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annotate mqppep_anova_preamble.tex @ 33:23a08db943f6 draft default tip

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit 5a40fd5ab46727e07c20348f194813b69d582d24
author eschen42
date Mon, 27 Mar 2023 20:56:50 +0000
parents 5b8e15b2a67c
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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1 % -----------------------------------------------------------------------------
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2 % preamble includes BEGIN
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3 % -----------------------------------------------------------------------------
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4 \usepackage{longtable, lscape, ifthen}
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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5
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6 % -----------------------------------------------------------------------------
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7 % put \T or \B at the ends of lines to add space for super- or sub-
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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8 % scripts above or below, respectively
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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9 % ref: ?
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10 \newcommand\T{\rule{0pt}{2.6ex}} % Top strut
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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11 \newcommand\B{\rule[-1.2ex]{0pt}{0pt}} % Bottom strut
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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13 % -----------------------------------------------------------------------------
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14 % horizontal line commands; ideally, these would compute the width rather than
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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15 % hardcoding it
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16 % ref: ?
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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17 \def\hlinport{\makebox[6.5in]{\hrulefill} \\} % hline outside tabular, port
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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18 \def\hlinlscp{\makebox[9in]{\hrulefill} \\} % hline outside tabular, lndscp
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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19 %ref: https://stackoverflow.com/a/67335722
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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20 \def\hlinnotab{\\makebox[1.0\linewidth]{\hrulefill}\\[1ex]}
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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22 % -----------------------------------------------------------------------------
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23 % ref: https://latex.org/forum/viewtopic.php?p=23257#p23257
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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24 \newcommand{\nonemptyline}[1]{%
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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25 %\ifthenelse{\equal{#1}{}}{do when empty}{do when not empty}
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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26 \ifthenelse{\equal{#1}{}}{}{#1}%
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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27 }
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5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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29 % -----------------------------------------------------------------------------
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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30 % For RMarkdown, I needed to put this into a preamble.tex file and include it
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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31 % via `output: pdf_document: includes: in_header: preamble.tex` because
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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32 % Markdown was expanding the \tabfill command before writing the tex file
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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33 % ref: https://tex.stackexchange.com/a/119477 in reply to
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34 % https://tex.stackexchange.com/questions/119473/tabbing-and-line-wrapping
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35 \makeatletter
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36 \newlength\tdima
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37 \newcommand\tabfill[1]{\setlength\tdima{\linewidth}%
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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38 \addtolength\tdima{\@totalleftmargin}%
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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39 \addtolength\tdima{-\dimen\@curtab}%
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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40 \parbox[t]{\tdima}{#1\ifhmode\strut\fi}}
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41 %\parbox[t]{\tdima}{\nonemptyline{#1}\ifhmode\strut\fi}}
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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42 \makeatother
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43 %
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44 % Create a tabbing environment in which to use tabfill
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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45 % param #1 is specified the tabstops (as expected by the tabbing
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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46 % environment) and is provided in braces after invocation, e.g.:
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47 % \begin{tabwrap}{\hspace{1.25in}\=}
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48 % param #2 is the contents of the envirnent
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49 \newenvironment{tabwrap}[2]{%
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50 \begin{tabbing}#1\kill\ignorespaces%
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51 #2}%
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52 {\end{tabbing}%
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53 }
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54
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55 % -----------------------------------------------------------------------------
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56 % Make a caption for a non-floating figure or table, e.g.,
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57 % ref: https://github.com/rf-latex/capt-of/blob/main/capt-of.dtx
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58 % https://texfaq.org/FAQ-figurehere
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59 %
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60 % Usage: \captionof{*type*}[*move*]{*caption*}
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61 % *type* is `figure` or `table` (or some type you've
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62 % defined with the`float` package)
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63 % *move* is the optional moving argument *caption* (the thing
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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64 % that goes to the list of tables/figures)
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65 % *caption* is the text of the caption
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66 \makeatletter
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67 \newcommand\captionof[1]{\def\@captype{#1}\caption}
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68 \makeatother
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69 %
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70 %%ACE \captionof{table}{Hello world from line 210}
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71 % To circumvent mis-numbering of interleaved float and non-float table
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72 % and figure captions, it is necessary to include the `perpage` package and
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73 % "make them sorted" (FFI see https://texfaq.org/FAQ-figurehere)
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74 % I (ACE) don't know how to get this package to include:
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75 % \usepackage{bigfoot}
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76 % so I included the source instead:
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77 \makeatletter
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78 \input{perpage.tex}
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79 \makeatother
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80 %
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81 % Ensure that table numbers are sorted
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82 \MakeSorted{table}
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83 % Ensure that figure numbers are sorted
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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84 \MakeSorted{figure}
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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85
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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86 % -----------------------------------------------------------------------------
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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87
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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88 % -----------------------------------------------------------------------------
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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89 % preamble includes END
5b8e15b2a67c planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit e0b80550743f634282b4b4348b75e6f172dc1488
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90 % -----------------------------------------------------------------------------