pdf>] [13 <./Projet_files/f +igure-latex/unnamed-chunk-17-1.pdf>] [14 <./Projet_files/figure-latex/unnamed-c +hunk-18-1.pdf>] + File: Projet_files/figure-latex/unnamed-chunk-20-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-20-1.pdf used - on input line 573. -(pdftex.def) Requested size: 351.32234pt x 313.17877pt. -[14 <./Projet_files/figure-latex/unnamed-chunk-18-1.pdf>] [15 <./Projet_files/f -igure-latex/unnamed-chunk-20-1.pdf>] - + on input line 552. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. + File: Projet_files/figure-latex/unnamed-chunk-21-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-21-1.pdf used - on input line 587. -(pdftex.def) Requested size: 469.75583pt x 298.58974pt. -[16 <./Projet_files/figure-latex/unnamed-chunk-21-1.pdf>] - + on input line 566. +(pdftex.def) Requested size: 469.76265pt x 301.99028pt. +[15 <./Projet_files/figure-latex/unnamed-chunk-20-1.pdf>] [16 <./Projet_files/f +igure-latex/unnamed-chunk-21-1.pdf>] + File: Projet_files/figure-latex/unnamed-chunk-22-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-22-1.pdf used - on input line 638. -(pdftex.def) Requested size: 453.6939pt x 495.85129pt. - + on input line 616. +(pdftex.def) Requested size: 469.75386pt x 505.88875pt. + File: Projet_files/figure-latex/unnamed-chunk-23-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-23-1.pdf used - on input line 667. -(pdftex.def) Requested size: 351.32234pt x 313.17877pt. - + on input line 643. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. + File: Projet_files/figure-latex/unnamed-chunk-24-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-24-1.pdf used - on input line 683. -(pdftex.def) Requested size: 345.2944pt x 315.18153pt. - + on input line 659. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. + File: Projet_files/figure-latex/unnamed-chunk-25-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-25-1.pdf used - on input line 692. -(pdftex.def) Requested size: 338.27322pt x 300.12967pt. + on input line 668. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. -LaTeX Warning: Reference `fig:proj2' on page 17 undefined on input line 703. +LaTeX Warning: Reference `fig:proj2' on page 17 undefined on input line 678. + +[17] [18 <./Projet_files/figure-latex/unnamed-chunk-22-1.pdf>] [19 <./Projet_fi +les/figure-latex/unnamed-chunk-23-1.pdf>] [20 <./Projet_files/figure-latex/unna +med-chunk-24-1.pdf>] [21 <./Projet_files/figure-latex/unnamed-chunk-25-1.pdf>] + - File: Projet_files/figure-latex/unnamed-chunk-26-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-26-1.pdf used - on input line 720. -(pdftex.def) Requested size: 469.75874pt x 209.52307pt. -[17] [18 <./Projet_files/figure-latex/unnamed-chunk-22-1.pdf>] [19 <./Projet_fi -les/figure-latex/unnamed-chunk-23-1.pdf>] [20 <./Projet_files/figure-latex/unna -med-chunk-24-1.pdf>] [21 <./Projet_files/figure-latex/unnamed-chunk-25-1.pdf> < -./Projet_files/figure-latex/unnamed-chunk-26-1.pdf>] + on input line 698. +(pdftex.def) Requested size: 469.76045pt x 211.3922pt. -LaTeX Warning: Reference `fig:intra2' on page 22 undefined on input line 755. +LaTeX Warning: Reference `fig:intra2' on page 22 undefined on input line 731. - + File: Projet_files/figure-latex/unnamed-chunk-27-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-27-1.pdf used - on input line 764. -(pdftex.def) Requested size: 345.2944pt x 315.18153pt. - + on input line 740. +(pdftex.def) Requested size: 361.34912pt x 325.2142pt. + + File: Projet_files/figure-latex/unnamed-chunk-28-1.pdf Graphic file (type pdf) Package pdftex.def Info: Projet_files/figure-latex/unnamed-chunk-28-1.pdf used - on input line 771. -(pdftex.def) Requested size: 469.75874pt x 209.52307pt. -[22 <./Projet_files/figure-latex/unnamed-chunk-27-1.pdf>] [23 <./Projet_files/f -igure-latex/unnamed-chunk-28-1.pdf>] (./Projet.aux) + on input line 751. +(pdftex.def) Requested size: 469.76045pt x 211.3922pt. +[22 <./Projet_files/figure-latex/unnamed-chunk-26-1.pdf>] [23 <./Projet_files/f +igure-latex/unnamed-chunk-27-1.pdf> <./Projet_files/figure-latex/unnamed-chunk- +28-1.pdf>] [24] (./Projet.aux) + *********** +LaTeX2e <2023-11-01> patch level 1 +L3 programming layer <2024-01-22> + *********** LaTeX Warning: There were undefined references. ) Here is how much of TeX's memory you used: - 13640 strings out of 478287 - 221098 string characters out of 5849289 - 550110 words of memory out of 5000000 - 31365 multiletter control sequences out of 15000+600000 - 520273 words of font info for 128 fonts, out of 8000000 for 9000 - 1141 hyphenation exceptions out of 8191 - 74i,6n,77p,1149b,397s stack positions out of 5000i,500n,10000p,200000b,80000s -{/usr/share/texmf/fonts/enc/dvips/lm/lm-ec.enc}{/usr/share/texmf/fonts/enc/dv -ips/lm/lm-ts1.enc} -Output written on Projet.pdf (23 pages, 623810 bytes). + 13679 strings out of 476182 + 219350 string characters out of 5795595 + 1940975 words of memory out of 5000000 + 35273 multiletter control sequences out of 15000+600000 + 609846 words of font info for 137 fonts, out of 8000000 for 9000 + 14 hyphenation exceptions out of 8191 + 83i,6n,93p,1149b,481s stack positions out of 10000i,1000n,20000p,200000b,200000s + +Output written on Projet.pdf (24 pages, 643692 bytes). PDF statistics: - 532 PDF objects out of 1000 (max. 8388607) - 428 compressed objects within 5 object streams - 112 named destinations out of 1000 (max. 500000) - 28930 words of extra memory for PDF output out of 29859 (max. 10000000) + 464 PDF objects out of 1000 (max. 8388607) + 379 compressed objects within 4 object streams + 81 named destinations out of 1000 (max. 500000) + 28938 words of extra memory for PDF output out of 29859 (max. 10000000) diff --git a/Projet.pdf b/Projet.pdf index aee38b7..31b6b2b 100644 Binary files a/Projet.pdf and b/Projet.pdf differ