First corrections following E. Marcon comments

manuscript/.gitignore

@@ -4,3 +4,4 @@ main.blg
 main.log
 oldsty
 SimulationRls.R
+main_manuscrit.pdf

manuscript/bioinfo.log

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+This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2018) (preloaded format=pdflatex 2019.1.10)  26 SEP 2019 17:35
 entering extended mode
  restricted \write18 enabled.
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@@ -167,12 +167,24 @@ Overfull \hbox (20.0pt too wide) in paragraph at lines 25--26
 Package: inputenc 2018/04/06 v1.3b Input encoding file
 \inpenc@prehook=\toks14
 \inpenc@posthook=\toks15
-) (./crop.sty
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-\CROP@height=\dimen103
+)
+(/usr/local/texlive/2018/texmf-dist/tex/latex/crop/crop.sty
+Package: crop 2003/05/20 v1.9 crop marks (mf)
+\stockwidth=\dimen102
+\stockheight=\dimen103
 \CROP@index=\count80
 
+(/usr/local/texlive/2018/texmf-dist/tex/latex/graphics/color.sty
+Package: color 2016/07/10 v1.1e Standard LaTeX Color (DPC)
+
+(/usr/local/texlive/2018/texmf-dist/tex/latex/graphics-cfg/color.cfg
+File: color.cfg 2016/01/02 v1.6 sample color configuration
+)
+Package color Info: Driver file: pdftex.def on input line 147.
+
+(/usr/local/texlive/2018/texmf-dist/tex/latex/graphics-def/pdftex.def
+File: pdftex.def 2018/01/08 v1.0l Graphics/color driver for pdftex
+))
 (/usr/local/texlive/2018/texmf-dist/tex/latex/graphics/graphics.sty
 Package: graphics 2017/06/25 v1.2c Standard LaTeX Graphics (DPC,SPQR)
 
@@ -183,17 +195,13 @@ Package: trig 2016/01/03 v1.10 sin cos tan (DPC)
 File: graphics.cfg 2016/06/04 v1.11 sample graphics configuration
 )
 Package graphics Info: Driver file: pdftex.def on input line 99.
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-(/usr/local/texlive/2018/texmf-dist/tex/latex/graphics-def/pdftex.def
-File: pdftex.def 2018/01/08 v1.0l Graphics/color driver for pdftex
-))
+)
 \CROP@offset=\count81
-Package crop Info: Local config file crop.cfg used on input line 344.
+Package crop Info: Local config file crop.cfg used on input line 605.
 
-(./crop.cfg))
-Package crop Info: using pdf(la)tex graphics driver on input line 31.
- (./graphicx.sty
-Package: graphicx 1999/02/16 v1.0f Enhanced LaTeX Graphics (DPC,SPQR)
+(/usr/local/texlive/2018/texmf-dist/tex/xelatex/xetexconfig/crop.cfg))
+(/usr/local/texlive/2018/texmf-dist/tex/latex/graphics/graphicx.sty
+Package: graphicx 2017/06/01 v1.1a Enhanced LaTeX Graphics (DPC,SPQR)
 
 (/usr/local/texlive/2018/texmf-dist/tex/latex/graphics/keyval.sty
 Package: keyval 2014/10/28 v1.15 key=value parser (DPC)
@@ -469,20 +477,15 @@ LaTeX Font Info:    Redeclaring font encoding OMS on input line 713.
 \mathdisplay@stack=\toks21
 LaTeX Info: Redefining \[ on input line 2817.
 LaTeX Info: Redefining \] on input line 2818.
-) (./array.sty
-Package: array 1998/05/13 v2.3m Tabular extension package (FMi)
+) (/usr/local/texlive/2018/texmf-dist/tex/latex/tools/array.sty
+Package: array 2018/04/07 v2.4g Tabular extension package (FMi)
 \col@sep=\dimen115
+\ar@mcellbox=\box28
 \extrarowheight=\dimen116
 \NC@list=\toks22
 \extratabsurround=\skip44
 \backup@length=\skip45
-) (./color.sty
-Package: color 1999/02/16 v1.0i Standard LaTeX Color (DPC)
-
-(/usr/local/texlive/2018/texmf-dist/tex/latex/graphics-cfg/color.cfg
-File: color.cfg 2016/01/02 v1.6 sample color configuration
-)
-Package color Info: Driver file: pdftex.def on input line 125.
+\ar@cellbox=\box29
 )
 (/usr/local/texlive/2018/texmf-dist/tex/latex/amsfonts/amssymb.sty
 Package: amssymb 2013/01/14 v3.01 AMS font symbols
@@ -1250,10 +1253,10 @@ l.56 ...\leftrightharpoons}  {\mathrel}{AMSa}{"0B}
                                                   
 (That makes 100 errors; please try again.) 
 Here is how much of TeX's memory you used:
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- 15663 string characters out of 6129622
- 79994 words of memory out of 5000000
- 5217 multiletter control sequences out of 15000+600000
+ 1339 strings out of 492649
+ 16965 string characters out of 6129622
+ 80604 words of memory out of 5000000
+ 5259 multiletter control sequences out of 15000+600000
  3640 words of font info for 14 fonts, out of 8000000 for 9000
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  27i,1n,27p,232b,35s stack positions out of 5000i,500n,10000p,200000b,80000s