zorder seems to cause problems when embed python in latex files
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zorder seems to cause problems when embed python in latex files
by chris-218
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Re: zorder seems to cause problems when embed python in latex files
by Michael Droettboom-3
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Re: zorder seems to cause problems when embed python in latex files
by chris-218
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On Tue, Oct 14, 2008 at 08:21:08AM -0400, Michael Droettboom wrote:
> But I've never tried this combination of python.sty/Beamer/LaTeX > personally. Can you send us the output of your plot on its own (ps or > pdf...)? Mike Wow thanks. I was afraid no one would respond. I suppose if Matplotlib is so mature that we are left worrying about bugs when embedding it in Latex then it has come a long way. :) I created a tiny test.tex that shows the problem. Just type pdflatex -shell-escape test.tex ; xpdf test.pdf in the same directory with the 2 files test.tex and python.sty below and attached. I also attached the final PDF since you asked for it. \documentclass{beamer} \usepackage{beamerthemesplit} \usepackage{graphicx} \usepackage{python} \begin{document} \title[Example of zorder trouble]{Example of zorder trouble} \author[Matplotlib fan]{Matplotlib fan} \date{} \setbeamertemplate{navigation symbols}{} \frame{\titlepage} \begin{frame}[fragile]\frametitle{No zorder - notice footer ok} \begin{python} import pylab pylab.plot(range(10), range(10)) pylab.scatter([5], [5]) pylab.savefig('plot1.pdf') print r'\includegraphics[width=200pt]{plot1.pdf}' \end{python} \end{frame} \begin{frame}[fragile]\frametitle{zorder - notice footer messed up} \begin{python} import pylab pylab.plot(range(10), range(10), zorder = 1) pylab.scatter([5], [5], zorder = 9) pylab.savefig('plot2.pdf') print r'\includegraphics[width=200pt]{plot2.pdf}' \end{python} \end{frame} \end{document} %% This program is free software; you can redistribute it and/or %% modify it under the terms of the GNU General Public License %% as published by the Free Software Foundation; either version 2 %% of the License, or (at your option) any later version. %% %% This program is distributed in the hope that it will be useful, %% but WITHOUT ANY WARRANTY; without even the implied warranty of %% MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the %% GNU General Public License for more details. %% %% You should have received a copy of the GNU General Public License %% along with this program; if not, write to the Free Software %% Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA. %% %% Author: Martin R. Ehmsen, ehmsen@.... %% Department of Mathematics and Computer Science, %% University of Southern Denmark, DK %% %% You can find an online copy of the GPL at %% http://www.gnu.org/copyleft/gpl.html . %% %% Note: shell-escape needs to be activated for this to work. %% This can either be done by passing -shell-escape as an option to %% latex or by adding/changing "shell_escape = t" in your texmf.cnf . % 0.2 -> 0.21: Moved \newwrite\@module from \@writemodule and out, since % no more than 15 \newwrites are allowed (and the previous version created a new % every time \@writemodule was called. \NeedsTeXFormat{LaTeX2e}[1994/12/01] \ProvidesPackage{python}[2007/06/07 v0.21 Python in LaTeX] \newwrite\@out \newwrite\@module \begingroup \catcode `|=0 \catcode `[=1 \catcode`]=2 \catcode `\{=12 \catcode `\}=12 \catcode`\\=12 |gdef|@xpython#1\end{python}[|immediate|write|@out[#1]|end[python]] |endgroup \def\python{\kernel@ifnextchar [{\@python}{\@python[]}} \def\@python[#1]{% \gdef\@pythoninclude{#1} \immediate\openout\@out=\jobname.py \newlinechar='15 \begingroup \catcode`\^^M=12 % \let\do\@makeother\dospecials\obeyspaces% \@xpython} \def\endpython{% \endgroup \immediate\closeout\@out \@writemodule \immediate\write18{cat \@pythoninclude\space\jobname.py | python > \jobname.py.out 2> \jobname.py.err} \immediate\input\jobname.py.out} %\immediate\write{\begin{verbatim}} %\immediate\input\jobname.py.err %\immediate\write{\end{verbatim}}} \def\@writemodule{% \immediate\openout\@module=latex.py \immediate\write\@module{jobname="\jobname"} \immediate\closeout\@module} % BUGS: % 1. If anything gets send to stderr then it should be included % in \begin{verbatim}...\end{verbatim} to be properly displayed % % \immediate\write18{cat \@pythoninclude\space\jobname.py | python > \jobname.py.out 2>\jobname.py.err} % % 2. Watch out for indentation done by aucTeX in Emacs % % 3. Let the package accept a "final version" option, such % that the output of each python run is saved such that it can be % inserted into the document by hand % (conference, journals are not likely to compile with % shell_escape or have python). % % \gdef\@prepython{} % \def\prepython#1{% % \gdef\@prepython{#1} % } % sed -e 's/^ //g' cluster.py % \immediate\write18{\@prepython\space\jobname.py > \ \documentclass{beamer} \usepackage{beamerthemesplit} \usepackage{graphicx} \usepackage{python} \begin{document} \title[Example of zorder trouble]{Example of zorder trouble} \author[Matplotlib fan]{Matplotlib fan} \date{} \setbeamertemplate{navigation symbols}{} \frame{\titlepage} \begin{frame}[fragile]\frametitle{No zorder - notice footer ok} \begin{python} import pylab pylab.plot(range(10), range(10)) pylab.scatter([5], [5]) pylab.savefig('plot1.pdf') print r'\includegraphics[width=200pt]{plot1.pdf}' \end{python} \end{frame} \begin{frame}[fragile]\frametitle{zorder - notice footer messed up} \begin{python} import pylab pylab.plot(range(10), range(10), zorder = 1) pylab.scatter([5], [5], zorder = 9) pylab.savefig('plot2.pdf') print r'\includegraphics[width=200pt]{plot2.pdf}' \end{python} \end{frame} \end{document} %% This program is free software; you can redistribute it and/or %% modify it under the terms of the GNU General Public License %% as published by the Free Software Foundation; either version 2 %% of the License, or (at your option) any later version. %% %% This program is distributed in the hope that it will be useful, %% but WITHOUT ANY WARRANTY; without even the implied warranty of %% MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the %% GNU General Public License for more details. %% %% You should have received a copy of the GNU General Public License %% along with this program; if not, write to the Free Software %% Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA. %% %% Author: Martin R. Ehmsen, ehmsen@.... %% Department of Mathematics and Computer Science, %% University of Southern Denmark, DK %% %% You can find an online copy of the GPL at %% http://www.gnu.org/copyleft/gpl.html . %% %% Note: shell-escape needs to be activated for this to work. %% This can either be done by passing -shell-escape as an option to %% latex or by adding/changing "shell_escape = t" in your texmf.cnf . % 0.2 -> 0.21: Moved \newwrite\@module from \@writemodule and out, since % no more than 15 \newwrites are allowed (and the previous version created a new % every time \@writemodule was called. \NeedsTeXFormat{LaTeX2e}[1994/12/01] \ProvidesPackage{python}[2007/06/07 v0.21 Python in LaTeX] \newwrite\@out \newwrite\@module \begingroup \catcode `|=0 \catcode `[=1 \catcode`]=2 \catcode `\{=12 \catcode `\}=12 \catcode`\\=12 |gdef|@xpython#1\end{python}[|immediate|write|@out[#1]|end[python]] |endgroup \def\python{\kernel@ifnextchar [{\@python}{\@python[]}} \def\@python[#1]{% \gdef\@pythoninclude{#1} \immediate\openout\@out=\jobname.py \newlinechar='15 \begingroup \catcode`\^^M=12 % \let\do\@makeother\dospecials\obeyspaces% \@xpython} \def\endpython{% \endgroup \immediate\closeout\@out \@writemodule \immediate\write18{cat \@pythoninclude\space\jobname.py | python > \jobname.py.out 2> \jobname.py.err} \immediate\input\jobname.py.out} %\immediate\write{\begin{verbatim}} %\immediate\input\jobname.py.err %\immediate\write{\end{verbatim}}} \def\@writemodule{% \immediate\openout\@module=latex.py \immediate\write\@module{jobname="\jobname"} \immediate\closeout\@module} % BUGS: % 1. If anything gets send to stderr then it should be included % in \begin{verbatim}...\end{verbatim} to be properly displayed % % \immediate\write18{cat \@pythoninclude\space\jobname.py | python > \jobname.py.out 2>\jobname.py.err} % % 2. Watch out for indentation done by aucTeX in Emacs % % 3. Let the package accept a "final version" option, such % that the output of each python run is saved such that it can be % inserted into the document by hand % (conference, journals are not likely to compile with % shell_escape or have python). % % \gdef\@prepython{} % \def\prepython#1{% % \gdef\@prepython{#1} % } % sed -e 's/^ //g' cluster.py % \immediate\write18{\@prepython\space\jobname.py > \ ------------------------------------------------------------------------- This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK & win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/ _______________________________________________ Matplotlib-users mailing list Matplotlib-users@... https://lists.sourceforge.net/lists/listinfo/matplotlib-users |
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Re: zorder seems to cause problems when embed python in latex files
by Michael Droettboom-3
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With the file you sent, I can see the messed up footer in xpdf, but not
in acroread. There are a number of times that I have seen xpdf not completely support the PDF spec, and this may be one of them. Creating my own files, however, I'm not able to reproduce this here. When I compile your test.tex, I get an error, even though it seems to have loaded the python.sty file. Not sure why (see attached log). When I generate the plots "offline", and then hack test.tex to simply include the files, everything works fine, and I don't see a problem with the footers with either xpdf or acroread. There was a recent bug discovered in matplotlib where PDF files weren't always getting flushed completely. I don't *think* that's the cause of this, but if you could reproduce what I did (generate the plots independently of TeX and then load them), and that works for you, that might point to something like that. There was also a bug a few months back where xpdf didn't like the way matplotlib handled reusing the same graphic multiple times (which is used for markers). That may be why you're seeing the footer bug and I'm not -- you didn't mention which version of matplotlib you're running, so it's hard to say. Here's my versions of all the various moving pieces: > pdfTeX (Web2C 7.4.5) 3.14159-1.10b > kpathsea version 3.4.5 > Copyright (C) 1997-2003 Han The Thanh. Beamer 3.00 python 2.5.2 matplotlib SVN (today) Acroread 8.1.1 xpdf 3.00 That python.sty stuff looks really cool, by the way. I haven't come across it before. Mike chris@... wrote: > On Tue, Oct 14, 2008 at 08:21:08AM -0400, Michael Droettboom wrote: > >> But I've never tried this combination of python.sty/Beamer/LaTeX >> personally. Can you send us the output of your plot on its own (ps or >> pdf...)? >> > > Mike > > Wow thanks. I was afraid no one would respond. I suppose if Matplotlib is so > mature that we are left worrying about bugs when embedding it in Latex then it > has come a long way. :) > > I created a tiny test.tex that shows the problem. Just type > > pdflatex -shell-escape test.tex ; xpdf test.pdf > > in the same directory with the 2 files test.tex and python.sty below and > attached. I also attached the final PDF since you asked for it. > > \documentclass{beamer} > \usepackage{beamerthemesplit} > \usepackage{graphicx} > \usepackage{python} > \begin{document} > \title[Example of zorder trouble]{Example of zorder trouble} > \author[Matplotlib fan]{Matplotlib fan} > \date{} > \setbeamertemplate{navigation symbols}{} > \frame{\titlepage} > > \begin{frame}[fragile]\frametitle{No zorder - notice footer ok} > \begin{python} > import pylab > pylab.plot(range(10), range(10)) > pylab.scatter([5], [5]) > pylab.savefig('plot1.pdf') > print r'\includegraphics[width=200pt]{plot1.pdf}' > \end{python} > \end{frame} > > \begin{frame}[fragile]\frametitle{zorder - notice footer messed up} > \begin{python} > import pylab > pylab.plot(range(10), range(10), zorder = 1) > pylab.scatter([5], [5], zorder = 9) > pylab.savefig('plot2.pdf') > print r'\includegraphics[width=200pt]{plot2.pdf}' > \end{python} > \end{frame} > > \end{document} > > > > > > > %% This program is free software; you can redistribute it and/or > %% modify it under the terms of the GNU General Public License > %% as published by the Free Software Foundation; either version 2 > %% of the License, or (at your option) any later version. > %% > %% This program is distributed in the hope that it will be useful, > %% but WITHOUT ANY WARRANTY; without even the implied warranty of > %% MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the > %% GNU General Public License for more details. > %% > %% You should have received a copy of the GNU General Public License > %% along with this program; if not, write to the Free Software > %% Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA. > %% > %% Author: Martin R. Ehmsen, ehmsen@.... > %% Department of Mathematics and Computer Science, > %% University of Southern Denmark, DK > %% > %% You can find an online copy of the GPL at > %% http://www.gnu.org/copyleft/gpl.html . > %% > %% Note: shell-escape needs to be activated for this to work. > %% This can either be done by passing -shell-escape as an option to > %% latex or by adding/changing "shell_escape = t" in your texmf.cnf . > > % 0.2 -> 0.21: Moved \newwrite\@module from \@writemodule and out, since > % no more than 15 \newwrites are allowed (and the previous version created a new > % every time \@writemodule was called. > > \NeedsTeXFormat{LaTeX2e}[1994/12/01] > \ProvidesPackage{python}[2007/06/07 v0.21 Python in LaTeX] > > \newwrite\@out > \newwrite\@module > > \begingroup \catcode `|=0 \catcode `[=1 > \catcode`]=2 \catcode `\{=12 \catcode `\}=12 > \catcode`\\=12 |gdef|@xpython#1\end{python}[|immediate|write|@out[#1]|end[python]] > |endgroup > > \def\python{\kernel@ifnextchar [{\@python}{\@python[]}} > > \def\@python[#1]{% > \gdef\@pythoninclude{#1} > \immediate\openout\@out=\jobname.py > \newlinechar='15 > \begingroup \catcode`\^^M=12 % > \let\do\@makeother\dospecials\obeyspaces% > \@xpython} > > \def\endpython{% > \endgroup > \immediate\closeout\@out > \@writemodule > \immediate\write18{cat \@pythoninclude\space\jobname.py | python > \jobname.py.out 2> \jobname.py.err} > \immediate\input\jobname.py.out} > %\immediate\write{\begin{verbatim}} > %\immediate\input\jobname.py.err > %\immediate\write{\end{verbatim}}} > > \def\@writemodule{% > \immediate\openout\@module=latex.py > \immediate\write\@module{jobname="\jobname"} > \immediate\closeout\@module} > > % BUGS: > % 1. If anything gets send to stderr then it should be included > % in \begin{verbatim}...\end{verbatim} to be properly displayed > % > % \immediate\write18{cat \@pythoninclude\space\jobname.py | python > \jobname.py.out 2>\jobname.py.err} > % > % 2. Watch out for indentation done by aucTeX in Emacs > % > % 3. Let the package accept a "final version" option, such > % that the output of each python run is saved such that it can be > % inserted into the document by hand > % (conference, journals are not likely to compile with > % shell_escape or have python). > % > % \gdef\@prepython{} > % \def\prepython#1{% > % \gdef\@prepython{#1} > % } > % sed -e 's/^ //g' cluster.py > % \immediate\write18{\@prepython\space\jobname.py > \ > Michael Droettboom Science Software Branch Operations and Engineering Division Space Telescope Science Institute Operated by AURA for NASA This is pdfTeX, Version 3.14159-1.10b (Web2C 7.4.5) (format=pdflatex 2007.11.14) 14 OCT 2008 14:46 \write18 enabled. **test.tex (./test.tex{/usr/share/texmf/pdftex/config/pdftex.cfg} LaTeX2e <2001/06/01> Babel <v3.7h> and hyphenation patterns for american, french, german, ngerman, n ohyphenation, loaded. (/home/mdroe/texmf/tex/latex/beamer/base/beamer.cls (/home/mdroe/texmf/tex/latex/beamer/base/beamerbasercs.sty Package: beamerbasercs 2007/01/28 (rcs-revision 1.4) ) Document Class: beamer 2007/03/11 cvs version 3.07 A class for typesetting pres entations (rcs-revision 1.70) (/home/mdroe/texmf/tex/latex/beamer/base/beamerbasemodes.sty Package: beamerbasemodes 2007/01/28 (rcs-revision 1.22) \beamer@tempbox=\box26 \beamer@tempcount=\count79 \c@beamerpauses=\count80 (/home/mdroe/texmf/tex/latex/beamer/base/beamerbasedecode.sty Package: beamerbasedecode 2007/01/28 (rcs-revision 1.20) \beamer@slideinframe=\count81 \beamer@minimum=\count82 ) \beamer@commentbox=\box27 \beamer@modecount=\count83 ) \headheight=\dimen102 \headdp=\dimen103 \footheight=\dimen104 \sidebarheight=\dimen105 \beamer@tempdim=\dimen106 \beamer@finalheight=\dimen107 \beamer@animht=\dimen108 \beamer@animdp=\dimen109 \beamer@animwd=\dimen110 \beamer@leftmargin=\dimen111 \beamer@rightmargin=\dimen112 \beamer@leftsidebar=\dimen113 \beamer@rightsidebar=\dimen114 \beamer@boxsize=\dimen115 \beamer@vboxoffset=\dimen116 \beamer@descdefault=\dimen117 \beamer@descriptionwidth=\dimen118 \beamer@lastskip=\skip41 \beamer@areabox=\box28 \beamer@animcurrent=\box29 \beamer@animshowbox=\box30 \beamer@sectionbox=\box31 \beamer@logobox=\box32 \beamer@linebox=\box33 \beamer@sectioncount=\count84 \beamer@subsubsectionmax=\count85 \beamer@subsectionmax=\count86 \beamer@sectionmax=\count87 \beamer@totalheads=\count88 \beamer@headcounter=\count89 \beamer@partstartpage=\count90 \beamer@sectionstartpage=\count91 \beamer@subsectionstartpage=\count92 \beamer@animationtempa=\count93 \beamer@animationtempb=\count94 \beamer@xpos=\count95 \beamer@ypos=\count96 \beamer@showpartnumber=\count97 \beamer@currentsubsection=\count98 \beamer@coveringdepth=\count99 \beamer@sectionadjust=\count100 \beamer@tocsectionnumber=\count101 (/home/mdroe/texmf/tex/latex/beamer/base/beamerbaseoptions.sty Package: beamerbaseoptions 2007/01/28 (rcs-revision 1.8) (/usr/share/texmf/tex/latex/graphics/keyval.sty Package: keyval 1999/03/16 v1.13 key=value parser (DPC) \KV@toks@=\toks14 )) (/home/mdroe/texmf/tex/latex/pgf/latex/pgf/basiclayer/pgfcore.sty (/usr/share/texmf/tex/latex/graphics/graphicx.sty Package: graphicx 1999/02/16 v1.0f Enhanced LaTeX Graphics (DPC,SPQR) (/usr/share/texmf/tex/latex/graphics/graphics.sty Package: graphics 2001/07/07 v1.0n Standard LaTeX Graphics (DPC,SPQR) (/usr/share/texmf/tex/latex/graphics/trig.sty Package: trig 1999/03/16 v1.09 sin cos tan (DPC) ) (/usr/share/texmf/tex/latex/config/graphics.cfg File: graphics.cfg 2001/08/31 v1.1 graphics configuration of teTeX/TeXLive ) Package graphics Info: Driver file: pdftex.def on input line 80. 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LaTeX Font Info: Overwriting math alphabet `\mathtt' in version `bold' (Font) OT1/cmtt/m/n --> OT1/cmtt/bx/n on input line 5. (./test.nav) Package hyperref Warning: Option `pdfauthor' has already been used, (hyperref) setting the option has no effect on input line 7. LaTeX Font Warning: Font shape `OT1/cmss/bx/n' in size <4> not available (Font) size <5> substituted on input line 10. LaTeX Font Warning: Font shape `OT1/cmss/m/n' in size <4> not available (Font) size <5> substituted on input line 10. [1 {/usr/share/texmf/dvips/config/pdftex.map}] \openout4 = `test.vrb'. (./test.vrb ! Undefined control sequence. \python ->\kernel@ifnextchar [{\@python }{\@python []} l.2 \begin{python} ? X Here is how much of TeX's memory you used: 7659 strings out of 95437 137262 string characters out of 1190232 211820 words of memory out of 1000001 10424 multiletter control sequences out of 10000+50000 6730 words of font info for 24 fonts, out of 500000 for 1000 14 hyphenation exceptions out of 1000 41i,15n,45p,341b,545s stack positions out of 1500i,500n,5000p,200000b,5000s 27 PDF objects out of 300000 4 named destinations out of 131072 36 words of extra memory for PDF output out of 65536 ! pdfTeX warning (dest): name{Navigation3} has been referenced but does not exi st, replaced by a fixed one {/usr/share/texmf/dvips/tetex/f7b6d320.enc}</usr/share/texmf/fonts/type1/bluesk y/cm/cmssbx10.pfb></usr/share/texmf/fonts/type1/bluesky/cm/cmss10.pfb></usr/sha re/texmf/fonts/type1/bluesky/cm/cmss12.pfb> Output written on test.pdf (1 page, 15392 bytes). ------------------------------------------------------------------------- This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK & win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/ _______________________________________________ Matplotlib-users mailing list Matplotlib-users@... https://lists.sourceforge.net/lists/listinfo/matplotlib-users |
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Re: zorder seems to cause problems when embed python in latex files
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Re: zorder seems to cause problems when embed python in latex files
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Re: zorder seems to cause problems when embed python in latex files
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Re: zorder seems to cause problems when embed python in latex files
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