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authorKarl Berry <karl@freefriends.org>2007-02-22 19:55:42 +0000
committerKarl Berry <karl@freefriends.org>2007-02-22 19:55:42 +0000
commitf8e28122b906902277cfad964b78f7c4cbb83c20 (patch)
tree9d4da0d08aebb73a7b7863d902d9bd11c7a01999 /Master/texmf-dist/source/latex
parent2f5894cda3e5c9c65f3a7c15097ccab670381247 (diff)
texshadow 1.16 (19feb07)
git-svn-id: svn://tug.org/texlive/trunk@3983 c570f23f-e606-0410-a88d-b1316a301751
Diffstat (limited to 'Master/texmf-dist/source/latex')
-rw-r--r--Master/texmf-dist/source/latex/texshade/texshade.dtx1008
-rw-r--r--Master/texmf-dist/source/latex/texshade/texshade.ins4
2 files changed, 853 insertions, 159 deletions
diff --git a/Master/texmf-dist/source/latex/texshade/texshade.dtx b/Master/texmf-dist/source/latex/texshade/texshade.dtx
index 50faa1265d9..8bbff957b77 100644
--- a/Master/texmf-dist/source/latex/texshade/texshade.dtx
+++ b/Master/texmf-dist/source/latex/texshade/texshade.dtx
@@ -10,7 +10,7 @@
% `texshade.txt' for further information!
%
%
-% Copyright (C) 1999-2006 Eric Beitz
+% Copyright (C) 1999-2007 Eric Beitz
% See the file texshade.txt
%
% \fi
@@ -265,6 +265,24 @@
% not needed anymore.
% }
%
+% \changes{1.16}{2007-02-18}{%
+% Corrections: TeXshade crashed when doing conservation
+% calculations with sequences containing untypical
+% residues symbols, such as X. Fixed.
+% Shading of the reference sequence in diverse mode
+% is now achieved with `conservedresidues' and
+% `allmatchresidues' instead of `nomatchresidues'.
+% Introduction: `exportconsensus' produces a pymol script for
+% coloring according to the TeXshade conservation
+% calculation;
+% `namerulerpos' allows one to change labels of
+% the ruler individually;
+% `hideblock' allows one to hide parts of the
+% alignment (still in experimental stage!).
+% New home: TeXshade, TeXtopo, and BioTeX have a new home:
+% `www.pharmazie.uni-kiel.de/chem/' - click on `Beitz'
+% }
+%
%
% \CharacterTable
% {Upper-case \A\B\C\D\E\F\G\H\I\J\K\L\M\N\O\P\Q\R\S\T\U\V\W\X\Y\Z
@@ -296,14 +314,14 @@
% shading and labeling multiple sequence alignments using \LaTeXe.
% \textit{Bioinformatics}: \textbf{16}, 135--139.}\\[2mm] \large
% Typesetting \\ nucleotide and peptide alignments}
-% \author{Eric Beitz\footnote{University of T\"ubingen,
-% Pharmaceutical Chemistry, Morgenstelle 8,
-% D-72076 T\"ubingen, Germany;
-% send electronic mail to \texttt{eric.beitz@uni-tuebingen.de};
+% \author{Eric Beitz\footnote{University of Kiel,
+% Pharmaceutical Chemistry, Gutenbergstrasse 8,
+% D-24118 Kiel, Germany;
+% send electronic mail to \texttt{ebeitz@pharmazie.uni-kiel.de};
% for further information, updates and on-line documentation
% see my homepage at
-% \texttt{http://homepages.uni-tuebingen.de/beitz/}}}
-% \date{v1.15; 2006/06/27\\}
+% \texttt{www.pharmazie.uni-kiel.de/chem/} -- click on `Beitz'}}
+% \date{v1.16; 2007/02/18\\}
% \maketitle
% \begin{abstract}
% Setting alignments of nucleotides and peptides for publication
@@ -380,6 +398,27 @@
%
% \subsection{Version History}
%
+% \textbf{v1.16 2007/02/18}
+% \medskip
+%
+% \emph{Correction:} \TeXshade{} crashed when calculating conservation
+% using sequences with untypical residue characters, such as "X".
+% Fixed. The reference sequence in diverse mode can now be shaded with
+% |\conservedresidues| and, if active, |\allmatchresidues|.\footnote{For this
+% and suggesting |namerulerpos| credit to Marco Pasi.}
+%
+% \emph{Introduction:}\footnote{Both extensions were suggested by Phillip Hahn.}
+% (a) A command was introduced, i.e. |\exportconsensus|
+% which produces a pymol script file for coloring a 3D model according to
+% \TeXshade{}s conservation calculation. (b) With |namerulerpos| labels of the
+% ruler can be exchanged by a string. (c) Various parts of the alignment
+% can now be hidden by |\hideblock|.
+%
+% \emph{New home:} \TeXshade, \TeXtopo, and \BioTeX{} have a new home:
+% |www.pharmazie.uni-kiel.de/chem/Prof_Beitz/biotex.html|.
+% \bigskip
+%
+%
% \textbf{v1.15 2006/06/27}
% \medskip
%
@@ -392,7 +431,7 @@
% \medskip
%
% \emph{Introduction:} In order to better recognize relevant positions
-% in a subfamily logo [13], a bit-value can now be set by |\relevance|
+% in a subfamily logo [14], a bit-value can now be set by |\relevance|
% above which a deviation is considered relevant. Such positions
% can be labeled with a symbol by |\showrelevance| and hidden
% by |\hiderelevance|.
@@ -421,7 +460,7 @@
% or alone without any alignment sequences. (d) The ruler numbering
% can be rotated in order to make labeling of every position possible.
% (e) A new way to visualize subfamily characteristics has been
-% implemented, i.e. subfamily logos (p.\pageref{Lshowsubfamilylogo}) [13].
+% implemented, i.e. subfamily logos (p.\pageref{Lshowsubfamilylogo}) [14].
% \bigskip
%
% \textbf{v1.12 2005/09/20}
@@ -993,7 +1032,8 @@
% \featureslarge
% \feature{top}{1}{77..109}{}{AQP2 species variants}
% \namesrm\namessl
-% \hidenumbering\showruler{top}{1}
+% \hidenumbering
+% \showruler{top}{1}
% \shownames{left}
% \nameseq{1}{Bos taurus}
% \nameseq{2}{Canis familiaris}
@@ -1177,10 +1217,17 @@
% \item [\textbf{rasmol}:] similar to |[chemical]| but with
% shading following the rasmol
% color scheme \label{ras}
+% \bigskip
+%
+% \bigskip
%
% \begin{texshade}{AQPpro.MSF}
% \shadingmode[rasmol]{functional}
% \setends{1}{138..170}
+% \showruler{top}{1}
+% \rulersteps{1}
+% \namerulerpos{150}{site A[Red]}
+% \namerulerpos{155}{site B[Green]}
% \shadeallresidues
% \showlegend
% \end{texshade}
@@ -1192,6 +1239,10 @@
% \begin{texshade}{AQPpro.MSF}
% \shadingmode[rasmol]{functional}
% \setends{1}{138..170}
+% \showruler{bottom}{1}
+% \rulersteps{1}
+% \namerulerpos{150}{site A[Red]}
+% \namerulerpos{155}{site B[Green]}
% \shadeallresidues
% \showlegend
% \end{texshade}
@@ -1499,7 +1550,7 @@
% \label{sublogo}
%
% The following output is derived from the calculation of a
-% subfamily logo [13]. Such logos display relevant deviations of a
+% subfamily logo [14]. Such logos display relevant deviations of a
% subfamily compared to the remaining set of sequences. Here,
% typical residues of AQP3 are shown (upright) which deviate
% from the remaining four aquaporins of this alignment (upside-down).
@@ -2294,7 +2345,12 @@
% If a color scale is named the consensus will be shaded according
% to the level of sequence conservation. For an example see page
% \pageref{shadecons}. You can find more information on color scales
-% on page \pageref{Lgraphs}.
+% on page \pageref{Lgraphs}. These scales can be exported as a Pymol
+% [8] \label{Lexportconsensus}
+% script by |\exportconsensus[|\meta{filename}|]{|\meta{seqref}|}|.
+% If no \meta{filename} is specified |export.txt| will be used. The
+% generated file can be opened in Pymol in order to shade a 3D model
+% of the sequence \meta{seqref}.
%
% To hide the consensus use
% |\hideconsensus|. The consensus
@@ -2484,7 +2540,7 @@
%
% Subfamily logos provide a novel tool to visualize
% subfamily-specific sequence deviations at alignment positions with
-% a high information content in an intuitive way [13].
+% a high information content in an intuitive way [14].
%
% This is achieved by subtracting from the frequency of a residue within
% a pre-defined subset of sequences, i.\,e. a subfamily, the frequency of
@@ -2683,6 +2739,7 @@
% \label{Lshowruler}\label{Lhideruler}
% \label{Lrulersteps}\label{Lrulercolor}
% \label{Lrotateruler}\label{Lunrotateruler}
+% \label{Lnamerulerpos}
% Another possibility to label sequence positions is to switch
% on a ruler on the top or at the bottom of the sequence block
% using \label{ruler}
@@ -2697,7 +2754,10 @@
% and |\unrotateruler| this can be done and undone manually.
% In order to change the
% ruler color use the optional parameter or the command
-% |\rulercolor{|\meta{color}|}|.
+% |\rulercolor{|\meta{color}|}|. Also, the label and its color at individual
+% ruler positions can be changed by the user to a string using
+% |\namerulerpos{|\meta{number}|}{|\meta{text}|[|\meta{color}|]}|
+% (see example on p.\ \pageref{ras}).
%
% \label{Lgapchar}\label{Lgaprule}
% \label{Lgapcolors}\label{gapchar}
@@ -3009,6 +3069,48 @@
% With the optional parameter the default line thickness of the frame can
% be changed, example: |\frameblock{1}{10..20,50..70}{Red[2pt]}|
%
+% \subsubsection{Hiding blocks of the alignment (still experimental!)}
+%
+% \label{Lhideblock}
+% \textit{Be aware that this feature is still highly experimental. There are many instances
+% in which this command fails. Please be patient until everything is fixed.}
+%
+% Complete blocks of the alignment incl. all sequences, consensus and labels
+% can be hidden, e.g.\ to eliminate uninteresting alignment stretches or
+% to condense the output, by:
+% \medskip
+%
+% \quad|\hideblock{|\meta{seqref}|}{|\meta{start1}..\meta{stop1}|,|\meta{start2}..\meta{stop2}|,|
+%
+% \hfill\ldots|,|\meta{start n}..\meta{stop n}|}{|\meta{label}|[|\meta{color}|]}{|\meta{text}|[|\meta{color}|]}|
+% \medskip
+%
+% Here, \meta{seqref} denotes the sequence by its number of name
+% which is used to define the alignment positions \meta{start1}..\meta{stop1}
+% etc.\ to be hidden. A symbol can be displayed as a
+% \meta{label} of the alignment deletion, i.e.\ |circ|, |triangle|, |square|,
+% or |none|. A color can be assigned to the label by the optional parameter
+% \meta{color}. Further, an explanatory text can be displayed above the symbol
+% \meta{text} with an optional \meta{color}. For how to change the appearance
+% of the font see p.\pageref{Lsetfont}.
+% \medskip
+%
+% Examples:
+%
+% \quad|\hideblock{1}{20..80}{circ}{condensed![Red]}|
+%
+% \quad|\hideblock{1}{20..80}{triangle[Red]}{hidden block}|
+%
+% \quad|\hideblock{AQP1}{20..80}{none[Blue]}{$\Delta$20-80)}|
+%
+% \quad|\hideblock{consensus}{20..80,100..150,200..220}{none}{}|
+% \medskip
+%
+% It may be advisable to show a ruler (probably single-stepped, see p.\pageref{Lshowruler}) to
+% further indicate the alignment deletion. Make sure that there are no
+% feature definitions (also frames, emphs, shades, tints) starting or
+% ending within the hidden block. This may cause messy sequence labels.
+%
% \subsubsection{Graphical labeling of sequence features}
%
% \label{feature}
@@ -3489,7 +3591,7 @@
% \label{LincludePHDsec}
% \label{LincludePHDtopo}
% \label{LincludeHMMTOP}
-% The DSSP [8], STRIDE [9], PHD [10] and HMMTOP [11] algorithms produce
+% The DSSP [9], STRIDE [10], PHD [11] and HMMTOP [12] algorithms produce
% secondary protein structure predictions. PHD files contain both,
% secondary structure information and topology data. This information can be
% displayed in an alignment by one of the commands:
@@ -3760,7 +3862,8 @@
%
% The first parameter selects the text whose style is to be
% changed. Possible first parameters are
-% |numbering|, |names|, |residues|, |features|, |featurestyles| and |legend|.
+% |numbering|, |names|, |residues|, |features|, |featurestyles|,
+% |hideblock|, and |legend|.
% \medskip
%
% The style is set by the second parameter:
@@ -3838,7 +3941,7 @@
% Corresponding sets are provided for the
% numbering (|\numberingrm| etc.),
% featurestyles (|featurestylesrm| etc.), names (|\namesrm| etc.),
-% residues (|\residuesrm| etc.) and
+% residues (|\residuesrm| etc.), hideblock labels (|hideblockrm| etc.), and
% legend texts (|legendrm| etc.).
%
%
@@ -3869,7 +3972,7 @@
% |\ttdefault|.
%
% For further information see \textsc{Tomas Rokicki}'s
-% |dvips| manual [12].
+% |dvips| manual [13].
%
%
%
@@ -4326,6 +4429,7 @@
% \quad|\conservedresidues{|\meta{res.col.}|}{|\meta{shad.col.}|}{|\meta{case}|}{|\meta{style}|}|
%
% \quad|\allmatchresidues{|\meta{res.col.}|}{|\meta{shad.col.}|}{|\meta{case}|}{|\meta{style}|}|
+% \newpage
%
% \quad|\funcshadingstyle{|\meta{residue}|}{|\meta{res.col.}|}{|\meta{shad.color}|}|
%
@@ -4373,7 +4477,10 @@
%
% \quad|\showconsensus[|\meta{color/scale}|[,|\meta{color/scale}|]]{|\meta{top/bot.}|}|
% \hfill[\pageref{Lshowconsensus}]
-%
+%
+% \quad|\exportconsensus[|\meta{filename}|]{|\meta{seqref}|}|
+% \hfill[\pageref{Lexportconsensus}]
+%
% \quad|\hideconsensus|
% \hfill[\pageref{Lhideconsensus}]
%
@@ -4536,6 +4643,9 @@
%
% \quad|\unrotateruler|
% \hfill[\pageref{Lunrotateruler}]
+%
+% \quad|\namerulerpos{|\meta{number}|}{|\meta{text}|[|\meta{color}|]}|
+% \hfill[\pageref{Lnamerulerpos}]
%
% \quad|\gapchar{|\meta{symbol}|}|
% \qquad (incl. |rule|) \hfill [\pageref{Lgapchar}]
@@ -4589,7 +4699,7 @@
%
% \quad|\orderseqs{|\meta{seq1}|,|\meta{seq2}|,|\ldots|,|\meta{seq n}|}|
% \hfill[\pageref{Lorderseqs}]
-%
+%
% \vspace{1.5\baselineskip}
%
% \textbf{Residues per line and further settings}
@@ -4645,6 +4755,8 @@
% \hfill\ldots|,|\meta{start n}..\meta{stop n}|}{|\meta{res.col.}|}{|\meta{shad.col.}|}|
% [\pageref{Lshaderegion}]
%
+% \newpage
+%
% \quad|\shadeblock{|\meta{seqref}|}{|\meta{start1}..\meta{stop1}|,|\meta{start2}..\meta{stop2}|,|
%
% \hfill\ldots|,|\meta{start n}..\meta{stop n}|}{|\meta{res.col.}|}{|\meta{shad.col.}|}|
@@ -4680,6 +4792,11 @@
%
% \hfill\ldots|,|\meta{start n}..\meta{stop n}|}{|\meta{color}|[|\meta{length}|]}|
% [\pageref{Lframeblock}]
+%
+% \quad|\hideblock{|\meta{seqref}|}{|\meta{start1}..\meta{stop1}|,|\meta{start2}..\meta{stop2}|,|
+%
+% \hfill\ldots|,|\meta{start n}..\meta{stop n}|}{|\meta{label}|[|\meta{color}|]}{|\meta{text}|[|\meta{color}|]}|
+% [\pageref{Lhideblock}]
%
% \quad|\feature{|\meta{position}|}{|\meta{seqref}|}{|\meta{start1}..\meta{stop1}|,|
%
@@ -4821,6 +4938,7 @@
%
% \vspace{1.5\baselineskip}
%
+% \newpage
%
% \textbf{Displaying and building legends}
% \medskip
@@ -4845,7 +4963,6 @@
%
% \vspace{1.5\baselineskip}
%
-% \newpage
%
% \textbf{Adding captions to the alignment}
% \medskip
@@ -4953,30 +5070,32 @@
% [7] \textsc{Schneider, T.D.; Stephens, R.M.} (1990) Sequence logos:
% a new way to display consensus
% \newblock \textit{Nucleic Acid Res.}: \textbf{18}, 6097--6100.
-%
-% [8] \textsc{Kabsch, W.; Sander, C.} (1983) Dictionary of
+%
+% [8] DeLano Scientific LLC `www.pymol.org'
+%
+% [9] \textsc{Kabsch, W.; Sander, C.} (1983) Dictionary of
% protein secondary structure: pattern recognition of
% hydrogen-bonded and geometrical features.
% \newblock \textit{Biopolymers}: \textbf{22}, 2577--2637.
%
-% [9] \textsc{Frishman, D.; Argos, P.} (1995) Knowledge-based
+% [10] \textsc{Frishman, D.; Argos, P.} (1995) Knowledge-based
% protein secondary structure assignment.
% \newblock \textit{Proteins: structure, function and
% genetics}: \textbf{23}, 566--579.
%
-% [10] \textsc{Rost, B.; Sander, C.} (1994)
+% [11] \textsc{Rost, B.; Sander, C.} (1994)
% Combining evolutionary information and neural networks to predict
% protein secondary structure.
% \newblock \textit{Proteins: structure, function and
% genetics}: \textbf{19}, 55--72.
%
-% [11] \textsc{Tusnady, G.E.; Simon, I.} (2001)
+% [12] \textsc{Tusnady, G.E.; Simon, I.} (2001)
% The HMMTOP transmembrane topology prediction server.
% \newblock \textit{Bioinformatics}: \textbf{17}, 849-850.
%
-% [12] \textsc{Rokicki, T.} DVIPS: A \TeX{} driver.
+% [13] \textsc{Rokicki, T.} DVIPS: A \TeX{} driver.
%
-% [13] \textsc{Beitz, E.} (2006) Subfamily logos: visualization of sequence
+% [14] \textsc{Beitz, E.} (2006) Subfamily logos: visualization of sequence
% deviations at alignment positions with high information content.
% \newblock \textit{BMC Bioinformatics}: \textbf{7}:313.
%
@@ -5007,8 +5126,8 @@
% \begin{macrocode}
%<*texshade>
\NeedsTeXFormat{LaTeX2e}
-\ProvidesPackage{texshade}[2006/06/27 LaTeX TeXshade (v1.15)]
-\message{Package `texshade', Version 1.15 of 2006/06/27.}
+\ProvidesPackage{texshade}[2007/02/18 LaTeX TeXshade (v1.16)]
+\message{Package `texshade', Version 1.16 of 2007/02/18.}
\PassOptionsToPackage{dvips}{color}
\PassOptionsToPackage{dvips}{graphicx}
@@ -5049,6 +5168,7 @@
\newread\structurefile \newwrite\featurefile
\newread\alignfile \newread\sublogofile
+\newwrite\exp@rtfile
\expandafter\ifx\csname blacktriangleright\endcsname\relax
\openin\structurefile = amssymb.sty
@@ -5482,122 +5602,185 @@
\xdef\consCG{50} \xdef\consCN{33} \xdef\consCD{17} \xdef\consCE{0} \xdef\consCQ{17}
\xdef\consCH{33} \xdef\consCR{33} \xdef\consCK{0} \xdef\consCM{33} \xdef\consCI{33}
\xdef\consCL{33} \xdef\consCV{33} \xdef\consCF{50} \xdef\consCY{50} \xdef\consCW{50}
+\xdef\consCB{0} \xdef\consCJ{0} \xdef\consCO{0} \xdef\consCU{0} \xdef\consCX{0} \xdef\consCZ{0}
\expandafter\xdef\csname consC.\endcsname{0}
\xdef\consSC{67} \xdef\consSS{100} \xdef\consST{83} \xdef\consSP{67} \xdef\consSA{83}
\xdef\consSG{83} \xdef\consSN{83} \xdef\consSD{67} \xdef\consSE{50} \xdef\consSQ{50}
\xdef\consSH{50} \xdef\consSR{50} \xdef\consSK{50} \xdef\consSM{33} \xdef\consSI{33}
\xdef\consSL{33} \xdef\consSV{67} \xdef\consSF{50} \xdef\consSY{50} \xdef\consSW{33}
+\xdef\consSB{0} \xdef\consSJ{0} \xdef\consSO{0} \xdef\consSU{0} \xdef\consSX{0} \xdef\consSZ{0}
\expandafter\xdef\csname consS.\endcsname{0}
\xdef\consTC{33} \xdef\consTS{83} \xdef\consTT{100} \xdef\consTP{67} \xdef\consTA{83}
\xdef\consTG{67} \xdef\consTN{67} \xdef\consTD{50} \xdef\consTE{50} \xdef\consTQ{50}
\xdef\consTH{33} \xdef\consTR{50} \xdef\consTK{67} \xdef\consTM{50} \xdef\consTI{50}
\xdef\consTL{33} \xdef\consTV{67} \xdef\consTF{33} \xdef\consTY{33} \xdef\consTW{17}
+\xdef\consTB{0} \xdef\consTJ{0} \xdef\consTO{0} \xdef\consTU{0} \xdef\consTX{0} \xdef\consTZ{0}
\expandafter\xdef\csname consT.\endcsname{0}
\xdef\consPC{33} \xdef\consPS{67} \xdef\consPT{67} \xdef\consPP{100} \xdef\consPA{83}
\xdef\consPG{67} \xdef\consPN{33} \xdef\consPD{50} \xdef\consPE{50} \xdef\consPQ{50}
\xdef\consPH{50} \xdef\consPR{50} \xdef\consPK{33} \xdef\consPM{33} \xdef\consPI{33}
\xdef\consPL{50} \xdef\consPV{67} \xdef\consPF{50} \xdef\consPY{33} \xdef\consPW{33}
+\xdef\consPB{0} \xdef\consPJ{0} \xdef\consPO{0} \xdef\consPU{0} \xdef\consPX{0} \xdef\consPZ{0}
\expandafter\xdef\csname consP.\endcsname{0}
\xdef\consAC{33} \xdef\consAS{83} \xdef\consAT{83} \xdef\consAP{83} \xdef\consAA{100}
\xdef\consAG{83} \xdef\consAN{50} \xdef\consAD{67} \xdef\consAE{67} \xdef\consAQ{50}
\xdef\consAH{33} \xdef\consAR{33} \xdef\consAK{50} \xdef\consAM{50} \xdef\consAI{33}
\xdef\consAL{33} \xdef\consAV{83} \xdef\consAF{50} \xdef\consAY{33} \xdef\consAW{33}
+\xdef\consAB{0} \xdef\consAJ{0} \xdef\consAO{0} \xdef\consAU{0} \xdef\consAX{0} \xdef\consAZ{0}
\expandafter\xdef\csname consA.\endcsname{0}
\xdef\consGC{50} \xdef\consGS{83} \xdef\consGT{67} \xdef\consGP{67} \xdef\consGA{83}
\xdef\consGG{100} \xdef\consGN{50} \xdef\consGD{67} \xdef\consGE{67} \xdef\consGQ{33}
\xdef\consGH{17} \xdef\consGR{50} \xdef\consGK{33} \xdef\consGM{17} \xdef\consGI{33}
\xdef\consGL{33} \xdef\consGV{67} \xdef\consGF{33} \xdef\consGY{33} \xdef\consGW{50}
+\xdef\consGB{0} \xdef\consGJ{0} \xdef\consGO{0} \xdef\consGU{0} \xdef\consGX{0} \xdef\consGZ{0}
\expandafter\xdef\csname consG.\endcsname{0}
\xdef\consNC{33} \xdef\consNS{83} \xdef\consNT{67} \xdef\consNP{33} \xdef\consNA{50}
\xdef\consNG{50} \xdef\consNN{100} \xdef\consND{83} \xdef\consNE{67} \xdef\consNQ{50}
\xdef\consNH{67} \xdef\consNR{50} \xdef\consNK{67} \xdef\consNM{17} \xdef\consNI{33}
\xdef\consNL{17} \xdef\consNV{33} \xdef\consNF{33} \xdef\consNY{50} \xdef\consNW{0}
+\xdef\consNB{0} \xdef\consNJ{0} \xdef\consNO{0} \xdef\consNU{0} \xdef\consNX{0} \xdef\consNZ{0}
\expandafter\xdef\csname consN.\endcsname{0}
\xdef\consDC{17} \xdef\consDS{67} \xdef\consDT{50} \xdef\consDP{50} \xdef\consDA{67}
\xdef\consDG{67} \xdef\consDN{83} \xdef\consDD{100} \xdef\consDE{83} \xdef\consDQ{67}
\xdef\consDH{50} \xdef\consDR{33} \xdef\consDK{50} \xdef\consDM{33} \xdef\consDI{17}
\xdef\consDL{17} \xdef\consDV{50} \xdef\consDF{17} \xdef\consDY{33} \xdef\consDW{0}
+\xdef\consDB{0} \xdef\consDJ{0} \xdef\consDO{0} \xdef\consDU{0} \xdef\consDX{0} \xdef\consDZ{0}
\expandafter\xdef\csname consD.\endcsname{0}
\xdef\consEC{0} \xdef\consES{50} \xdef\consET{50} \xdef\consEP{50} \xdef\consEA{67}
\xdef\consEG{67} \xdef\consEN{67} \xdef\consED{83} \xdef\consEE{100} \xdef\consEQ{67}
\xdef\consEH{33} \xdef\consER{50} \xdef\consEK{67} \xdef\consEM{33} \xdef\consEI{17}
\xdef\consEL{17} \xdef\consEV{67} \xdef\consEF{33} \xdef\consEY{17} \xdef\consEW{17}
+\xdef\consEB{0} \xdef\consEJ{0} \xdef\consEO{0} \xdef\consEU{0} \xdef\consEX{0} \xdef\consEZ{0}
\expandafter\xdef\csname consE.\endcsname{0}
\xdef\consQC{17} \xdef\consQS{50} \xdef\consQT{50} \xdef\consQP{50} \xdef\consQA{50}
\xdef\consQG{33} \xdef\consQN{50} \xdef\consQD{67} \xdef\consQE{67} \xdef\consQQ{100}
\xdef\consQH{67} \xdef\consQR{50} \xdef\consQK{67} \xdef\consQM{33} \xdef\consQI{17}
\xdef\consQL{33} \xdef\consQV{33} \xdef\consQF{17} \xdef\consQY{33} \xdef\consQW{17}
+\xdef\consQB{0} \xdef\consQJ{0} \xdef\consQO{0} \xdef\consQU{0} \xdef\consQX{0} \xdef\consQZ{0}
\expandafter\xdef\csname consQ.\endcsname{0}
\xdef\consHC{33} \xdef\consHS{50} \xdef\consHT{33} \xdef\consHP{50} \xdef\consHA{33}
\xdef\consHG{17} \xdef\consHN{67} \xdef\consHD{50} \xdef\consHE{33} \xdef\consHQ{67}
\xdef\consHH{100} \xdef\consHR{67} \xdef\consHK{50} \xdef\consHM{33} \xdef\consHI{33}
\xdef\consHL{50} \xdef\consHV{17} \xdef\consHF{33} \xdef\consHY{50} \xdef\consHW{17}
+\xdef\consHB{0} \xdef\consHJ{0} \xdef\consHO{0} \xdef\consHU{0} \xdef\consHX{0} \xdef\consHZ{0}
\expandafter\xdef\csname consH.\endcsname{0}
\xdef\consRC{33} \xdef\consRS{50} \xdef\consRT{50} \xdef\consRP{50} \xdef\consRA{33}
\xdef\consRG{50} \xdef\consRN{50} \xdef\consRD{33} \xdef\consRE{50} \xdef\consRQ{50}
\xdef\consRH{67} \xdef\consRR{100} \xdef\consRK{83} \xdef\consRM{33} \xdef\consRI{33}
\xdef\consRL{33} \xdef\consRV{33} \xdef\consRF{17} \xdef\consRY{17} \xdef\consRW{33}
+\xdef\consRB{0} \xdef\consRJ{0} \xdef\consRO{0} \xdef\consRU{0} \xdef\consRX{0} \xdef\consRZ{0}
\expandafter\xdef\csname consR.\endcsname{0}
\xdef\consKC{0} \xdef\consKS{50} \xdef\consKT{67} \xdef\consKP{33} \xdef\consKA{50}
\xdef\consKG{33} \xdef\consKN{67} \xdef\consKD{50} \xdef\consKE{67} \xdef\consKQ{67}
\xdef\consKH{50} \xdef\consKR{83} \xdef\consKK{100} \xdef\consKM{33} \xdef\consKI{33}
\xdef\consKL{33} \xdef\consKV{50} \xdef\consKF{17} \xdef\consKY{17} \xdef\consKW{17}
+\xdef\consKB{0} \xdef\consKJ{0} \xdef\consKO{0} \xdef\consKU{0} \xdef\consKX{0} \xdef\consKZ{0}
\expandafter\xdef\csname consK.\endcsname{0}
\xdef\consMC{33} \xdef\consMS{50} \xdef\consMT{50} \xdef\consMP{33} \xdef\consMA{50}
\xdef\consMG{17} \xdef\consMN{17} \xdef\consMD{33} \xdef\consME{33} \xdef\consMQ{33}
\xdef\consMH{33} \xdef\consMR{33} \xdef\consMK{33} \xdef\consMM{100} \xdef\consMI{67}
\xdef\consML{83} \xdef\consMV{67} \xdef\consMF{50} \xdef\consMY{33} \xdef\consMW{50}
+\xdef\consMB{0} \xdef\consMJ{0} \xdef\consMO{0} \xdef\consMU{0} \xdef\consMX{0} \xdef\consMZ{0}
\expandafter\xdef\csname consM.\endcsname{0}
\xdef\consIC{33} \xdef\consIS{33} \xdef\consIT{50} \xdef\consIP{33} \xdef\consIA{33}
\xdef\consIG{33} \xdef\consIN{33} \xdef\consID{17} \xdef\consIE{17} \xdef\consIQ{17}
\xdef\consIH{33} \xdef\consIR{33} \xdef\consIK{33} \xdef\consIM{67} \xdef\consII{100}
\xdef\consIL{83} \xdef\consIV{33} \xdef\consIF{67} \xdef\consIY{50} \xdef\consIW{50}
+\xdef\consIB{0} \xdef\consIJ{0} \xdef\consIO{0} \xdef\consIU{0} \xdef\consIX{0} \xdef\consIZ{0}
\expandafter\xdef\csname consI.\endcsname{0}
\xdef\consLC{33} \xdef\consLS{33} \xdef\consLT{33} \xdef\consLP{50} \xdef\consLA{33}
\xdef\consLG{33} \xdef\consLN{17} \xdef\consLD{17} \xdef\consLE{17} \xdef\consLQ{33}
\xdef\consLH{50} \xdef\consLR{33} \xdef\consLK{33} \xdef\consLM{83} \xdef\consLI{83}
\xdef\consLL{100} \xdef\consLV{33} \xdef\consLF{67} \xdef\consLY{50} \xdef\consLW{67}
+\xdef\consLB{0} \xdef\consLJ{0} \xdef\consLO{0} \xdef\consLU{0} \xdef\consLX{0} \xdef\consLZ{0}
\expandafter\xdef\csname consL.\endcsname{0}
\xdef\consVC{33} \xdef\consVS{67} \xdef\consVT{67} \xdef\consVP{67} \xdef\consVA{83}
\xdef\consVG{67} \xdef\consVN{33} \xdef\consVD{50} \xdef\consVE{67} \xdef\consVQ{33}
\xdef\consVH{17} \xdef\consVR{33} \xdef\consVK{50} \xdef\consVM{67} \xdef\consVI{33}
\xdef\consVL{33} \xdef\consVV{100} \xdef\consVF{67} \xdef\consVY{50} \xdef\consVW{50}
+\xdef\consVB{0} \xdef\consVJ{0} \xdef\consVO{0} \xdef\consVU{0} \xdef\consVX{0} \xdef\consVZ{0}
\expandafter\xdef\csname consV.\endcsname{0}
\xdef\consFC{50} \xdef\consFS{50} \xdef\consFT{33} \xdef\consFP{50} \xdef\consFA{50}
\xdef\consFG{33} \xdef\consFN{33} \xdef\consFD{17} \xdef\consFE{33} \xdef\consFQ{17}
\xdef\consFH{33} \xdef\consFR{17} \xdef\consFK{17} \xdef\consFM{50} \xdef\consFI{67}
\xdef\consFL{67} \xdef\consFV{67} \xdef\consFF{100} \xdef\consFY{83} \xdef\consFW{50}
+\xdef\consFB{0} \xdef\consFJ{0} \xdef\consFO{0} \xdef\consFU{0} \xdef\consFX{0} \xdef\consFZ{0}
\expandafter\xdef\csname consF.\endcsname{0}
\xdef\consYC{50} \xdef\consYS{50} \xdef\consYT{33} \xdef\consYP{33} \xdef\consYA{33}
\xdef\consYG{33} \xdef\consYN{50} \xdef\consYD{33} \xdef\consYE{17} \xdef\consYQ{33}
\xdef\consYH{50} \xdef\consYR{17} \xdef\consYK{17} \xdef\consYM{33} \xdef\consYI{50}
\xdef\consYL{50} \xdef\consYV{50} \xdef\consYF{83} \xdef\consYY{100} \xdef\consYW{50}
+\xdef\consYB{0} \xdef\consYJ{0} \xdef\consYO{0} \xdef\consYU{0} \xdef\consYX{0} \xdef\consYZ{0}
\expandafter\xdef\csname consY.\endcsname{0}
\xdef\consWC{50} \xdef\consWS{33} \xdef\consWT{17} \xdef\consWP{33} \xdef\consWA{33}
\xdef\consWG{50} \xdef\consWN{0} \xdef\consWD{0} \xdef\consWE{17} \xdef\consWQ{17}
\xdef\consWH{17} \xdef\consWR{33} \xdef\consWK{17} \xdef\consWM{50} \xdef\consWI{50}
\xdef\consWL{67} \xdef\consWV{50} \xdef\consWF{50} \xdef\consWY{50} \xdef\consWW{100}
+\xdef\consWB{0} \xdef\consWJ{0} \xdef\consWO{0} \xdef\consWU{0} \xdef\consWX{0} \xdef\consWZ{0}
\expandafter\xdef\csname consW.\endcsname{0}
+\xdef\consBC{0} \xdef\consBS{0} \xdef\consBT{0} \xdef\consBP{0} \xdef\consBA{0}
+\xdef\consBG{0} \xdef\consBN{0} \xdef\consBD{0} \xdef\consBE{0} \xdef\consBQ{0}
+\xdef\consBH{0} \xdef\consBR{0} \xdef\consBK{0} \xdef\consBM{0} \xdef\consBI{0}
+\xdef\consBL{0} \xdef\consBV{0} \xdef\consBF{0} \xdef\consBY{0} \xdef\consBW{0}
+\xdef\consBB{100} \xdef\consBJ{0} \xdef\consBO{0} \xdef\consBU{0} \xdef\consBX{0} \xdef\consBZ{0}
+\expandafter\xdef\csname consB.\endcsname{0}
+
+\xdef\consJC{0} \xdef\consJS{0} \xdef\consJT{0} \xdef\consJP{0} \xdef\consJA{0}
+\xdef\consJG{0} \xdef\consJN{0} \xdef\consJD{0} \xdef\consJE{0} \xdef\consJQ{0}
+\xdef\consJH{0} \xdef\consJR{0} \xdef\consJK{0} \xdef\consJM{0} \xdef\consJI{0}
+\xdef\consJL{0} \xdef\consJV{0} \xdef\consJF{0} \xdef\consJY{0} \xdef\consJW{0}
+\xdef\consJB{0} \xdef\consJJ{100} \xdef\consJO{0} \xdef\consJU{0} \xdef\consJX{0} \xdef\consJZ{0}
+\expandafter\xdef\csname consJ.\endcsname{0}
+
+\xdef\consOC{0} \xdef\consOS{0} \xdef\consOT{0} \xdef\consOP{0} \xdef\consOA{0}
+\xdef\consOG{0} \xdef\consON{0} \xdef\consOD{0} \xdef\consOE{0} \xdef\consOQ{0}
+\xdef\consOH{0} \xdef\consOR{0} \xdef\consOK{0} \xdef\consOM{0} \xdef\consOI{0}
+\xdef\consOL{0} \xdef\consOV{0} \xdef\consOF{0} \xdef\consOY{0} \xdef\consOW{0}
+\xdef\consOB{0} \xdef\consOJ{0} \xdef\consOO{100} \xdef\consOU{0} \xdef\consOX{0} \xdef\consOZ{0}
+\expandafter\xdef\csname consO.\endcsname{0}
+
+\xdef\consUC{0} \xdef\consUS{0} \xdef\consUT{0} \xdef\consUP{0} \xdef\consUA{0}
+\xdef\consUG{0} \xdef\consUN{0} \xdef\consUD{0} \xdef\consUE{0} \xdef\consUQ{0}
+\xdef\consUH{0} \xdef\consUR{0} \xdef\consUK{0} \xdef\consUM{0} \xdef\consUI{0}
+\xdef\consUL{0} \xdef\consUV{0} \xdef\consUF{0} \xdef\consUY{0} \xdef\consUW{0}
+\xdef\consUB{0} \xdef\consUJ{0} \xdef\consUO{0} \xdef\consUU{100} \xdef\consUX{0} \xdef\consUZ{0}
+\expandafter\xdef\csname consU.\endcsname{0}
+
+\xdef\consXC{0} \xdef\consXS{0} \xdef\consXT{0} \xdef\consXP{0} \xdef\consXA{0}
+\xdef\consXG{0} \xdef\consXN{0} \xdef\consXD{0} \xdef\consXE{0} \xdef\consXQ{0}
+\xdef\consXH{0} \xdef\consXR{0} \xdef\consXK{0} \xdef\consXM{0} \xdef\consXI{0}
+\xdef\consXL{0} \xdef\consXV{0} \xdef\consXF{0} \xdef\consXY{0} \xdef\consXW{0}
+\xdef\consXB{0} \xdef\consXJ{0} \xdef\consXO{0} \xdef\consXU{0} \xdef\consXX{100} \xdef\consXZ{0}
+\expandafter\xdef\csname consX.\endcsname{0}
+
+\xdef\consZC{0} \xdef\consZS{0} \xdef\consZT{0} \xdef\consZP{0} \xdef\consZA{0}
+\xdef\consZG{0} \xdef\consZN{0} \xdef\consZD{0} \xdef\consZE{0} \xdef\consZQ{0}
+\xdef\consZH{0} \xdef\consZR{0} \xdef\consZK{0} \xdef\consZM{0} \xdef\consZI{0}
+\xdef\consZL{0} \xdef\consZV{0} \xdef\consZF{0} \xdef\consZY{0} \xdef\consZW{0}
+\xdef\consZB{0} \xdef\consZJ{0} \xdef\consZO{0} \xdef\consZU{0} \xdef\consZX{0} \xdef\consZZ{100}
+\expandafter\xdef\csname consZ.\endcsname{0}
+
+
\expandafter\xdef\csname cons.C\endcsname{0}
\expandafter\xdef\csname cons.S\endcsname{0}
\expandafter\xdef\csname cons.T\endcsname{0}
@@ -5618,6 +5801,12 @@
\expandafter\xdef\csname cons.F\endcsname{0}
\expandafter\xdef\csname cons.Y\endcsname{0}
\expandafter\xdef\csname cons.W\endcsname{0}
+\expandafter\xdef\csname cons.B\endcsname{0}
+\expandafter\xdef\csname cons.J\endcsname{0}
+\expandafter\xdef\csname cons.O\endcsname{0}
+\expandafter\xdef\csname cons.U\endcsname{0}
+\expandafter\xdef\csname cons.X\endcsname{0}
+\expandafter\xdef\csname cons.Z\endcsname{0}
\expandafter\xdef\csname cons..\endcsname{0}
\def\c@d@ns{%
@@ -6136,6 +6325,126 @@
\definecolor{HotCold15} {rgb} {1,0.40,0}
\definecolor{HotCold10} {rgb} {1,0.20,0}
\definecolor{HotCold5} {rgb} {0.91,0,0}
+\expandafter\def\csname BlueRed5\endcsname{[0.15,0.17,0.55]}
+\expandafter\def\csname BlueRed10\endcsname{[0.20,0.23,0.57]}
+\expandafter\def\csname BlueRed15\endcsname{[0.24,0.29,0.60]}
+\expandafter\def\csname BlueRed20\endcsname{[0.33,0.35,0.64]}
+\expandafter\def\csname BlueRed25\endcsname{[0.43,0.43,0.68]}
+\expandafter\def\csname BlueRed30\endcsname{[0.52,0.52,0.73]}
+\expandafter\def\csname BlueRed35\endcsname{[0.60,0.60,0.78]}
+\expandafter\def\csname BlueRed40\endcsname{[0.70,0.70,0.84]}
+\expandafter\def\csname BlueRed45\endcsname{[0.80,0.80,0.85]}
+\expandafter\def\csname BlueRed50\endcsname{[0.86,0.82,0.82]}
+\expandafter\def\csname BlueRed55\endcsname{[0.87,0.73,0.73]}
+\expandafter\def\csname BlueRed60\endcsname{[0.89,0.64,0.64]}
+\expandafter\def\csname BlueRed65\endcsname{[0.90,0.55,0.55]}
+\expandafter\def\csname BlueRed70\endcsname{[0.91,0.47,0.46]}
+\expandafter\def\csname BlueRed75\endcsname{[0.91,0.39,0.37]}
+\expandafter\def\csname BlueRed80\endcsname{[0.90,0.33,0.28]}
+\expandafter\def\csname BlueRed85\endcsname{[0.89,0.25,0.20]}
+\expandafter\def\csname BlueRed90\endcsname{[0.88,0.23,0.14]}
+\expandafter\def\csname BlueRed95\endcsname{[0.87,0.21,0.09]}
+\expandafter\def\csname BlueRed100\endcsname{[0.87,0.16,0.04]}
+\expandafter\def\csname RedBlue100\endcsname{[0.15,0.17,0.55]}
+\expandafter\def\csname RedBlue95\endcsname{[0.15,0.17,0.55]}
+\expandafter\def\csname RedBlue90\endcsname{[0.20,0.23,0.57]}
+\expandafter\def\csname RedBlue85\endcsname{[0.24,0.29,0.60]}
+\expandafter\def\csname RedBlue80\endcsname{[0.33,0.35,0.64]}
+\expandafter\def\csname RedBlue75\endcsname{[0.43,0.43,0.68]}
+\expandafter\def\csname RedBlue70\endcsname{[0.52,0.52,0.73]}
+\expandafter\def\csname RedBlue65\endcsname{[0.60,0.60,0.78]}
+\expandafter\def\csname RedBlue60\endcsname{[0.70,0.70,0.84]}
+\expandafter\def\csname RedBlue55\endcsname{[0.80,0.80,0.85]}
+\expandafter\def\csname RedBlue50\endcsname{[0.86,0.82,0.82]}
+\expandafter\def\csname RedBlue45\endcsname{[0.87,0.73,0.73]}
+\expandafter\def\csname RedBlue40\endcsname{[0.89,0.64,0.64]}
+\expandafter\def\csname RedBlue35\endcsname{[0.90,0.55,0.55]}
+\expandafter\def\csname RedBlue30\endcsname{[0.91,0.47,0.46]}
+\expandafter\def\csname RedBlue25\endcsname{[0.91,0.39,0.37]}
+\expandafter\def\csname RedBlue20\endcsname{[0.90,0.33,0.28]}
+\expandafter\def\csname RedBlue15\endcsname{[0.89,0.25,0.20]}
+\expandafter\def\csname RedBlue10\endcsname{[0.88,0.23,0.14]}
+\expandafter\def\csname RedBlue5\endcsname{[0.87,0.21,0.09]}
+\expandafter\def\csname GreenRed5\endcsname{[0,1,0]}
+\expandafter\def\csname GreenRed10\endcsname{[0.05,0.95,0]}
+\expandafter\def\csname GreenRed15\endcsname{[0.10,0.90,0]}
+\expandafter\def\csname GreenRed20\endcsname{[0.15,0.85,0]}
+\expandafter\def\csname GreenRed25\endcsname{[0.20,0.80,0]}
+\expandafter\def\csname GreenRed30\endcsname{[0.25,0.75,0]}
+\expandafter\def\csname GreenRed35\endcsname{[0.30,0.70,0]}
+\expandafter\def\csname GreenRed40\endcsname{[0.35,0.65,0]}
+\expandafter\def\csname GreenRed45\endcsname{[0.40,0.60,0]}
+\expandafter\def\csname GreenRed50\endcsname{[0.45,0.55,0]}
+\expandafter\def\csname GreenRed55\endcsname{[0.50,0.50,0]}
+\expandafter\def\csname GreenRed60\endcsname{[0.55,0.45,0]}
+\expandafter\def\csname GreenRed65\endcsname{[0.60,0.40,0]}
+\expandafter\def\csname GreenRed70\endcsname{[0.65,0.35,0]}
+\expandafter\def\csname GreenRed75\endcsname{[0.70,0.30,0]}
+\expandafter\def\csname GreenRed80\endcsname{[0.75,0.25,0]}
+\expandafter\def\csname GreenRed85\endcsname{[0.80,0.20,0]}
+\expandafter\def\csname GreenRed90\endcsname{[0.85,0.15,0]}
+\expandafter\def\csname GreenRed95\endcsname{[0.90,0.10,0]}
+\expandafter\def\csname GreenRed100\endcsname{[0.95,0.05,0]}
+\expandafter\def\csname RedGreen100\endcsname{[0.05,0.95,0]}
+\expandafter\def\csname RedGreen95\endcsname{[0.10,0.90,0]}
+\expandafter\def\csname RedGreen90\endcsname{[0.15,0.85,0]}
+\expandafter\def\csname RedGreen85\endcsname{[0.20,0.80,0]}
+\expandafter\def\csname RedGreen80\endcsname{[0.25,0.75,0]}
+\expandafter\def\csname RedGreen75\endcsname{[0.30,0.70,0]}
+\expandafter\def\csname RedGreen70\endcsname{[0.35,0.65,0]}
+\expandafter\def\csname RedGreen65\endcsname{[0.40,0.60,0]}
+\expandafter\def\csname RedGreen60\endcsname{[0.45,0.55,0]}
+\expandafter\def\csname RedGreen55\endcsname{[0.50,0.50,0]}
+\expandafter\def\csname RedGreen50\endcsname{[0.55,0.45,0]}
+\expandafter\def\csname RedGreen45\endcsname{[0.60,0.40,0]}
+\expandafter\def\csname RedGreen40\endcsname{[0.65,0.35,0]}
+\expandafter\def\csname RedGreen35\endcsname{[0.70,0.30,0]}
+\expandafter\def\csname RedGreen30\endcsname{[0.75,0.25,0]}
+\expandafter\def\csname RedGreen25\endcsname{[0.80,0.20,0]}
+\expandafter\def\csname RedGreen20\endcsname{[0.85,0.15,0]}
+\expandafter\def\csname RedGreen15\endcsname{[0.90,0.10,0]}
+\expandafter\def\csname RedGreen10\endcsname{[0.95,0.05,0]}
+\expandafter\def\csname RedGreen5\endcsname{[1,0,0]}
+\expandafter\def\csname ColdHot5\endcsname{[0,0.08,1]}
+\expandafter\def\csname ColdHot10\endcsname{[0,0.29,1]}
+\expandafter\def\csname ColdHot15\endcsname{[0,0.49,1]}
+\expandafter\def\csname ColdHot20\endcsname{[0,0.70,1]}
+\expandafter\def\csname ColdHot25\endcsname{[0,0.90,1]}
+\expandafter\def\csname ColdHot30\endcsname{[0,1,0.87]}
+\expandafter\def\csname ColdHot35\endcsname{[0,1,0.68]}
+\expandafter\def\csname ColdHot40\endcsname{[0,1,0.46]}
+\expandafter\def\csname ColdHot45\endcsname{[0,1,0.25]}
+\expandafter\def\csname ColdHot50\endcsname{[0,1,0.04]}
+\expandafter\def\csname ColdHot55\endcsname{[0.16,1,0]}
+\expandafter\def\csname ColdHot60\endcsname{[0.35,1,0]}
+\expandafter\def\csname ColdHot65\endcsname{[0.56,1,0]}
+\expandafter\def\csname ColdHot70\endcsname{[0.79,1,0]}
+\expandafter\def\csname ColdHot75\endcsname{[0.98,1,0]}
+\expandafter\def\csname ColdHot80\endcsname{[1,0.82,0]}
+\expandafter\def\csname ColdHot85\endcsname{[1,0.60,0]}
+\expandafter\def\csname ColdHot90\endcsname{[1,0.40,0]}
+\expandafter\def\csname ColdHot95\endcsname{[1,0.20,0]}
+\expandafter\def\csname ColdHot100\endcsname{[0.91,0,0]}
+\expandafter\def\csname HotCold100\endcsname{[0,0.08,1]}
+\expandafter\def\csname HotCold95\endcsname{[0,0.29,1]}
+\expandafter\def\csname HotCold90\endcsname{[0,0.49,1]}
+\expandafter\def\csname HotCold85\endcsname{[0,0.70,1]}
+\expandafter\def\csname HotCold80\endcsname{[0,0.90,1]}
+\expandafter\def\csname HotCold75\endcsname{[0,1,0.87]}
+\expandafter\def\csname HotCold70\endcsname{[0,1,0.68]}
+\expandafter\def\csname HotCold65\endcsname{[0,1,0.46]}
+\expandafter\def\csname HotCold60\endcsname{[0,1,0.25]}
+\expandafter\def\csname HotCold55\endcsname{[0,1,0.04]}
+\expandafter\def\csname HotCold50\endcsname{[0.16,1,0]}
+\expandafter\def\csname HotCold45\endcsname{[0.35,1,0]}
+\expandafter\def\csname HotCold40\endcsname{[0.56,1,0]}
+\expandafter\def\csname HotCold35\endcsname{[0.79,1,0]}
+\expandafter\def\csname HotCold30\endcsname{[0.98,1,0]}
+\expandafter\def\csname HotCold25\endcsname{[1,0.82,0]}
+\expandafter\def\csname HotCold20\endcsname{[1,0.60,0]}
+\expandafter\def\csname HotCold15\endcsname{[1,0.40,0]}
+\expandafter\def\csname HotCold10\endcsname{[1,0.20,0]}
+\expandafter\def\csname HotCold5\endcsname{[0.91,0,0]}
\def\make@lower{%
@@ -6252,6 +6561,8 @@
\csname stack@@reg#1\endcsname}
\expandafter\xdef\csname stack@tintreg\the\loopcount\endcsname{%
\csname stack@@tintreg#1\endcsname}
+ \expandafter\xdef\csname stack@hidereg\the\loopcount\endcsname{%
+ \csname stack@@hidereg#1\endcsname}
\expandafter\xdef\csname stack@emphreg\the\loopcount\endcsname{%
\csname stack@@emphreg#1\endcsname}
\expandafter\xdef\csname stack@framereg\the\loopcount\endcsname{%
@@ -6295,6 +6606,8 @@
\csname stack@reg\the\loopcount\endcsname}
\expandafter\xdef\csname stack@@tintreg\the\loopcount\endcsname{%
\csname stack@tintreg\the\loopcount\endcsname}
+ \expandafter\xdef\csname stack@@hidereg\the\loopcount\endcsname{%
+ \csname stack@hidereg\the\loopcount\endcsname}
\expandafter\xdef\csname stack@@emphreg\the\loopcount\endcsname{%
\csname stack@emphreg\the\loopcount\endcsname}
\expandafter\xdef\csname stack@@framereg\the\loopcount\endcsname{%
@@ -6572,6 +6885,8 @@
\csname stack@reg\the\innerloopcount\endcsname}
\expandafter\xdef\csname stack@tintreg\the\loopcount\endcsname{%
\csname stack@tintreg\the\innerloopcount\endcsname}
+ \expandafter\xdef\csname stack@hidereg\the\loopcount\endcsname{%
+ \csname stack@hidereg\the\innerloopcount\endcsname}
\expandafter\xdef\csname stack@emphreg\the\loopcount\endcsname{%
\csname stack@emphreg\the\innerloopcount\endcsname}
\expandafter\xdef\csname stack@framereg\the\loopcount\endcsname{%
@@ -6851,6 +7166,36 @@
\sort@stack
\expandafter\xdef\csname stack@reg\seq@\endcsname{\tmpstack}
}
+\def\getregion@fromhidestack#1{%
+ \xdef\temp@{#1}
+ \xdef\first@{\csname stack@hidereg\temp@\endcsname}
+ \expandafter\get@fromstack\first@
+ \expandafter\xdef\csname hidestart\temp@\endcsname{\first@}
+ \expandafter\xdef\csname hidestop\temp@\endcsname{\second@}
+ \expandafter\xdef\csname hidestyle\temp@\endcsname{\third@}
+ \expandafter\xdef\csname hidetext\temp@\endcsname{\fourth@}
+ \expandafter\xdef\csname stack@hidereg\temp@\endcsname{\last@}
+}
+\def\sort@hidestack{%
+ \expandafter\get@fromstack\last@
+ \ifx\first@\ampers@nd
+ \xdef\tmpstack{\tmpstack\st@rt;\st@p;\@ll;\text@;&;&;&;&;&;@}
+ \else
+ \ifnum\st@rt<\second@
+ \xdef\tmpstack{\tmpstack\st@rt;\st@p;\@ll;\text@;%
+ \first@;\second@;\third@;\fourth@;\last@}
+ \else
+ \xdef\tmpstack{\tmpstack\first@;\second@;\third@;\fourth@;} \sort@hidestack
+ \fi\fi
+}
+\def\get@hideregions#1..#2,#3@{%
+ \xdef\hide@true{y}
+ \xdef\st@rt{#1} \xdef\st@p{#2} \xdef\list@{#3}
+ \xdef\last@{\csname stack@hidereg\seq@\endcsname}
+ \xdef\tmpstack{}
+ \sort@hidestack
+ \expandafter\xdef\csname stack@hidereg\seq@\endcsname{\tmpstack}
+}
\def\get@fromemphstack#1;#2;#3;#4@{%
\xdef\first@{#1} \xdef\second@{#2}
\xdef\third@{#3} \xdef\last@{#4@}
@@ -6965,6 +7310,14 @@
\sort@fstack
\expandafter\xdef\csname stack@\bottop@\seq@\endcsname{\tmpstack}
}
+\def\get@frameregions#1..#2,#3@{%
+ \frame@true
+ \xdef\st@rt{#1} \xdef\st@p{#2} \xdef\list@{#3}
+ \xdef\last@{\csname stack@framereg\seq@\endcsname}
+ \xdef\tmpstack{}
+ \sort@emphstack
+ \expandafter\xdef\csname stack@framereg\seq@\endcsname{\tmpstack}
+}
\def\getarrow@shape#1#2#3#4&{%
\xdef\first@@{#1}\xdef\second@@{#2}\xdef\third@@{#3}
\if\first@@ v
@@ -8331,6 +8684,23 @@
\ifx\list@\ampers@nd\else\repeat
\fi
}
+\def\hideblock#1#2#3#4{%
+ \xdef\seq@{#1}
+ \xdef\temp@{consensus} \ifx\seq@\temp@ \xdef\seq@{0} \fi
+ \xdef\first@{\seq@ @} \expandafter\check@letter\first@
+ \xdef\first@{\seq@}
+ \ifletter \get@name@number \xdef\seq@{\first@} \fi
+ \ifnum\seq@>\seq@count
+ \message{<Ignored seq `\seq@' in \noexpand\hideblock>}
+ \else
+ \xdef\@ll{#3} \xdef\text@{#4}
+ \xdef\list@{#2,&}
+ \loop
+ \xdef\list@{\list@ @}
+ \expandafter\get@hideregions\list@
+ \ifx\list@\ampers@nd\else\repeat
+ \fi
+}
\def\bargraphstretch#1{\def\b@r@stretch{#1}}
\def\colorscalestretch#1{\def\sc@le@stretch{#1}}
\def\rm@@measure#1#2@{%
@@ -8871,7 +9241,8 @@
\ifnum\last@<1 \xdef\last@{1}\fi
\simmodetrue \funcmodefalse
\threshold{0}
- \donotshade{\last@} \constosingleseq{\last@}
+ \xdef\divref@{\last@}
+ \constosingleseq{\last@}
\nomatchresidues{Black}{White}{lower}{up}
\similarresidues{Black}{White}{lower}{up}
\conservedresidues{Black}{White}{{.}}{up}
@@ -9286,6 +9657,9 @@
}
\def\rotateruler{\xdef\ruler@rot{90}}
\def\unrotateruler{\xdef\ruler@rot{0}}
+\def\namerulerpos#1#2{%
+ \expandafter\xdef\csname alt@ruler#1\endcsname{#2}
+}
\def\featurerule#1{\setlength\rule@thick{#1}}
\def\orderseqs#1{%
\def\order@loop{%
@@ -9350,6 +9724,9 @@
\xdef\temp@{legend}
\ifx\first@\temp@ \xdef\legend@family{\third@}
\else
+ \xdef\temp@{hideblock}
+ \ifx\first@\temp@ \xdef\hideblock@family{\third@}
+ \else
\xdef\temp@{labels}
\ifx\first@\temp@ \xdef\label@family{\third@}
\else
@@ -9365,8 +9742,9 @@
\xdef\residues@family{\third@}
\xdef\legend@family{\third@}
\xdef\label@family{\third@}
+ \xdef\hideblock@family{\third@}
\xdef\ruler@family{\second@}
- \fi\fi\fi\fi\fi\fi\fi\fi\fi
+ \fi\fi\fi\fi\fi\fi\fi\fi\fi\fi
\fi
}
\def\setseries#1#2{%
@@ -9403,6 +9781,9 @@
\xdef\temp@{legend}
\ifx\first@\temp@ \xdef\legend@series{\third@}
\else
+ \xdef\temp@{hideblock}
+ \ifx\first@\temp@ \xdef\hideblock@series{\third@}
+ \else
\xdef\temp@{labels}
\ifx\first@\temp@ \xdef\label@series{\third@}
\else
@@ -9414,8 +9795,9 @@
\xdef\namestext@series{\third@}
\xdef\residues@series{\third@}
\xdef\legend@series{\third@}
+ \xdef\hideblock@series{\third@}
\xdef\label@series{\third@}
- \fi\fi\fi\fi\fi\fi\fi\fi
+ \fi\fi\fi\fi\fi\fi\fi\fi\fi
\fi
}
\def\setshape#1#2{%
@@ -9460,6 +9842,9 @@
\xdef\temp@{legend}
\ifx\first@\temp@ \xdef\legend@shape{\third@}
\else
+ \xdef\temp@{hideblock}
+ \ifx\first@\temp@ \xdef\hideblock@shape{\third@}
+ \else
\xdef\temp@{labels}
\ifx\first@\temp@ \xdef\label@shape{\third@}
\else
@@ -9471,8 +9856,9 @@
\xdef\namestext@shape{\third@}
\xdef\residues@shape{\third@}
\xdef\legend@shape{\third@}
+ \xdef\hideblock@shape{\third@}
\xdef\label@shape{\third@}
- \fi\fi\fi\fi\fi\fi\fi\fi
+ \fi\fi\fi\fi\fi\fi\fi\fi\fi
\fi
}
\def\setsize#1#2{%
@@ -9500,6 +9886,20 @@
\ifx\first@\temp@
\def\legend@size{\csname #2\endcsname}
\else
+ \xdef\temp@{hideblock}
+ \ifx\first@\temp@
+ \xdef\temp@@{#2}
+ \xdef\temp@{huge}
+ \ifx\temp@\temp@@
+ \def\hideblock@size{\csname LARGE\endcsname}
+ \else
+ \xdef\temp@{Huge}
+ \ifx\temp@\temp@@
+ \def\hideblock@size{\csname LARGE\endcsname}
+ \else
+ \def\hideblock@size{\csname #2\endcsname}
+ \fi\fi
+ \else
\xdef\temp@{labels}
\ifx\first@\temp@
\def\label@size{\csname #2\endcsname}
@@ -9516,10 +9916,11 @@
\def\numbertext@size{\csname #2\endcsname}
\def\namestext@size{\csname #2\endcsname}
\def\legend@size{\csname #2\endcsname}
+ \def\hideblock@size{\csname #2\endcsname}
\def\label@size{\csname #2\endcsname}
\def\residues@size{\csname #2\endcsname}
\xdef\res@size{#2}
- \fi\fi\fi\fi\fi\fi\fi\fi
+ \fi\fi\fi\fi\fi\fi\fi\fi\fi
\xdef\temp@{Huge}
\ifx\temp@\res@size
\def\bottomruler@size{\csname Large\endcsname}
@@ -9665,6 +10066,25 @@
\def\legendLARGE {\setsize{legend}{LARGE}}
\def\legendhuge {\setsize{legend}{huge}}
\def\legendHuge {\setsize{legend}{Huge}}
+\def\hideblockrm{\setfamily{hideblock}{rm}}
+\def\hideblocksf{\setfamily{hideblock}{sf}}
+\def\hideblocktt{\setfamily{hideblock}{tt}}
+\def\hideblockmd{\setseries{hideblock}{md}}
+\def\hideblockbf{\setseries{hideblock}{bf}}
+\def\hideblockup{\setshape {hideblock}{up}}
+\def\hideblockit{\setshape {hideblock}{it}}
+\def\hideblocksl{\setshape {hideblock}{sl}}
+\def\hideblocksc{\setshape {hideblock}{sc}}
+\def\hideblocktiny {\setsize{hideblock}{tiny}}
+\def\hideblockscriptsize {\setsize{hideblock}{scriptsize}}
+\def\hideblockfootnotesize{\setsize{hideblock}{footnotesize}}
+\def\hideblocksmall {\setsize{hideblock}{small}}
+\def\hideblocknormalsize {\setsize{hideblock}{normalsize}}
+\def\hideblocklarge {\setsize{hideblock}{large}}
+\def\hideblockLarge {\setsize{hideblock}{Large}}
+\def\hideblockLARGE {\setsize{hideblock}{LARGE}}
+\def\hideblockhuge {\setsize{hideblock}{LARGE}}
+\def\hideblockHuge {\setsize{hideblock}{LARGE}}
\def\rulerrm{\setfamily{ruler}{rm}}
\def\rulersf{\setfamily{ruler}{sf}}
\def\rulertt{\setfamily{ruler}{tt}}
@@ -10186,6 +10606,16 @@
\ifx\temp@\first@ \xdef\tr@nstextstyle{4}\fi
}
+\newcommand\exportconsensus[2][export.txt]{%
+ \ifx\exp@rt\n@
+ \xdef\first@{#2 @} \expandafter\check@letter\first@
+ \xdef\first@{#2} \ifletter \get@name@number \fi
+ \xdef\exp@rt@num{\first@}
+ \xdef\exp@rt{y}
+ \immediate\openout\exp@rtfile = #1
+ \fi
+}
+
%%%%% Calculate consensus
\def\check@sim{%
@@ -10376,9 +10806,10 @@
\expandafter\xdef\csname seq\the\loopcount\endcsname{%
\csname seq\the\loopcount\endcsname\third@\first@}
\else
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\resn@m@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\resn@m@tch\low@up
- \else \xdef\first@{\resn@m@tch} \fi\fi
+ \else \xdef\first@{\resn@m@tch} \fi\fi\fi
\expandafter\ifx\csname tint@seq\the\loopcount\endcsname\y@
\expandafter\xdef\csname tint@seq\the\loopcount\endcsname{n}
\xdef\first@{=\first@}\fi
@@ -10431,9 +10862,10 @@
\xdef\last@{\csname res\the\loopcount\endcsname}
\expandafter\ifnum\csname \prefix@ grp\last@\endcsname=\second@
\xdef\third@{2}
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\ressimm@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\ressimm@tch\low@up
- \else \xdef\first@{\ressimm@tch} \fi\fi
+ \else \xdef\first@{\ressimm@tch} \fi\fi\fi
\else
\ifx\first@\d@t
\expandafter\ifnum\csname res@count\the\loopcount\endcsname%
@@ -10457,9 +10889,10 @@
\fi
\else
\xdef\third@{3}
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\resn@m@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\resn@m@tch\low@up
- \else \xdef\first@{\resn@m@tch} \fi\fi
+ \else \xdef\first@{\resn@m@tch} \fi\fi\fi
\fi
\fi
\expandafter\ifx\csname tint@seq\the\loopcount\endcsname\y@
@@ -10581,9 +11014,10 @@
\expandafter\xdef\csname seq\the\loopcount\endcsname{%
\csname seq\the\loopcount\endcsname\third@\first@}
\else
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\resn@m@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\resn@m@tch\low@up
- \else \xdef\first@{\resn@m@tch} \fi\fi
+ \else \xdef\first@{\resn@m@tch} \fi\fi\fi
\expandafter\ifx\csname tint@seq\the\loopcount\endcsname\y@
\expandafter\xdef\csname tint@seq\the\loopcount\endcsname{n}
\xdef\first@{=\first@}\fi
@@ -10640,17 +11074,20 @@
\fi
\xdef\first@{\csname res\the\loopcount\endcsname}
\ifcase\third@ \or
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\resm@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\resm@tch\low@up
- \else \xdef\first@{\resm@tch} \fi\fi
+ \else \xdef\first@{\resm@tch} \fi\fi\fi
\or
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\ressimm@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\ressimm@tch\low@up
- \else \xdef\first@{\ressimm@tch} \fi\fi
+ \else \xdef\first@{\ressimm@tch} \fi\fi\fi
\else
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\resn@m@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\resn@m@tch\low@up
- \else \xdef\first@{\resn@m@tch} \fi\fi
+ \else \xdef\first@{\resn@m@tch} \fi\fi\fi
\fi
\ifx\first@\d@t
\expandafter\ifnum\csname res@count\the\loopcount\endcsname%
@@ -10715,9 +11152,10 @@
3\first@}
\else
\xdef\first@{\csname res\the\loopcount\endcsname}
+ \ifnum\divref@=\loopcount\else
\xdef\low@up{lower} \ifx\res@llm@tch\low@up \make@lower \else
\xdef\low@up{upper} \ifx\res@llm@tch\low@up
- \else \xdef\first@{\res@llm@tch} \fi\fi
+ \else \xdef\first@{\res@llm@tch} \fi\fi\fi
\expandafter\ifx\csname tint@seq\the\loopcount\endcsname\y@
\expandafter\xdef\csname tint@seq\the\loopcount\endcsname{n}
\xdef\first@{=\first@}\fi
@@ -10904,6 +11342,7 @@
\fi
\fi\fi
\ifnum\loopcount<\seq@count \repeat
+ \ifx\hide@now\n@
\loopcount=0
\expandafter\ifx\csname shade@style\the\loopcount\endcsname\y@
\else
@@ -10923,6 +11362,7 @@
&\csname shade@style\the\loopcount\endcsname)}
\fi
\ifnum\loopcount<\seq@count \repeat
+ \fi
}
\def\getregion@fromemphstack@first{%
@@ -11081,7 +11521,7 @@
}
\def\calc@frame{%
- \advance\pos@count by -1
+% \advance\pos@count by -1
\loopcount=-1 \innerloopcount=0
\loop
\advance\loopcount by 1
@@ -11141,7 +11581,7 @@
\fi
\fi\fi
\ifnum\loopcount<\seq@count \repeat
- \advance\pos@count by 1
+% \advance\pos@count by 1
}
\def\get@nextres#1#2:{%
@@ -11870,7 +12310,7 @@
\def\calc@feature{%
- \advance\pos@count by -1
+% \advance\pos@count by -1
\loopcount=-1 \innerloopcount=0
\loop
\advance\loopcount by 1
@@ -12175,12 +12615,32 @@
\fi
\fi
\ifnum\loopcount<\seq@count \repeat
- \advance\pos@count by 1
+% \advance\pos@count by 1
}
\def\c@nsensus{%
\ifnum\pos@count>\res@perline
\else
+ \global\advance\cons@count by 1\relax
+ \ifnum\cons@count=0\relax
+ \ifx\allow@zero\n@ \global\advance\cons@count by 1 \fi
+ \fi
+ \expandafter\xdef\csname res@count0\endcsname{\the\cons@count}
+ \ifx\hide@true\y@
+ \expandafter\ifx\csname hidestart0\endcsname\ampers@nd
+ \else
+ \expandafter\ifnum\csname hidestart0\endcsname>\cons@count
+ \else
+ \expandafter\ifnum\csname hidestop0\endcsname<\cons@count
+ \else
+ \xdef\hide@now{y} \xdef\eighth@{0}
+ \fi
+ \expandafter\ifnum\csname hidestop0\endcsname=\cons@count
+ \getregion@fromhidestack{0}
+ \fi
+ \fi
+ \fi
+ \fi
\loopcount=0
\loop
\advance\loopcount by 1
@@ -12198,74 +12658,112 @@
\ifx\allow@zero\n@ \advance\res@count by 1 \fi
\fi
\expandafter\xdef\csname res@count\the\loopcount\endcsname{\the\res@count}
+ \ifnum\loopcount=\exp@rt@num \xdef\sixth@{\the\res@count}\xdef\seventh@{y}\fi
+ \ifx\hide@true\y@
+ \expandafter\ifx\csname hidestart\the\loopcount\endcsname\ampers@nd
+ \else
+ \expandafter\ifnum\csname hidestart\the\loopcount\endcsname>\res@count
+ \else
+ \expandafter\ifnum\csname hidestop\the\loopcount\endcsname<\res@count
+ \else
+ \xdef\hide@now{y}\xdef\eighth@{\the\loopcount}
+ \fi
+ \expandafter\ifnum\csname hidestop\the\loopcount\endcsname=\res@count
+ \xdef\first@@{\first@}
+ \expandafter\getregion@fromhidestack{\the\loopcount}
+ \xdef\first@{\first@@}
+ \fi
+ \fi
+ \fi
+ \fi
\ifnum\loopcount=\rule@num\relax
\expandafter\ifnum\csname res@count\rule@num\endcsname=\rule@tens
- \xdef\ruler@{\ruler@ !<\rule@tens>}
+ \expandafter\ifx\csname alt@ruler\rule@tens\endcsname\relax
+ \xdef\temp@{\rule@tens}
+ \else
+ \xdef\temp@{\csname alt@ruler\rule@tens\endcsname}
+ \fi
+ \ifx\hide@now\n@ \xdef\ruler@{\ruler@ !<\temp@>} \fi
\innerloopcount=\rule@tens \advance\innerloopcount by \ruler@step\relax
\ifnum\innerloopcount=0
\ifx\allow@zero\n@ \innerloopcount=\ruler@step \fi
\fi
\xdef\rule@tens{\the\innerloopcount}
\else
- \xdef\ruler@{\ruler@ -}
+ \ifx\hide@now\n@ \xdef\ruler@{\ruler@ -} \fi
\fi
- \fi
- \ifx\collect@valtop\yes
- \ifnum\v@lseqtop=\loopcount
- \xdef\v@ltop{\v@ltop,\csname \ffourth@top\first@\endcsname}
- \fi\fi
- \ifx\collect@valttop\yes
- \ifnum\v@lseqttop=\loopcount
- \xdef\v@lttop{\v@lttop,\csname \ffourth@ttop\first@\endcsname}
- \fi\fi
- \ifx\collect@valbottom\yes
- \ifnum\v@lseqbottom=\loopcount
- \xdef\v@lbottom{\v@lbottom,\csname \ffourth@bottom\first@\endcsname}
- \fi\fi
- \ifx\collect@valbbottom\yes
- \ifnum\v@lseqbbottom=\loopcount
- \xdef\v@lbbottom{\v@lbbottom,\csname \ffourth@bbottom\first@\endcsname}
- \fi\fi
- \ifx\collect@restop\yes
- \ifnum\tr@nsseqtop=\loopcount
- \xdef\last@restop{\last@@restop}
- \xdef\tr@nslatetop{\tr@nslatetop\first@}
- \xdef\last@@restop{\first@}
- \innerloopcount=\triple@counttop
- \advance\innerloopcount by 1
- \ifnum\innerloopcount>3 \innerloopcount=1 \fi
- \xdef\triple@counttop{\the\innerloopcount}
- \fi\fi
- \ifx\collect@resttop\yes
- \ifnum\tr@nsseqttop=\loopcount
- \xdef\last@resttop{\last@@resttop}
- \xdef\tr@nslatettop{\tr@nslatettop\first@}
- \xdef\last@@resttop{\first@}
- \innerloopcount=\triple@countttop
- \advance\innerloopcount by 1
- \ifnum\innerloopcount>3 \innerloopcount=1 \fi
- \xdef\triple@countttop{\the\innerloopcount}
- \fi\fi
- \ifx\collect@resbottom\yes
- \ifnum\tr@nsseqbottom=\loopcount
- \xdef\last@resbottom{\last@@resbottom}
- \xdef\tr@nslatebottom{\tr@nslatebottom\first@}
- \xdef\last@@resbottom{\first@}
- \innerloopcount=\triple@countbottom
- \advance\innerloopcount by 1
- \ifnum\innerloopcount>3 \innerloopcount=1 \fi
- \xdef\triple@countbottom{\the\innerloopcount}
- \fi\fi
- \ifx\collect@resbbottom\yes
- \ifnum\tr@nsseqbbottom=\loopcount
- \xdef\last@resbbottom{\last@@resbbottom}
- \xdef\tr@nslatebbottom{\tr@nslatebbottom\first@}
- \xdef\last@@resbbottom{\first@}
- \innerloopcount=\triple@countbbottom
- \advance\innerloopcount by 1
- \ifnum\innerloopcount>3 \innerloopcount=1 \fi
- \xdef\triple@countbbottom{\the\innerloopcount}
- \fi\fi
+ \xdef\temp@{\csname res@count\rule@num\endcsname}
+ \expandafter\ifx\csname alt@ruler\temp@\endcsname\relax
+ \else
+ \expandafter\xdef\csname alt@ruler\temp@\endcsname{\temp@}
+ \fi
+ \fi
+ \ifx\hide@now\n@
+ \ifx\collect@valtop\yes
+ \ifnum\v@lseqtop=\loopcount
+ \xdef\v@ltop{\v@ltop,\csname \ffourth@top\first@\endcsname}
+ \fi\fi
+ \ifx\collect@valttop\yes
+ \ifnum\v@lseqttop=\loopcount
+ \xdef\v@lttop{\v@lttop,\csname \ffourth@ttop\first@\endcsname}
+ \fi\fi
+ \ifx\collect@valbottom\yes
+ \ifnum\v@lseqbottom=\loopcount
+ \xdef\v@lbottom{\v@lbottom,\csname \ffourth@bottom\first@\endcsname}
+ \fi\fi
+ \ifx\collect@valbbottom\yes
+ \ifnum\v@lseqbbottom=\loopcount
+ \xdef\v@lbbottom{\v@lbbottom,\csname \ffourth@bbottom\first@\endcsname}
+ \fi\fi
+ \fi
+ \ifx\collect@restop\yes
+ \ifnum\tr@nsseqtop=\loopcount
+ \xdef\last@restop{\last@@restop}
+ \xdef\last@@restop{\first@}
+ \ifx\hide@now\n@
+ \xdef\tr@nslatetop{\tr@nslatetop\first@}
+ \fi
+ \innerloopcount=\triple@counttop
+ \advance\innerloopcount by 1
+ \ifnum\innerloopcount>3 \innerloopcount=1 \fi
+ \xdef\triple@counttop{\the\innerloopcount}
+ \fi\fi
+ \ifx\collect@resttop\yes
+ \ifnum\tr@nsseqttop=\loopcount
+ \xdef\last@resttop{\last@@resttop}
+ \xdef\last@@resttop{\first@}
+ \ifx\hide@now\n@
+ \xdef\tr@nslatettop{\tr@nslatettop\first@}
+ \fi
+ \innerloopcount=\triple@countttop
+ \advance\innerloopcount by 1
+ \ifnum\innerloopcount>3 \innerloopcount=1 \fi
+ \xdef\triple@countttop{\the\innerloopcount}
+ \fi\fi
+ \ifx\collect@resbottom\yes
+ \ifnum\tr@nsseqbottom=\loopcount
+ \xdef\last@resbottom{\last@@resbottom}
+ \xdef\last@@resbottom{\first@}
+ \ifx\hide@now\n@
+ \xdef\tr@nslatebottom{\tr@nslatebottom\first@}
+ \fi
+ \innerloopcount=\triple@countbottom
+ \advance\innerloopcount by 1
+ \ifnum\innerloopcount>3 \innerloopcount=1 \fi
+ \xdef\triple@countbottom{\the\innerloopcount}
+ \fi\fi
+ \ifx\collect@resbbottom\yes
+ \ifnum\tr@nsseqbbottom=\loopcount
+ \xdef\last@resbbottom{\last@@resbbottom}
+ \xdef\last@@resbbottom{\first@}
+ \ifx\hide@now\n@
+ \xdef\tr@nslatebbottom{\tr@nslatebbottom\first@}
+ \fi
+ \innerloopcount=\triple@countbbottom
+ \advance\innerloopcount by 1
+ \ifnum\innerloopcount>3 \innerloopcount=1 \fi
+ \xdef\triple@countbbottom{\the\innerloopcount}
+ \fi\fi
\innerloopcount=\csname mol@weight\the\loopcount\endcsname
\advance\innerloopcount by \csname \prefix@ mw\first@\endcsname
\expandafter\xdef\csname mol@weight\the\loopcount\endcsname{%
@@ -12275,7 +12773,8 @@
\expandafter\xdef\csname ch@rge\the\loopcount\endcsname{%
\the\innerloopcount}
\else
- \ifnum\loopcount=\rule@num \xdef\ruler@{\ruler@ -} \fi
+ \ifnum\loopcount=\rule@num \ifx\hide@now\n@ \xdef\ruler@{\ruler@ -} \fi\fi
+ \ifx\hide@now\n@
\ifx\collect@valtop\yes
\ifnum\v@lseqtop=\loopcount
\xdef\v@ltop{\v@ltop,N}
@@ -12308,8 +12807,31 @@
\ifnum\tr@nsseqbbottom=\loopcount
\xdef\tr@nslatebbottom{\tr@nslatebbottom -}
\fi\fi
+ \fi
\fi
\ifnum\loopcount<\seq@count \repeat
+ \ifnum\rule@num=0
+ \ifnum\cons@count=\rule@tens
+ \expandafter\ifx\csname alt@ruler\rule@tens\endcsname\relax
+ \xdef\temp@{\rule@tens}
+ \else
+ \xdef\temp@{\csname alt@ruler\rule@tens\endcsname}
+ \fi
+ \ifx\hide@now\n@ \xdef\ruler@{\ruler@ !<\temp@>} \fi
+ \innerloopcount=\rule@tens \advance\innerloopcount by \ruler@step\relax
+ \ifnum\innerloopcount=0
+ \ifx\allow@zero\n@ \innerloopcount=\ruler@step \fi
+ \fi
+ \xdef\rule@tens{\the\innerloopcount}
+ \else
+ \ifx\hide@now\n@ \xdef\ruler@{\ruler@ -} \fi
+ \fi
+ \expandafter\ifx\csname alt@ruler\the\cons@count\endcsname\relax
+ \else
+ \expandafter\xdef\csname alt@ruler\the\cons@count\endcsname{\the\cons@count}
+ \fi
+ \fi
+ \ifx\hide@now\n@
\ifx\collect@cons@graphtop\yes
\outerloopcount=1\relax
\temp@count=0\relax
@@ -12345,34 +12867,48 @@
\ifnum\outerloopcount<5\relax\outerloopcount=5\fi
\xdef\c@nscol{\c@nscol\the\outerloopcount,}
\fi
+ \ifx\exp@rt\y@
+ \ifx\seventh@\y@
+ \outerloopcount=1\relax
+ \temp@count=0\relax
+ \sum@up@cons
+ \outerloopcount=\cons@val
+ \advance\outerloopcount by 4
+ \divide\outerloopcount by 5
+ \multiply\outerloopcount by 5
+ \ifnum\outerloopcount<5\relax\outerloopcount=5\fi
+ \xdef\seventh@{n}
+ \immediate\write\exp@rtfile{\string color col\the\outerloopcount, resi \sixth@}
+ \fi
+ \fi
+ \fi
- \global\advance\cons@count by 1\relax
- \ifnum\cons@count=0\relax
- \ifx\allow@zero\n@ \global\advance\cons@count by 1 \fi
+%%%%%%%%%%%%%
+ \ifx\hide@now\y@
+ \regionalshadenowtrue \regionaltintnowtrue
+ \regionalemphnowtrue \framenowtrue
\fi
- \expandafter\xdef\csname res@count0\endcsname{\the\cons@count}
- \ifnum\rule@num=0
- \ifnum\cons@count=\rule@tens
- \xdef\ruler@{\ruler@ !<\rule@tens>}
- \innerloopcount=\rule@tens \advance\innerloopcount by \ruler@step\relax
- \ifnum\innerloopcount=0
- \ifx\allow@zero\n@ \innerloopcount=\ruler@step \fi
- \fi
- \xdef\rule@tens{\the\innerloopcount}
- \else
- \xdef\ruler@{\ruler@ -}
- \fi
- \fi
+ \ifregionalshadenow \calc@regshade \fi
+ \ifregionaltintnow \calc@regtint \fi
+ \ifregionalemphnow \calc@regemph \fi
+ \ifframenow \calc@frame \fi
+ \iftopfeaturenow \xdef\bottop@{top} \calc@feature \fi
+ \ifttopfeaturenow \xdef\bottop@{ttop} \calc@feature \fi
+ \ifbottomfeaturenow \xdef\bottop@{bottom} \calc@feature \fi
+ \ifbbottomfeaturenow \xdef\bottop@{bbottom} \calc@feature \fi
+ \ifx\hide@now\y@
+ \xdef\hidebar@on{1}
+ \ifnum\pos@count=\bar@pos
+ \else
+ \loopcount=\pos@count
+ \advance\loopcount by -\bar@pos
+ \xdef\bar@pos{\the\pos@count}
+ \xdef\stylehidebar{\stylehidebar\the\loopcount;\csname hidestyle\eighth@\endcsname;\csname hidetext\eighth@\endcsname;}
+ \fi
+ \else
+%%%%%%%%%%%%%
\advance\pos@count by 1
- \ifshow@logo \calc@logo \fi
- \ifregionalshadenow \calc@regshade \fi
- \ifregionaltintnow \calc@regtint \fi
- \ifregionalemphnow \calc@regemph \fi
- \ifframenow \calc@frame \fi
- \iftopfeaturenow \xdef\bottop@{top} \calc@feature \fi
- \ifttopfeaturenow \xdef\bottop@{ttop} \calc@feature \fi
- \ifbottomfeaturenow \xdef\bottop@{bottom} \calc@feature \fi
- \ifbbottomfeaturenow \xdef\bottop@{bbottom} \calc@feature \fi
+ \ifshow@logo \calc@logo \fi
\ifall@fshade \all@funcshade
\else
\ifnum\cons@num>0 \loopcount=\cons@num \else \loopcount=\seq@count \fi
@@ -12383,6 +12919,10 @@
\else \xdef\c@se{1} \check@ident \fi
\ifcase\match@case \unc@nserved \or \c@nserved \or \allm@tch \else \functi@nal \fi
\fi
+%%%%%%%%
+ \fi
+ \xdef\hide@now{n}
+%%%%%%%%
\expandafter\ifnum\csname res@count\start@seq\endcsname<\end@num\relax
\c@nsensus
\else
@@ -12396,6 +12936,14 @@
\pos@count=0
\fi
\fi}
+
+\def\prep@reexp@rtfile{
+ \loopcount=0
+ \loop
+ \advance\loopcount by 5
+ \immediate\write\exp@rtfile{\string set_color col\the\loopcount, \csname\c@nsc@l\the\loopcount\endcsname}
+ \ifnum\loopcount>95\else\repeat
+}
\def\c@unt{%
\advance\loopcount by 1
@@ -12434,8 +12982,10 @@
\csname sequence\the\loopcount\endcsname @}
\ifnum\loopcount<\seq@count \repeat
\end@count=0 \count@first \end@count=0 \xdef\start@number{0}
- \regionalshadenowfalse \regionalemphnowfalse \regionaltintnowfalse
- \framenowfalse
+ \ifx\hide@now\n@
+ \regionalshadenowfalse \regionalemphnowfalse \regionaltintnowfalse
+ \framenowfalse
+ \fi
\topfeaturenowfalse \bottomfeaturenowfalse
\ttopfeaturenowfalse \bbottomfeaturenowfalse
\innerloopcount=\cons@count
@@ -12447,7 +12997,7 @@
\expandafter\ifnum\csname start\the\loopcount\endcsname>%
\innerloopcount
\else
- \regionalshadenowtrue
+ \regionalshadenowtrue
\fi
\fi
\fi
@@ -12457,7 +13007,7 @@
\expandafter\ifnum\csname tintstart\the\loopcount\endcsname>%
\innerloopcount
\else
- \regionaltintnowtrue
+ \regionaltintnowtrue
\fi
\fi
\fi
@@ -12467,7 +13017,8 @@
\expandafter\ifnum\csname emphstart\the\loopcount\endcsname>%
\innerloopcount
\else
- \regionalemphnowtrue
+ \else
+ \regionalemphnowtrue
\fi
\fi
\fi
@@ -12583,7 +13134,7 @@
\expandafter\ifnum\csname tintstart\the\loopcount\endcsname>%
\innerloopcount
\else
- \regionaltintnowtrue
+ \regionaltintnowtrue
\fi
\fi
\fi
@@ -12969,66 +13520,69 @@
\def\get@rulenum<#1>#2@{%
\xdef\first@{#2@}%
+ \xdef\fill@char{#1[,]&}%
+ \expandafter\opt@color\fill@char%
+ \ifx\f@color\comm@\xdef\f@color{\ruler@fg}\fi%
\ifcase\rule@top
\ifnum\ruler@rot=0 %
\xdef\temp@{tt}%
\ifx\ruler@family\temp@%
- \def\third@{\ensuremath{\,\stackrel{\mathtt{#1}}{.}}}%
+ \def\third@{\ensuremath{\,\stackrel{\mathtt{\fourth@}}{\textcolor{\ruler@fg}{.}}}}%
\else
\xdef\temp@{sf}%
\ifx\ruler@family\temp@%
- \def\third@{\ensuremath{\,\stackrel{\mathsf{#1}}{.}}}%
+ \def\third@{\ensuremath{\,\stackrel{\mathsf{\fourth@}}{\textcolor{\ruler@fg}{.}}}}%
\else
\xdef\temp@{rm}%
\ifx\ruler@family\temp@%
- \def\third@{\ensuremath{\,\stackrel{\mathrm{#1}}{.}}}%
+ \def\third@{\ensuremath{\,\stackrel{\mathrm{\fourth@}}{\textcolor{\ruler@fg}{.}}}}%
\fi\fi\fi
\else
\xdef\temp@{tt}%
\ifx\ruler@family\temp@%
\def\third@{\tt\bottomruler@size\,\,\,\,%
- \begin{rotopo}{90}\hbox to \ruler@width{\,\ensuremath{\cdot}\,#1\hss}\end{rotopo}}%
+ \begin{rotopo}{90}\hbox to \ruler@width{\,\textcolor{\ruler@fg}{\ensuremath{\cdot}}\,\fourth@\hss}\end{rotopo}}%
\else
\xdef\temp@{sf}%
\ifx\ruler@family\temp@%
\def\third@{\sf\bottomruler@size\,\,\,\,%
- \begin{rotopo}{90}\hbox to \ruler@width{\,\ensuremath{\cdot}\,#1\hss}\end{rotopo}}%
+ \begin{rotopo}{90}\hbox to \ruler@width{\,\textcolor{\ruler@fg}{\ensuremath{\cdot}}\,\fourth@\hss}\end{rotopo}}%
\else
\xdef\temp@{rm}%
\ifx\ruler@family\temp@%
\def\third@{\rm\bottomruler@size\,\,\,\,%
- \begin{rotopo}{90}\hbox to \ruler@width{\,\ensuremath{\cdot}\,#1\hss}\end{rotopo}}%
+ \begin{rotopo}{90}\hbox to \ruler@width{\,\textcolor{\ruler@fg}{\ensuremath{\cdot}}\,\fourth@\hss}\end{rotopo}}%
\fi\fi\fi
\fi
\else
\ifnum\ruler@rot=0 %
\xdef\temp@{tt}%
\ifx\ruler@family\temp@%
- \def\third@{\bottomruler@size\ensuremath{\,\stackrel{.}{\mathtt{#1}}}}%
+ \def\third@{\bottomruler@size\ensuremath{\,\stackrel{\textcolor{\ruler@fg}{.}}{\mathtt{\fourth@}}}}%
\else
\xdef\temp@{sf}%
\ifx\ruler@family\temp@%
- \def\third@{\bottomruler@size\ensuremath{\,\stackrel{.}{\mathsf{#1}}}}%
+ \def\third@{\bottomruler@size\ensuremath{\,\stackrel{\textcolor{\ruler@fg}{.}}{\mathsf{\fourth@}}}}%
\else
\xdef\temp@{rm}%
\ifx\ruler@family\temp@%
- \def\third@{\bottomruler@size\ensuremath{\,\stackrel{.}{\mathrm{#1}}}}%
+ \def\third@{\bottomruler@size\ensuremath{\,\stackrel{\textcolor{\ruler@fg}{.}}{\mathrm{\fourth@}}}}%
\fi\fi\fi
\else
\xdef\temp@{tt}%
\ifx\ruler@family\temp@%
\def\third@{\tt\bottomruler@size\,\,\,\,%
- \begin{rotopo}{90}\hbox to \ruler@width{\hss#1\,\ensuremath{\cdot}}\end{rotopo}}%
+ \begin{rotopo}{90}\hbox to \ruler@width{\hss\fourth@\,\textcolor{\ruler@fg}{\ensuremath{\cdot}}}\end{rotopo}}%
\else
\xdef\temp@{sf}%
\ifx\ruler@family\temp@%
\def\third@{\sf\bottomruler@size\,\,\,\,%
- \begin{rotopo}{90}\hbox to \ruler@width{\hss#1\,\ensuremath{\cdot}}\end{rotopo}}%
+ \begin{rotopo}{90}\hbox to \ruler@width{\hss\fourth@\,\textcolor{\ruler@fg}{\ensuremath{\cdot}}}\end{rotopo}}%
\else
\xdef\temp@{rm}%
\ifx\ruler@family\temp@%
\def\third@{\rm\bottomruler@size\,\,\,\,%
- \begin{rotopo}{90}\hbox to \ruler@width{\hss#1\,\ensuremath{\cdot}}\end{rotopo}}%
+ \begin{rotopo}{90}\hbox to \ruler@width{\hss\fourth@\,\textcolor{\ruler@fg}{\ensuremath{\cdot}}}\end{rotopo}}%
\fi\fi\fi
\fi
\fi}
@@ -13038,8 +13592,8 @@
\xdef\first@{#2@}%
\xdef\second@{!}%
\ifx\third@\second@ \expandafter\get@rulenum\first@%
- \else \xdef\third@{}\fi
- \hbox to \box@width{\hss\third@\hss}%
+ \else \xdef\third@{}\xdef\f@color{Black}\fi
+ \textcolor{\f@color}{\hbox to \box@width{\hss\third@\hss}}%
}
\def\put@rulechar{%
@@ -13080,7 +13634,7 @@
\fontseries{m}%
\fontshape{n}%
\selectfont%
- \innerloopcount=1\relax\textcolor{\ruler@fg}{\put@rulechar}%
+ \innerloopcount=1\relax\put@rulechar%
\newline\hbox{}%
}
\def\get@firstfill#1#2&{\xdef\second@@{#1}\xdef\fill@char{#2&}}
@@ -13743,6 +14297,124 @@
\fi%
\fi%
}
+\def\next@hidebar#1;#2;#3;#4@{%
+ \xdef\first@{#1}%
+ \ifx\first@\ampers@nd%
+ \else%
+ \fontfamily{\hideblock@family}\fontseries{\hideblock@series}%
+ \fontshape{\hideblock@shape}%
+ \selectfont%
+ \newline\hbox{}%
+ \ifnames@right\else\ifnames@\hbox to \name@width{\hss}\fi\fi%
+ \ifnumbers@left\ifnumbers@\hbox to \number@width{\hss}\fi\fi%
+ \hbox to -\box@width{\hss}%
+ \kern-0.1\box@width%
+ \xdef\last@{#3[,]&}\expandafter\opt@color\last@%
+ \ifx\f@color\comm@\xdef\f@color{Black}\fi%
+ \textcolor{\f@color}{%
+ \hbox to \first@\box@width{}%
+ \hbox to 0pt{\hss\strut\hideblock@size{\,\fourth@}\hss}}%
+ \xdef\last@{#2[,]&}\expandafter\opt@color\last@%
+ \ifx\f@color\comm@\xdef\f@color{Black}\fi%
+ \vspace{-0.23\box@height}%
+ \xdef\temp@{triangle}%
+ \ifx\fourth@\temp@%
+ \else
+ \xdef\temp@{square}%
+ \ifx\fourth@\temp@%
+ \else
+ \xdef\temp@{none}%
+ \ifx\fourth@\temp@%
+ \else
+ \vspace{-0.06\box@height}%
+ \fi\fi\fi%
+ \newline\hbox{}%
+ \ifnames@right\else\ifnames@\hbox to \name@width{\hss}\fi\fi%
+ \ifnumbers@left\ifnumbers@\hbox to \number@width{\hss}\fi\fi%
+ \hbox to -\box@width{\hss}%
+ \hbox to \first@\box@width{}%
+ \kern-0.1\box@width%
+ \textcolor{\f@color}{%
+ \raisebox{0.47\box@height}{\rule{0.2\box@width}{\temp@@length}}%
+ \xdef\first@{triangle}%
+ \ifx\fourth@\first@%
+ \kern-0.582\box@width%
+ \raisebox{\temp@@length}{\hbox to \box@width{\hss$\bigtriangledown$\hss}}%
+ \kern-0.418\box@width%
+ \else
+ \xdef\first@{square}%
+ \ifx\fourth@\first@%
+ \kern-0.6\box@width%
+ \raisebox{-0.12\box@height}{%
+ \raisebox{\temp@@length}{\hbox to \box@width{\hss$\square$\hss}}}%
+ \raisebox{-0.19\box@height}{%
+ \raisebox{\temp@@length}{\hbox to \box@width{\hss\strut}}}%
+ \kern-1.4\box@width%
+ \else
+ \xdef\first@{none}%
+ \ifx\fourth@\first@%
+ \kern-0.6\box@width%
+ \raisebox{-0.19\box@height}{%
+ \raisebox{\temp@@length}{\hbox to \box@width{\hss\strut}}}%
+ \kern-0.4\box@width%
+ \else
+ \kern-0.6\box@width%
+ \raisebox{\temp@@length}{\hbox to \box@width{\hss$\bigodot$\hss}}%
+ \kern-0.4\box@width%
+ \fi%
+ \fi%
+ \fi%
+ \kern-0.58\box@width%
+ \raisebox{\temp@@length}{\hbox to \box@width{\hss$\bullet$\hss}}%
+ \xdef\first@{#4@}}%
+ \fi
+}
+\def\put@@hidebar{%
+ \if\first@ @%
+ \else
+ \hbox to -\box@width{\hss}%
+ \expandafter\next@hidebar\first@%
+ \put@@hidebar%
+ \fi%
+}
+\def\put@hidebar{%
+ \ifx\hide@seqs\n@%
+ \ifshow@cons\ifnum\cons@top=1 \vspace{-\baselineskip}\fi\fi%
+ \temp@count=\seq@count%
+ \advance\temp@count by 1%
+ \ifx\hide@seqs\y@
+ \advance\temp@count by -1 %
+ \else%
+ \loopcount=1%
+ \xdef\first@{true}%
+ \loop%
+ \expandafter\ifx\csname hide@seq\the\loopcount\endcsname\first@%
+ \advance\temp@count by -1\fi%
+ \advance\loopcount by 1%
+ \ifnum\loopcount>\seq@count\else\repeat%
+ \fi
+ \ifnum\temp@count>0%
+ \setlength\temp@@length{\box@height}%
+ \advance\temp@@length by \box@depth%
+ \setlength\arrow@height{0.5\temp@@length}%
+ \setlength\temp@@length{\temp@count\temp@@length}%
+ \advance\temp@@length by \arrow@height%
+ \advance\temp@@length by -0.75\box@height%%%%%%%
+ \setlength\arrow@width{\sep@space}%
+ \setlength\arrow@width{\seq@gap@num\arrow@width}%
+ \advance\temp@@length by \arrow@width%
+ \vspace{\arrow@height}%
+ \vspace{-\temp@@length}%
+ \vspace{-2.56\baselineskip}%
+ \xdef\first@{\stylehidebar @}%
+ \put@@hidebar%
+ \vspace{-\arrow@height}%
+ \vspace{-0.47\box@height}%
+ \ifshow@cons\ifnum\cons@top=1 \vspace{\baselineskip}\fi\fi%
+ \newline\hbox{}%
+ \fi%
+ \fi%
+}
\def\decimal@A#1#2@{%
\def\decimal@AB##1##2@{\xdef\temp@{##1.##2}}%
\xdef\temp@@{#1}%
@@ -14180,7 +14852,7 @@
\def\set@lines{%
\pos@count=1
- \xdef\frame@pos{1}%
+ \xdef\frame@pos{1}\xdef\bar@pos{0}\xdef\hidebar@on{0}%
\xdef\featurepostop{1}\xdef\featureposbottom{1}%
\xdef\featureposttop{1}\xdef\featureposbbottom{1}%
\findc@nsensus%
@@ -14280,6 +14952,9 @@
\ifnum\frame@on=0 \xdef\frame@{0}\fi%
\put@frame%
\fi%
+ \ifnum\hidebar@on=1 %
+ \put@hidebar%
+ \fi%
\ifshow@logo\ifnum\logo@top=1 %
\xdef\last@{\stack@sequencelogo @}%
\ifx\logo@name@user\ampers@nd\xdef\logo@name{logo}\else\xdef\logo@name{\logo@name@user}\fi
@@ -14345,7 +15020,7 @@
\fi
\fi
\xdef\consensus{} \xdef\ruler@{}
- \xdef\styleframe{}
+ \xdef\styleframe{} \xdef\stylehidebar{}
\xdef\textfeaturetop{} \xdef\textfeaturebottom{}
\xdef\textfeaturettop{} \xdef\textfeaturebbottom{}
\xdef\stylefeaturetop{} \xdef\stylefeaturebottom{}
@@ -14457,7 +15132,7 @@
\xdef\textfeaturettop{} \xdef\featureonttop{0}
\xdef\textfeaturebottom{} \xdef\featureonbottom{0}
\xdef\textfeaturebbottom{}\xdef\featureonbbottom{0}
- \xdef\styleframe{}
+ \xdef\styleframe{} \xdef\stylehidebar{}
\xdef\stylefeaturetop{}
\xdef\stylefeaturettop{}
\xdef\stylefeaturebottom{}
@@ -14550,6 +15225,7 @@
\res@count=0
\innerloopcount=0
\residue@count
+ \if\seq@type A \guess@DNA \fi
\advance\seq@pointer by \res@count\relax
\xdef\total@pos{\the\total@count}
\ifnum\end@num>\end@count\relax\xdef\end@num{\the\end@count}\fi
@@ -14593,6 +15269,7 @@
\res@count=0
\innerloopcount=0
\residue@count
+ \if\seq@type A \guess@DNA \fi
\advance\seq@pointer by \res@count
\xdef\total@pos{\the\total@count}
\ifnum\end@num>\end@count\relax\xdef\end@num{\the\end@count}\fi
@@ -14614,6 +15291,7 @@
\else \start@true \fi
\res@count=0 \seq@pointer=0 \end@count=0 \total@count=0
\xdef\start@number{0}
+ \ifx\exp@rt\y@ \prep@reexp@rtfile \fi
\ifx\f@st@\y@
\loopcount=0
\read@fasta
@@ -14621,7 +15299,6 @@
\loopcount=1
\read@loop
\fi
- \if\seq@type A \guess@DNA \fi
\ifnum\seq@pointer>0
\ifstop@
\else
@@ -14631,6 +15308,7 @@
\fi
\fi
\ifshow@sublogo \closein\sublogofile \fi
+ \ifx\exp@rt\y@ \closeout\exp@rtfile \fi
\closein\alignfile
\message{)}
}
@@ -14730,6 +15408,7 @@
\loopcount=0 \xdef\seq@order{}
\expandafter\xdef\csname stack@reg\the\loopcount\endcsname{&;&;&;&;@}
\expandafter\xdef\csname stack@tintreg\the\loopcount\endcsname{&;&;&;@}
+ \expandafter\xdef\csname stack@hidereg\the\loopcount\endcsname{&;&;&;&;@}
\expandafter\xdef\csname stack@emphreg\the\loopcount\endcsname{&;&;&;@}
\expandafter\xdef\csname stack@framereg\the\loopcount\endcsname{&;&;&;@}
\expandafter\xdef\csname stack@top\the\loopcount\endcsname{&;&;&;&;@}
@@ -14753,6 +15432,7 @@
\expandafter\xdef\csname number@col\the\loopcount\endcsname{yes}
\expandafter\xdef\csname stack@reg\the\loopcount\endcsname{&;&;&;&;@}
\expandafter\xdef\csname stack@tintreg\the\loopcount\endcsname{&;&;&;@}
+ \expandafter\xdef\csname stack@hidereg\the\loopcount\endcsname{&;&;&;&;@}
\expandafter\xdef\csname stack@emphreg\the\loopcount\endcsname{&;&;&;@}
\expandafter\xdef\csname stack@framereg\the\loopcount\endcsname{&;&;&;@}
\expandafter\xdef\csname stack@top\the\loopcount\endcsname{&;&;&;&;@}
@@ -14796,6 +15476,7 @@
\ifshow@cons\setbox1=\hbox{\cons@name}\name@width=\wd1\else\name@width=0pt\fi
\loopcount=0
\expandafter\getregion@fromstack{\the\loopcount}
+ \expandafter\getregion@fromhidestack{\the\loopcount}
\expandafter\getregion@fromtintstack{\the\loopcount}
\expandafter\getregion@fromemphstack{\the\loopcount}
\expandafter\getregion@fromframestack{\the\loopcount}
@@ -14842,6 +15523,7 @@
\baselineskip=\box@height \advance\baselineskip by \box@depth
\fi
\expandafter\getregion@fromstack{\the\loopcount}
+ \expandafter\getregion@fromhidestack{\the\loopcount}
\expandafter\getregion@fromtintstack{\the\loopcount}
\expandafter\getregion@fromemphstack{\the\loopcount}
\expandafter\getregion@fromframestack{\the\loopcount}
@@ -15150,6 +15832,10 @@
\xdef\logo@name@user{&} \xdef\sublogo@name@user{&}
\expandafter\xdef\csname group@num1\endcsname{0}
\expandafter\xdef\csname group@num2\endcsname{0}
+\xdef\exp@rt@num{0} \xdef\exp@rt{n}
+\xdef\hide@true{n} \xdef\hide@now{n}
+\xdef\hide@label{circ}
+\xdef\divref@{0}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%% %%%%%
@@ -15233,6 +15919,10 @@
\setseries{featurestyles}{md} % Use normal series for feature styles
\setshape {featurestyles}{up} % Use upright shape for feature styles
\setsize {featurestyles}{normalsize}% Use normal size for feature styles
+\setfamily{hideblock}{rm} % Use roman family for hidden block labels
+\setseries{hideblock}{md} % Use normal series for hidden block labels
+\setshape {hideblock}{it} % Use italics shape for hidden block labels
+\setsize {hideblock}{normalsize} % Use normal size for hidden block labels
\setfamily{legend}{tt} % Use typewriter family for legend texts
\setseries{legend}{md} % Use normal series for legend texts
\setshape {legend}{up} % Use upright shape for legend texts
@@ -15416,6 +16106,10 @@
\setseries{features}{md} % Use normal series for feature texts
\setshape {features}{it} % Use italics shape for feature texts
\setsize {features}{normalsize} % Use normal size for feature texts
+\setfamily{hideblock}{rm} % Use roman family for hidden block labels
+\setseries{hideblock}{md} % Use normal series for hidden block labels
+\setshape {hideblock}{it} % Use italics shape for hidden block labels
+\setsize {hideblock}{normalsize} % Use normal size for hidden block labels
\setfamily{legend}{tt} % Use typewriter family for legend texts
\setseries{legend}{md} % Use normal series for legend texts
\setshape {legend}{up} % Use upright shape for legend texts
diff --git a/Master/texmf-dist/source/latex/texshade/texshade.ins b/Master/texmf-dist/source/latex/texshade/texshade.ins
index be0114678f9..26560329661 100644
--- a/Master/texmf-dist/source/latex/texshade/texshade.ins
+++ b/Master/texmf-dist/source/latex/texshade/texshade.ins
@@ -1,7 +1,7 @@
%%
%% docstrip install file for texshade.sty
%%
-%% Copyright 1999-2006 Eric Beitz
+%% Copyright 1999-2007 Eric Beitz
%%
\def\batchfile{texshade.ins}
@@ -14,7 +14,7 @@
LaTeX package for typesetting nucleotide and peptide alignments
-Copyright (C) 1999-2006 Eric Beitz
+Copyright (C) 1999-2007 Eric Beitz
See the file texshade.txt
\endpreamble
generated by cgit v1.2.3 (git 2.39.1) at 2024-11-08 05:34:44 +0000