Re: Problem with LaTeX import and svjour3
On 11/30/2012 05:28 PM, Torquil Macdonald Sørensen wrote: Hi! I seem to be unable to import a \documentclass{svjour3} LaTeX document into LyX. The tex2lyx command tells me that: Cannot read layout file `'. Error reading `' (Check `svjour3') Check your installation and try Options/Reconfigure... Error: Could not read layout file for textclass svjour3. However, I am able to compile the LaTeX document using pdflatex without problems, and I have used Option - Reconfigure in LyX several times. In addition, when starting a new LyX document, I can without any problems select the article (Springer svjour3/global) document class within the LyX document options. Exporting such a LyX document results in a LaTeX files using \documentclass{svjour3}. This LaTeX files cannot be imported back into LyX due to the error mentioned above... What am I missing? :-) I'm not sure what kind of bug this is, but it looks to me like maybe the layout file is mis-named. The layout file that's used here is svglobal3.layout. One simple solution would be: # mkdir ~/.lyx/layouts # cp /usr/share/lyx/layouts/svglobal.layout ~/.lyx/layouts/svjour3.layout then reconfigure, and it should be found. Alternatively, from the command line: # tex2lyx -c svglobal3 myfile.tex should work. Richard
Re: No references in pdf output after change to texlive2012
Am Samstag, 1. Dezember 2012, 15:54:55 schrieb Wolfgang Engelmann: just tried to export the pdf from the Embedded objects in Help and it displays both citations and references. So something must be wrong with my settings. Wolfgang Am Freitag, 30. November 2012, 23:28:55 schrieben Sie: Whenever your ref disappear, the first suspicion is that biber/biber cannot find the bib file. The second is that bibtex/biber themselves have disappeared (i.e. lyx cannot find them). Have you checked their log (DocumentLaTeX Log, then Bibtex from the drop down menu)? What does it say? Cheers, Stefano Hi, Stefano, and thanks. Could you or somebody else kindly check the included short file (bib file also added). If I run it under lyx, it does not show with my setup the citation and the references. If I export the tex file and run latex and bibtex (3 times) and do dvips it shows the reference, but not the citation (a ?). The latex logfile tells me the following Package natbib Warning: Citation `Silver2011' on page 1 undefined on input line 72. No file aTest.bbl. Package natbib Warning: There were undefined citations. I had tried it with my former texlive2011 also, same problem. Note, that I do not use biber, since there is no Vancouver layout available. I might have forgotten to set something back from the biber setup, but an old file does not work either. I am baffled. Wolfgang -- - Wolfgang Engelmann Schlossgartenstrasse 22 D-72070 Tübingen Tel 07071 68325
Re: No references in pdf output after change to texlive2012
Am Samstag, 1. Dezember 2012, 17:16:23 schrieb stefano franchi: Wolfgang, there were no files attached to your message. Cold you send them again? Best, Stefano Sorry, here they are Wolfgang On Sat, Dec 1, 2012 at 8:54 AM, Wolfgang Engelmann engelm...@uni-tuebingen.de wrote: Am Freitag, 30. November 2012, 23:28:55 schrieben Sie: Whenever your ref disappear, the first suspicion is that biber/biber cannot find the bib file. The second is that bibtex/biber themselves have disappeared (i.e. lyx cannot find them). Have you checked their log (DocumentLaTeX Log, then Bibtex from the drop down menu)? What does it say? Cheers, Stefano Hi, Stefano, and thanks. Could you or somebody else kindly check the included short file (bib file also added). If I run it under lyx, it does not show with my setup the citation and the references. If I export the tex file and run latex and bibtex (3 times) and do dvips it shows the reference, but not the citation (a ?). The latex logfile tells me the following Package natbib Warning: Citation `Silver2011' on page 1 undefined on input line 72. No file aTest.bbl. Package natbib Warning: There were undefined citations. I had tried it with my former texlive2011 also, same problem. Note, that I do not use biber, since there is no Vancouver layout available. I might have forgotten to set something back from the biber setup, but an old file does not work either. I am baffled. Wolfgang -- - Wolfgang Engelmann Schlossgartenstrasse 22 D-72070 Tübingen Tel 07071 68325 aTest.lyx Description: application/lyx % This file was created with JabRef 2.6. % Encoding: ISO8859_1 @ARTICLE{Silver2011, author = {Rae Silver and Peter D Balsam and Matthew P Butler and Joseph LeSauter}, title = {Food anticipation depends on oscillators and memories in both body and brain.}, journal = {Physiol Behav}, year = {2011}, volume = {104}, pages = {562--571}, abstract = {Despite the importance of learning and circadian rhythms to feeding, there has been relatively little effort to integrate these separate lines of research. In this review, we focus on how light and food entrainable oscillators contribute to the anticipation of food. In particular, we examine the evidence for temporal conditioning of food entrainable oscillators throughout the body. The evidence suggests a shift away from previous notions of a single locus or neural network of food entrainable oscillators to a distributed system involving dynamic feedback among cells of the body and brain. Several recent advances, including documentation of peroxiredoxin metabolic circadian oscillation and anticipatory behavior in the absence of a central nervous system, support the possibility of conditioned signals from the periphery in determining anticipatory behavior. Individuals learn to detect changes in internal and external signals that occur as a consequence of the brain and body preparing for an impending meal. Cues temporally near and far from actual energy content can then be used to optimize responses to temporally predictable and unpredictable cues in the environment.}, institution = {Department of Psychology, Columbia University, 1190 Amsterdam Avenue, New York, NY 10027, USA. q...@columbia.edu}, keywords = {Animals; Anticipation, Psychological, physiology; Biological Clocks, physiology; Brain, physiology; Feeding Behavior, physiology/psychology; Humans; Memory, physiology; Models, Biological; Psychophysiology}, language = {eng}, medline-pst = {ppublish}, owner = {wolfgang}, pii = {S0031-9384(11)00303-9}, pmid = {21664916}, timestamp = {2012.05.19} } @comment{jabref-meta: selector_publisher:} @comment{jabref-meta: selector_author:} @comment{jabref-meta: selector_journal:} @comment{jabref-meta: selector_keywords:}
Re: Problem with LaTeX import and svjour3
On 11/30/2012 05:28 PM, Torquil Macdonald Sørensen wrote: Hi! I seem to be unable to import a \documentclass{svjour3} LaTeX document into LyX. The tex2lyx command tells me that: Cannot read layout file `'. Error reading `' (Check `svjour3') Check your installation and try Options/Reconfigure... Error: Could not read layout file for textclass svjour3. However, I am able to compile the LaTeX document using pdflatex without problems, and I have used Option - Reconfigure in LyX several times. In addition, when starting a new LyX document, I can without any problems select the article (Springer svjour3/global) document class within the LyX document options. Exporting such a LyX document results in a LaTeX files using \documentclass{svjour3}. This LaTeX files cannot be imported back into LyX due to the error mentioned above... What am I missing? :-) I'm not sure what kind of bug this is, but it looks to me like maybe the layout file is mis-named. The layout file that's used here is svglobal3.layout. One simple solution would be: # mkdir ~/.lyx/layouts # cp /usr/share/lyx/layouts/svglobal.layout ~/.lyx/layouts/svjour3.layout then reconfigure, and it should be found. Alternatively, from the command line: # tex2lyx -c svglobal3 myfile.tex should work. Richard
Re: No references in pdf output after change to texlive2012
Am Samstag, 1. Dezember 2012, 15:54:55 schrieb Wolfgang Engelmann: just tried to export the pdf from the Embedded objects in Help and it displays both citations and references. So something must be wrong with my settings. Wolfgang Am Freitag, 30. November 2012, 23:28:55 schrieben Sie: Whenever your ref disappear, the first suspicion is that biber/biber cannot find the bib file. The second is that bibtex/biber themselves have disappeared (i.e. lyx cannot find them). Have you checked their log (DocumentLaTeX Log, then Bibtex from the drop down menu)? What does it say? Cheers, Stefano Hi, Stefano, and thanks. Could you or somebody else kindly check the included short file (bib file also added). If I run it under lyx, it does not show with my setup the citation and the references. If I export the tex file and run latex and bibtex (3 times) and do dvips it shows the reference, but not the citation (a ?). The latex logfile tells me the following Package natbib Warning: Citation `Silver2011' on page 1 undefined on input line 72. No file aTest.bbl. Package natbib Warning: There were undefined citations. I had tried it with my former texlive2011 also, same problem. Note, that I do not use biber, since there is no Vancouver layout available. I might have forgotten to set something back from the biber setup, but an old file does not work either. I am baffled. Wolfgang -- - Wolfgang Engelmann Schlossgartenstrasse 22 D-72070 Tübingen Tel 07071 68325
Re: No references in pdf output after change to texlive2012
Am Samstag, 1. Dezember 2012, 17:16:23 schrieb stefano franchi: Wolfgang, there were no files attached to your message. Cold you send them again? Best, Stefano Sorry, here they are Wolfgang On Sat, Dec 1, 2012 at 8:54 AM, Wolfgang Engelmann engelm...@uni-tuebingen.de wrote: Am Freitag, 30. November 2012, 23:28:55 schrieben Sie: Whenever your ref disappear, the first suspicion is that biber/biber cannot find the bib file. The second is that bibtex/biber themselves have disappeared (i.e. lyx cannot find them). Have you checked their log (DocumentLaTeX Log, then Bibtex from the drop down menu)? What does it say? Cheers, Stefano Hi, Stefano, and thanks. Could you or somebody else kindly check the included short file (bib file also added). If I run it under lyx, it does not show with my setup the citation and the references. If I export the tex file and run latex and bibtex (3 times) and do dvips it shows the reference, but not the citation (a ?). The latex logfile tells me the following Package natbib Warning: Citation `Silver2011' on page 1 undefined on input line 72. No file aTest.bbl. Package natbib Warning: There were undefined citations. I had tried it with my former texlive2011 also, same problem. Note, that I do not use biber, since there is no Vancouver layout available. I might have forgotten to set something back from the biber setup, but an old file does not work either. I am baffled. Wolfgang -- - Wolfgang Engelmann Schlossgartenstrasse 22 D-72070 Tübingen Tel 07071 68325 aTest.lyx Description: application/lyx % This file was created with JabRef 2.6. % Encoding: ISO8859_1 @ARTICLE{Silver2011, author = {Rae Silver and Peter D Balsam and Matthew P Butler and Joseph LeSauter}, title = {Food anticipation depends on oscillators and memories in both body and brain.}, journal = {Physiol Behav}, year = {2011}, volume = {104}, pages = {562--571}, abstract = {Despite the importance of learning and circadian rhythms to feeding, there has been relatively little effort to integrate these separate lines of research. In this review, we focus on how light and food entrainable oscillators contribute to the anticipation of food. In particular, we examine the evidence for temporal conditioning of food entrainable oscillators throughout the body. The evidence suggests a shift away from previous notions of a single locus or neural network of food entrainable oscillators to a distributed system involving dynamic feedback among cells of the body and brain. Several recent advances, including documentation of peroxiredoxin metabolic circadian oscillation and anticipatory behavior in the absence of a central nervous system, support the possibility of conditioned signals from the periphery in determining anticipatory behavior. Individuals learn to detect changes in internal and external signals that occur as a consequence of the brain and body preparing for an impending meal. Cues temporally near and far from actual energy content can then be used to optimize responses to temporally predictable and unpredictable cues in the environment.}, institution = {Department of Psychology, Columbia University, 1190 Amsterdam Avenue, New York, NY 10027, USA. q...@columbia.edu}, keywords = {Animals; Anticipation, Psychological, physiology; Biological Clocks, physiology; Brain, physiology; Feeding Behavior, physiology/psychology; Humans; Memory, physiology; Models, Biological; Psychophysiology}, language = {eng}, medline-pst = {ppublish}, owner = {wolfgang}, pii = {S0031-9384(11)00303-9}, pmid = {21664916}, timestamp = {2012.05.19} } @comment{jabref-meta: selector_publisher:} @comment{jabref-meta: selector_author:} @comment{jabref-meta: selector_journal:} @comment{jabref-meta: selector_keywords:}
Re: Problem with LaTeX import and svjour3
On 11/30/2012 05:28 PM, Torquil Macdonald Sørensen wrote: Hi! I seem to be unable to import a "\documentclass{svjour3}" LaTeX document into LyX. The tex2lyx command tells me that: Cannot read layout file `'. Error reading `' (Check `svjour3') Check your installation and try Options/Reconfigure... Error: Could not read layout file for textclass "svjour3". However, I am able to compile the LaTeX document using pdflatex without problems, and I have used "Option -> Reconfigure" in LyX several times. In addition, when starting a new LyX document, I can without any problems select the "article (Springer svjour3/global)" document class within the LyX document options. Exporting such a LyX document results in a LaTeX files using "\documentclass{svjour3}. This LaTeX files cannot be imported back into LyX due to the error mentioned above... What am I missing? :-) I'm not sure what kind of bug this is, but it looks to me like maybe the layout file is mis-named. The layout file that's used here is svglobal3.layout. One simple solution would be: # mkdir ~/.lyx/layouts # cp /usr/share/lyx/layouts/svglobal.layout ~/.lyx/layouts/svjour3.layout then reconfigure, and it should be found. Alternatively, from the command line: # tex2lyx -c svglobal3 myfile.tex should work. Richard
Re: No references in pdf output after change to texlive2012
Am Samstag, 1. Dezember 2012, 15:54:55 schrieb Wolfgang Engelmann: just tried to export the pdf from the Embedded objects in Help and it displays both citations and references. So something must be wrong with my settings. Wolfgang > Am Freitag, 30. November 2012, 23:28:55 schrieben Sie: > > Whenever your ref disappear, the first suspicion is that biber/biber > > cannot find the bib file. The second is that bibtex/biber themselves > > have disappeared (i.e. lyx cannot find them). > > Have you checked their log (Document>>LaTeX Log, then "Bibtex" from > > the drop down menu)? What does it say? > > > > Cheers, > > > > Stefano > > Hi, Stefano, > and thanks. > > Could you or somebody else kindly check the included short file (bib > file also added). > If I run it under lyx, it does not show with my setup the citation and > the references. If I export the tex file and run latex and bibtex (3 > times) and do dvips it shows the reference, but not the citation (a ?). > > The latex logfile tells me the following > Package natbib Warning: Citation `Silver2011' on page 1 undefined on > input line > 72. > No file aTest.bbl. > Package natbib Warning: There were undefined citations. > > I had tried it with my former texlive2011 also, same problem. Note, that > I do not use biber, since there is no Vancouver layout available. I > might have forgotten to set something back from the biber setup, but an > old file does not work either. > > I am baffled. > > Wolfgang -- - Wolfgang Engelmann Schlossgartenstrasse 22 D-72070 Tübingen Tel 07071 68325
Re: No references in pdf output after change to texlive2012
Am Samstag, 1. Dezember 2012, 17:16:23 schrieb stefano franchi: > Wolfgang, > > there were no files attached to your message. > > Cold you send them again? > > Best, > > Stefano Sorry, here they are Wolfgang > > > On Sat, Dec 1, 2012 at 8:54 AM, Wolfgang Engelmann < > > engelm...@uni-tuebingen.de> wrote: > > Am Freitag, 30. November 2012, 23:28:55 schrieben Sie: > > > Whenever your ref disappear, the first suspicion is that biber/biber > > > cannot find the bib file. The second is that bibtex/biber > > > themselves have disappeared (i.e. lyx cannot find them). > > > Have you checked their log (Document>>LaTeX Log, then "Bibtex" from > > > the drop down menu)? What does it say? > > > > > > Cheers, > > > > > > Stefano > > > > Hi, Stefano, > > and thanks. > > > > Could you or somebody else kindly check the included short file (bib > > file also added). > > If I run it under lyx, it does not show with my setup the citation > > and the references. If I export the tex file and run latex and bibtex > > (3 times) and do dvips it shows the reference, but not the citation > > (a ?). > > > > The latex logfile tells me the following > > Package natbib Warning: Citation `Silver2011' on page 1 undefined on > > input line > > > > 72. > > > > No file aTest.bbl. > > Package natbib Warning: There were undefined citations. > > > > I had tried it with my former texlive2011 also, same problem. Note, > > that I do not use biber, since there is no Vancouver layout > > available. I might have forgotten to set something back from the > > biber setup, but an old file does not work either. > > > > I am baffled. > > > > Wolfgang -- - Wolfgang Engelmann Schlossgartenstrasse 22 D-72070 Tübingen Tel 07071 68325 aTest.lyx Description: application/lyx % This file was created with JabRef 2.6. % Encoding: ISO8859_1 @ARTICLE{Silver2011, author = {Rae Silver and Peter D Balsam and Matthew P Butler and Joseph LeSauter}, title = {Food anticipation depends on oscillators and memories in both body and brain.}, journal = {Physiol Behav}, year = {2011}, volume = {104}, pages = {562--571}, abstract = {Despite the importance of learning and circadian rhythms to feeding, there has been relatively little effort to integrate these separate lines of research. In this review, we focus on how light and food entrainable oscillators contribute to the anticipation of food. In particular, we examine the evidence for temporal conditioning of food entrainable oscillators throughout the body. The evidence suggests a shift away from previous notions of a single locus or neural network of food entrainable oscillators to a distributed system involving dynamic feedback among cells of the body and brain. Several recent advances, including documentation of peroxiredoxin metabolic circadian oscillation and anticipatory behavior in the absence of a central nervous system, support the possibility of conditioned signals from the periphery in determining anticipatory behavior. Individuals learn to detect changes in internal and external signals that occur as a consequence of the brain and body preparing for an impending meal. Cues temporally near and far from actual energy content can then be used to optimize responses to temporally predictable and unpredictable cues in the environment.}, institution = {Department of Psychology, Columbia University, 1190 Amsterdam Avenue, New York, NY 10027, USA. q...@columbia.edu}, keywords = {Animals; Anticipation, Psychological, physiology; Biological Clocks, physiology; Brain, physiology; Feeding Behavior, physiology/psychology; Humans; Memory, physiology; Models, Biological; Psychophysiology}, language = {eng}, medline-pst = {ppublish}, owner = {wolfgang}, pii = {S0031-9384(11)00303-9}, pmid = {21664916}, timestamp = {2012.05.19} } @comment{jabref-meta: selector_publisher:} @comment{jabref-meta: selector_author:} @comment{jabref-meta: selector_journal:} @comment{jabref-meta: selector_keywords:}