Re: lyx in arabic or persian

[Scott Kostyshak]

On Sun, May 26, 2013 at 12:43 PM, Uwe Stöhr uwesto...@web.de wrote:
 On Wed, Jan 30, 2013 at 1:50 PM, Parastoo Mojabi
 parastoo.moj...@gmail.comwrote:


 I have difficulties making lyx in Farsi, I did as the internet saying, but
 article[arabic] is un available in my document class, I paste
 article-arabic.layout. every where but still doesnt work.

 Hello Parastoo,

 where have you read that you should use article[arabic] as document class
 for Farsi. Doing this can break the compilation.

 In our Wiki we have a recipe what you need to to to get Farsi to work:
 http://wiki.lyx.org/Windows/Farsi

 (Unfortunately the Ubuntu section there is incorrect because it describes a
 nasty hack.)
 The clean solution is to install the LaTeX-package arabi to your LaTeX
 distribution. This is in fact the only thing you need to do because LyX does
 then the rest for you.

 Attached if the Farsi LyX welcome file. Can you compile it?

Parastoo, I use Ubuntu and could not get the file to compile with TeX
Live 2012 but with TeX Live 2013 it works without any modification. It
might be worth trying.

Scott

Re: Two Questions

[Scott Kostyshak]

On Tue, May 28, 2013 at 3:20 AM, Wolfgang Engelmann
engelm...@uni-tuebingen.de wrote:
 Am Monday, 27. May 2013, 16:35:31 schrieb Liviu Andronic:
 Tools  Reconfigure in LyX. Then if it still uses a different PDF

 viewer, go to Tools  Prefs  File  Formats  PDF (pdflatex)  viewer



 Thanks, Liviu. I reconfigured and tried: still Okular viewer.

 I put evince at the place shown in the appendix but it still takes okular if
 I view the pdf file. Is there anything else I have to change? What does BMP
 mean? Could not find it in the various helps of LyX.

BMP is the thing you want to change. Click on the down arrow right
next to it and go to PDF (pdflatex). Change the viewer there.

Scott

Re: Fwd: Is there a template for User Guide, like the one used for Lyx

[Bruno Vernay]

On Tue, May 28, 2013 at 1:21 AM, Uwe Stöhr uwesto...@web.de wrote:
 Am 27.05.2013 17:23, schrieb Bruno Vernay:

 I found that the Lyx User Guide is quite close to what I would like
 to do. But I didn't find a template matching its document class book
 (Koma script).


 What is your LyX version, and what is your OS?
 If you are on Windows, just open an Internet connection and use the menu
 Tools-reconfigure. This will automatically install all LaTeX packages and
 document classes you need.

I use Lyx 2.0.6 on MS-Windows XP SP3.
I reconfigured it and restarted, didn't see much differences so.


 My very simple question would be: can I just open the
 doc/UserGuide.lyx, save it as myfile.lyx and start modifying the
 document ?? or is it a bad idea?

 A good idea, I would say because I also write technical documentations using
 this as template (OK, I set up the UserGuide as it currently is ;-) )

Kool. I found that even the docbook-article is OK, but requires.
Anyway, I started with the UserGuide and will stick to it for now.


 But for larger things I recommend to start with the thesis template that you
 find in LyX's template folder in the subfolder thesis.

I won't do larger things. My average document is about 20 pages (A4).
I guess 80 pages is about the maximum that can be managed in my
projects, above I split them, because nobody would consider reading
them.


 regards Uwe


One things that bugs me a lot is how cluttered the templates and
examples are. For example the new from template shows a lot of
cryptic files names that could have been categorized as scientific
journals, books, literacy, CV, asian, cyrillic, persian, bidi
languages ...
Why isn't there some kind of distribution with packages relevant to
only chemistry or games or serbian documents ?  Like the Eclipse
packages for example

Regards
Bruno

Re: Two Questions

[Wolfgang Engelmann]

Am Tuesday, 28. May 2013, 09:28:08 schrieb Scott Kostyshak:
 On Tue, May 28, 2013 at 3:20 AM, Wolfgang Engelmann
 
 engelm...@uni-tuebingen.de wrote:
  Am Monday, 27. May 2013, 16:35:31 schrieb Liviu Andronic:
  Tools  Reconfigure in LyX. Then if it still uses a different PDF
  
  viewer, go to Tools  Prefs  File  Formats  PDF (pdflatex) 
  viewer
  
  Thanks, Liviu. I reconfigured and tried: still Okular viewer.
  
  I put evince at the place shown in the appendix but it still takes
  okular if I view the pdf file. Is there anything else I have to
  change? What does BMP mean? Could not find it in the various helps of
  LyX.
 
 BMP is the thing you want to change. Click on the down arrow right
 next to it and go to PDF (pdflatex). Change the viewer there.
 
 Scott

Got it,
thanks

Just for curiosity:  What does BMP mean?

Wolfgang

Re: Two Questions

[Scott Kostyshak]

On Tue, May 28, 2013 at 5:09 AM, Wolfgang Engelmann
engelm...@uni-tuebingen.de wrote:
 Just for curiosity: What does BMP mean?

It stands for bitmap as far as I know:
http://en.wikipedia.org/wiki/BMP_file_format

Scott

Lyx biblatex biber jabref Mac OSX lion trouble

[Aleksey Orekhov]

Hello,

   I've been trying to use biblatex in LYX with the Jabref interface for
   citations on Mac OSX Lion. I have followed all of the instructions I've been
   able to find online, and have gotten it to the point where, if I export plain
   latex from LYX and compile that, run biber, then recompile, I have exactly
   what I want.

For whatever reason, I can't achieve this through the lyx interface. The lyx log
indicates that lyx IS running biber, and I looked inside of the temporary folder
lyx is using and found that a .bcf file is created.

In fact, copying my .bib file into the temporary directory and running biber
there enables lyx to produce the correct output, but this is tedious to do each
time.

Even better, all I need for a relatively permanent fix is to copy my .bib file
into the LYX temporary directory:

/private/var/folders/s3/477kfcjd2zq_0mxfxpcrbznrgn/T/lyx_tmpdir.L14372/
/lyx_tmpbuf2

Once that is done, lyx can produce the correct output with no further
intervention. Is there any way I can get lyx to do this for me, or tell it to
properly point biber towards the file?

I am running biber v0.9.9 and lyx 2.0.6

Here is a snippet from the lyx log file that deals with biber.


Package biblatex Info: Input encoding 'utf8' detected. Package biblatex Info:
Automatic encoding selection. (biblatex) Assuming data encoding
'utf8'. \openout4 = `Report.bcf'.

Package biblatex Info: Trying to load bibliographic data... Package biblatex
Info: ... file 'Report.bbl' not found. No file Report.bbl. Package biblatex
Info: Reference section=0 on input line 26. Package biblatex Info: Reference
segment=0 on input line 26. (./Report.toc) \tf@toc=\write6 \openout6 =
`Report.toc'.


LaTeX Warning: Citation 'RichardE.Neopolitan' on page 1 undefined on input line
43.

(./0_Users_cruser42_Desktop_Report_diagrams_graphs_graph2fig.tex Missing
character: There is no ; in font nullfont! Missing character: There is no ; in
font nullfont! Missing character: There is no ; in font nullfont! Missing
character: There is no ; in font nullfont! Missing character: There is no ; in
font nullfont! )

LaTeX Warning: Empty bibliography on input line 97.

Package atveryend Info: Empty hook `BeforeClearDocument' on input line 98.
[1{/usr/local/texlive/2012/texmf-var/fonts/map/pdftex/updmap/pdftex.map}


]
Package atveryend Info: Empty hook `AfterLastShipout' on input line 98.
(./Report.aux) Package atveryend Info: Executing hook `AtVeryEndDocument' on
input line 98. Package atveryend Info: Executing hook `AtEndAfterFileList' on
input line 98. Package rerunfilecheck Info: File `Report.out' has not changed.
(rerunfilecheck) Checksum: 8828D2E1D1E10CEED47733C6437ABD14;237.

LaTeX Warning: There were undefined references.


Package biblatex Warning: Please (re)run Biber on the file: (biblatex)  
 Report (biblatex)and rerun LaTeX afterwards.

Package logreq Info: Writing requests to 'Report.run.xml'. \openout1 =
`Report.run.xml'.

Thanks, Aleksey

P.S. pardon the linebreaks, gmane insisted on 80 char limit per line.

Re: Anyone using LuaTeX with LyX?

[EK]

  
  
I have only used lua indirectly, when the standard pdflatex failed
to compile a Lyx file, and I discovered by trial-and-error that
using pdf through lua did work. 
I do not know why that was, but I suspect some dependence issue.

EK


On 05/26/2013 12:54 AM, Steve Litt
  wrote:


  Hi all,

Anyone here using LuaTeX with LyX? What are some of the things you do
with LuaTeX? Has anyone found a way to make commands and environments
with Lua, rather than the unobvious LaTeX methods? What else are you
guys doing with LuaTeX.

SteveT



-- 
  
  Ehud Kaplan, Ph.D.
  Jules and Doris Stein Research to Prevent Blindness
  Professor
  Director, The laboratory of Visual  Computational
  Neuroscience
  Director, Center for Excellence in Computational 
  Systems Neuroscience
  Friedman Brain Institute
  Departments of Neuroscience, Ophthalmology, Structural 
  Chemical Biology,
  The Icahn school of medicine at Mount Sinai
  One Gustave Levy Place, 
  NY, NY, 10029 

  

Re: Lyx biblatex biber jabref Mac OSX lion trouble

[Aleksey Orekhov]

Changing my preamble to  give the full path to the bib file
 solved the problem:

before
%biblatex
\usepackage[style=ieee,natbib=true,backend=biber]{biblatex}
\addbibresource{Research.bib}

after:
%biblatex
\usepackage[style=ieee,natbib=true,backend=biber]{biblatex}
\addbibresource{/Users/Aleksey/Desktop/Report/Research.bib}

Lyx has trouble when relative paths are given here. Is this a bug?

Re: lyx in arabic or persian

[Scott Kostyshak]

On Sun, May 26, 2013 at 12:43 PM, Uwe Stöhr uwesto...@web.de wrote:
 On Wed, Jan 30, 2013 at 1:50 PM, Parastoo Mojabi
 parastoo.moj...@gmail.comwrote:


 I have difficulties making lyx in Farsi, I did as the internet saying, but
 article[arabic] is un available in my document class, I paste
 article-arabic.layout. every where but still doesnt work.

 Hello Parastoo,

 where have you read that you should use article[arabic] as document class
 for Farsi. Doing this can break the compilation.

 In our Wiki we have a recipe what you need to to to get Farsi to work:
 http://wiki.lyx.org/Windows/Farsi

 (Unfortunately the Ubuntu section there is incorrect because it describes a
 nasty hack.)
 The clean solution is to install the LaTeX-package arabi to your LaTeX
 distribution. This is in fact the only thing you need to do because LyX does
 then the rest for you.

 Attached if the Farsi LyX welcome file. Can you compile it?

Parastoo, I use Ubuntu and could not get the file to compile with TeX
Live 2012 but with TeX Live 2013 it works without any modification. It
might be worth trying.

Scott

Re: Two Questions

[Scott Kostyshak]

On Tue, May 28, 2013 at 3:20 AM, Wolfgang Engelmann
engelm...@uni-tuebingen.de wrote:
 Am Monday, 27. May 2013, 16:35:31 schrieb Liviu Andronic:
 Tools  Reconfigure in LyX. Then if it still uses a different PDF

 viewer, go to Tools  Prefs  File  Formats  PDF (pdflatex)  viewer



 Thanks, Liviu. I reconfigured and tried: still Okular viewer.

 I put evince at the place shown in the appendix but it still takes okular if
 I view the pdf file. Is there anything else I have to change? What does BMP
 mean? Could not find it in the various helps of LyX.

BMP is the thing you want to change. Click on the down arrow right
next to it and go to PDF (pdflatex). Change the viewer there.

Scott

Re: Fwd: Is there a template for User Guide, like the one used for Lyx

[Bruno Vernay]

On Tue, May 28, 2013 at 1:21 AM, Uwe Stöhr uwesto...@web.de wrote:
 Am 27.05.2013 17:23, schrieb Bruno Vernay:

 I found that the Lyx User Guide is quite close to what I would like
 to do. But I didn't find a template matching its document class book
 (Koma script).


 What is your LyX version, and what is your OS?
 If you are on Windows, just open an Internet connection and use the menu
 Tools-reconfigure. This will automatically install all LaTeX packages and
 document classes you need.

I use Lyx 2.0.6 on MS-Windows XP SP3.
I reconfigured it and restarted, didn't see much differences so.


 My very simple question would be: can I just open the
 doc/UserGuide.lyx, save it as myfile.lyx and start modifying the
 document ?? or is it a bad idea?

 A good idea, I would say because I also write technical documentations using
 this as template (OK, I set up the UserGuide as it currently is ;-) )

Kool. I found that even the docbook-article is OK, but requires.
Anyway, I started with the UserGuide and will stick to it for now.


 But for larger things I recommend to start with the thesis template that you
 find in LyX's template folder in the subfolder thesis.

I won't do larger things. My average document is about 20 pages (A4).
I guess 80 pages is about the maximum that can be managed in my
projects, above I split them, because nobody would consider reading
them.


 regards Uwe


One things that bugs me a lot is how cluttered the templates and
examples are. For example the new from template shows a lot of
cryptic files names that could have been categorized as scientific
journals, books, literacy, CV, asian, cyrillic, persian, bidi
languages ...
Why isn't there some kind of distribution with packages relevant to
only chemistry or games or serbian documents ?  Like the Eclipse
packages for example

Regards
Bruno

Re: Two Questions

[Wolfgang Engelmann]

Am Tuesday, 28. May 2013, 09:28:08 schrieb Scott Kostyshak:
 On Tue, May 28, 2013 at 3:20 AM, Wolfgang Engelmann
 
 engelm...@uni-tuebingen.de wrote:
  Am Monday, 27. May 2013, 16:35:31 schrieb Liviu Andronic:
  Tools  Reconfigure in LyX. Then if it still uses a different PDF
  
  viewer, go to Tools  Prefs  File  Formats  PDF (pdflatex) 
  viewer
  
  Thanks, Liviu. I reconfigured and tried: still Okular viewer.
  
  I put evince at the place shown in the appendix but it still takes
  okular if I view the pdf file. Is there anything else I have to
  change? What does BMP mean? Could not find it in the various helps of
  LyX.
 
 BMP is the thing you want to change. Click on the down arrow right
 next to it and go to PDF (pdflatex). Change the viewer there.
 
 Scott

Got it,
thanks

Just for curiosity:  What does BMP mean?

Wolfgang

Re: Two Questions

[Scott Kostyshak]

On Tue, May 28, 2013 at 5:09 AM, Wolfgang Engelmann
engelm...@uni-tuebingen.de wrote:
 Just for curiosity: What does BMP mean?

It stands for bitmap as far as I know:
http://en.wikipedia.org/wiki/BMP_file_format

Scott

Lyx biblatex biber jabref Mac OSX lion trouble

[Aleksey Orekhov]

Hello,

   I've been trying to use biblatex in LYX with the Jabref interface for
   citations on Mac OSX Lion. I have followed all of the instructions I've been
   able to find online, and have gotten it to the point where, if I export plain
   latex from LYX and compile that, run biber, then recompile, I have exactly
   what I want.

For whatever reason, I can't achieve this through the lyx interface. The lyx log
indicates that lyx IS running biber, and I looked inside of the temporary folder
lyx is using and found that a .bcf file is created.

In fact, copying my .bib file into the temporary directory and running biber
there enables lyx to produce the correct output, but this is tedious to do each
time.

Even better, all I need for a relatively permanent fix is to copy my .bib file
into the LYX temporary directory:

/private/var/folders/s3/477kfcjd2zq_0mxfxpcrbznrgn/T/lyx_tmpdir.L14372/
/lyx_tmpbuf2

Once that is done, lyx can produce the correct output with no further
intervention. Is there any way I can get lyx to do this for me, or tell it to
properly point biber towards the file?

I am running biber v0.9.9 and lyx 2.0.6

Here is a snippet from the lyx log file that deals with biber.


Package biblatex Info: Input encoding 'utf8' detected. Package biblatex Info:
Automatic encoding selection. (biblatex) Assuming data encoding
'utf8'. \openout4 = `Report.bcf'.

Package biblatex Info: Trying to load bibliographic data... Package biblatex
Info: ... file 'Report.bbl' not found. No file Report.bbl. Package biblatex
Info: Reference section=0 on input line 26. Package biblatex Info: Reference
segment=0 on input line 26. (./Report.toc) \tf@toc=\write6 \openout6 =
`Report.toc'.


LaTeX Warning: Citation 'RichardE.Neopolitan' on page 1 undefined on input line
43.

(./0_Users_cruser42_Desktop_Report_diagrams_graphs_graph2fig.tex Missing
character: There is no ; in font nullfont! Missing character: There is no ; in
font nullfont! Missing character: There is no ; in font nullfont! Missing
character: There is no ; in font nullfont! Missing character: There is no ; in
font nullfont! )

LaTeX Warning: Empty bibliography on input line 97.

Package atveryend Info: Empty hook `BeforeClearDocument' on input line 98.
[1{/usr/local/texlive/2012/texmf-var/fonts/map/pdftex/updmap/pdftex.map}


]
Package atveryend Info: Empty hook `AfterLastShipout' on input line 98.
(./Report.aux) Package atveryend Info: Executing hook `AtVeryEndDocument' on
input line 98. Package atveryend Info: Executing hook `AtEndAfterFileList' on
input line 98. Package rerunfilecheck Info: File `Report.out' has not changed.
(rerunfilecheck) Checksum: 8828D2E1D1E10CEED47733C6437ABD14;237.

LaTeX Warning: There were undefined references.


Package biblatex Warning: Please (re)run Biber on the file: (biblatex)  
 Report (biblatex)and rerun LaTeX afterwards.

Package logreq Info: Writing requests to 'Report.run.xml'. \openout1 =
`Report.run.xml'.

Thanks, Aleksey

P.S. pardon the linebreaks, gmane insisted on 80 char limit per line.

Re: Anyone using LuaTeX with LyX?

[EK]

  
  
I have only used lua indirectly, when the standard pdflatex failed
to compile a Lyx file, and I discovered by trial-and-error that
using pdf through lua did work. 
I do not know why that was, but I suspect some dependence issue.

EK


On 05/26/2013 12:54 AM, Steve Litt
  wrote:


  Hi all,

Anyone here using LuaTeX with LyX? What are some of the things you do
with LuaTeX? Has anyone found a way to make commands and environments
with Lua, rather than the unobvious LaTeX methods? What else are you
guys doing with LuaTeX.

SteveT



-- 
  
  Ehud Kaplan, Ph.D.
  Jules and Doris Stein Research to Prevent Blindness
  Professor
  Director, The laboratory of Visual  Computational
  Neuroscience
  Director, Center for Excellence in Computational 
  Systems Neuroscience
  Friedman Brain Institute
  Departments of Neuroscience, Ophthalmology, Structural 
  Chemical Biology,
  The Icahn school of medicine at Mount Sinai
  One Gustave Levy Place, 
  NY, NY, 10029 

  

Re: Lyx biblatex biber jabref Mac OSX lion trouble

[Aleksey Orekhov]

Changing my preamble to  give the full path to the bib file
 solved the problem:

before
%biblatex
\usepackage[style=ieee,natbib=true,backend=biber]{biblatex}
\addbibresource{Research.bib}

after:
%biblatex
\usepackage[style=ieee,natbib=true,backend=biber]{biblatex}
\addbibresource{/Users/Aleksey/Desktop/Report/Research.bib}

Lyx has trouble when relative paths are given here. Is this a bug?

Re: lyx in arabic or persian

[Scott Kostyshak]

On Sun, May 26, 2013 at 12:43 PM, Uwe Stöhr  wrote:
> On Wed, Jan 30, 2013 at 1:50 PM, Parastoo Mojabi
> wrote:
>
>
>> I have difficulties making lyx in Farsi, I did as the internet saying, but
>> article[arabic] is un available in my document class, I paste
>> article-arabic.layout. every where but still doesnt work.
>
> Hello Parastoo,
>
> where have you read that you should use article[arabic] as document class
> for Farsi. Doing this can break the compilation.
>
> In our Wiki we have a recipe what you need to to to get Farsi to work:
> http://wiki.lyx.org/Windows/Farsi
>
> (Unfortunately the Ubuntu section there is incorrect because it describes a
> nasty hack.)
> The clean solution is to install the LaTeX-package "arabi" to your LaTeX
> distribution. This is in fact the only thing you need to do because LyX does
> then the rest for you.
>
> Attached if the Farsi LyX welcome file. Can you compile it?

Parastoo, I use Ubuntu and could not get the file to compile with TeX
Live 2012 but with TeX Live 2013 it works without any modification. It
might be worth trying.

Scott

Re: Two Questions

[Scott Kostyshak]

On Tue, May 28, 2013 at 3:20 AM, Wolfgang Engelmann
 wrote:
> Am Monday, 27. May 2013, 16:35:31 schrieb Liviu Andronic:
>> Tools > Reconfigure in LyX. Then if it still uses a different PDF
>
>> viewer, go to Tools > Prefs > File > Formats > PDF (pdflatex) > viewer
>
>
>
> Thanks, Liviu. I reconfigured and tried: still Okular viewer.
>
> I put evince at the place shown in the appendix but it still takes okular if
> I view the pdf file. Is there anything else I have to change? What does BMP
> mean? Could not find it in the various helps of LyX.

BMP is the thing you want to change. Click on the down arrow right
next to it and go to "PDF (pdflatex)". Change the viewer there.

Scott

Re: Fwd: Is there a template for "User Guide", like the one used for Lyx

[Bruno Vernay]

On Tue, May 28, 2013 at 1:21 AM, Uwe Stöhr  wrote:
> Am 27.05.2013 17:23, schrieb Bruno Vernay:
>
>> I found that the Lyx "User Guide" is quite close to what I would like
>> to do. But I didn't find a template matching its document class "book
>> (Koma script)".
>
>
> What is your LyX version, and what is your OS?
> If you are on Windows, just open an Internet connection and use the menu
> Tools->reconfigure. This will automatically install all LaTeX packages and
> document classes you need.

I use Lyx 2.0.6 on "MS-Windows XP SP3".
I reconfigured it and restarted, didn't see much differences so.

>
>> My very simple question would be: can I just open the
>> doc/UserGuide.lyx, save it as myfile.lyx and start modifying the
>> document ?? or is it a bad idea?
>
> A good idea, I would say because I also write technical documentations using
> this as template (OK, I set up the UserGuide as it currently is ;-) )

Kool. I found that even the "docbook-article" is OK, but requires.
Anyway, I started with the "UserGuide" and will stick to it for now.

>
> But for larger things I recommend to start with the thesis template that you
> find in LyX's template folder in the subfolder thesis.

I won't do larger things. My average document is about 20 pages (A4).
I guess 80 pages is about the maximum that can be managed in my
projects, above I split them, because nobody would consider reading
them.

>
> regards Uwe
>

One things that bugs me a lot is how cluttered the templates and
examples are. For example the "new from template" shows a lot of
cryptic files names that could have been categorized as scientific
journals, books, literacy, CV, asian, cyrillic, persian, bidi
languages ...
Why isn't there some kind of "distribution" with packages relevant to
only chemistry or games or serbian documents ?  Like the Eclipse
packages for example

Regards
Bruno

Re: Two Questions

[Wolfgang Engelmann]

Am Tuesday, 28. May 2013, 09:28:08 schrieb Scott Kostyshak:
> On Tue, May 28, 2013 at 3:20 AM, Wolfgang Engelmann
> 
>  wrote:
> > Am Monday, 27. May 2013, 16:35:31 schrieb Liviu Andronic:
> >> Tools > Reconfigure in LyX. Then if it still uses a different PDF
> >> 
> >> viewer, go to Tools > Prefs > File > Formats > PDF (pdflatex) >
> >> viewer
> > 
> > Thanks, Liviu. I reconfigured and tried: still Okular viewer.
> > 
> > I put evince at the place shown in the appendix but it still takes
> > okular if I view the pdf file. Is there anything else I have to
> > change? What does BMP mean? Could not find it in the various helps of
> > LyX.
> 
> BMP is the thing you want to change. Click on the down arrow right
> next to it and go to "PDF (pdflatex)". Change the viewer there.
> 
> Scott

Got it,
thanks

Just for curiosity:  What does BMP mean?

Wolfgang

Re: Two Questions

[Scott Kostyshak]

On Tue, May 28, 2013 at 5:09 AM, Wolfgang Engelmann
 wrote:
> Just for curiosity: What does BMP mean?

It stands for "bitmap" as far as I know:
http://en.wikipedia.org/wiki/BMP_file_format

Scott

Lyx biblatex biber jabref Mac OSX lion trouble

[Aleksey Orekhov]

Hello,

   I've been trying to use biblatex in LYX with the Jabref interface for
   citations on Mac OSX Lion. I have followed all of the instructions I've been
   able to find online, and have gotten it to the point where, if I export plain
   latex from LYX and compile that, run biber, then recompile, I have exactly
   what I want.

For whatever reason, I can't achieve this through the lyx interface. The lyx log
indicates that lyx IS running biber, and I looked inside of the temporary folder
lyx is using and found that a ".bcf" file is created.

In fact, copying my ".bib" file into the temporary directory and running biber
there enables lyx to produce the correct output, but this is tedious to do each
time.

Even better, all I need for a relatively permanent fix is to copy my .bib file
into the LYX temporary directory:

/private/var/folders/s3/477kfcjd2zq_0mxfxpcrbznrgn/T/lyx_tmpdir.L14372/
/lyx_tmpbuf2

Once that is done, lyx can produce the correct output with no further
intervention. Is there any way I can get lyx to do this for me, or tell it to
properly point biber towards the file?

I am running biber v0.9.9 and lyx 2.0.6

Here is a snippet from the lyx log file that deals with biber.


Package biblatex Info: Input encoding 'utf8' detected. Package biblatex Info:
Automatic encoding selection. (biblatex) Assuming data encoding
'utf8'. \openout4 = `Report.bcf'.

Package biblatex Info: Trying to load bibliographic data... Package biblatex
Info: ... file 'Report.bbl' not found. No file Report.bbl. Package biblatex
Info: Reference section=0 on input line 26. Package biblatex Info: Reference
segment=0 on input line 26. (./Report.toc) \tf@toc=\write6 \openout6 =
`Report.toc'.


LaTeX Warning: Citation 'RichardE.Neopolitan' on page 1 undefined on input line
43.

(./0_Users_cruser42_Desktop_Report_diagrams_graphs_graph2fig.tex Missing
character: There is no ; in font nullfont! Missing character: There is no ; in
font nullfont! Missing character: There is no ; in font nullfont! Missing
character: There is no ; in font nullfont! Missing character: There is no ; in
font nullfont! )

LaTeX Warning: Empty bibliography on input line 97.

Package atveryend Info: Empty hook `BeforeClearDocument' on input line 98.
[1{/usr/local/texlive/2012/texmf-var/fonts/map/pdftex/updmap/pdftex.map}


]
Package atveryend Info: Empty hook `AfterLastShipout' on input line 98.
(./Report.aux) Package atveryend Info: Executing hook `AtVeryEndDocument' on
input line 98. Package atveryend Info: Executing hook `AtEndAfterFileList' on
input line 98. Package rerunfilecheck Info: File `Report.out' has not changed.
(rerunfilecheck) Checksum: 8828D2E1D1E10CEED47733C6437ABD14;237.

LaTeX Warning: There were undefined references.


Package biblatex Warning: Please (re)run Biber on the file: (biblatex)  
 Report (biblatex)and rerun LaTeX afterwards.

Package logreq Info: Writing requests to 'Report.run.xml'. \openout1 =
`Report.run.xml'.

Thanks, Aleksey

P.S. pardon the linebreaks, gmane insisted on 80 char limit per line.

Re: Anyone using LuaTeX with LyX?

[EK]

  
  
I have only used lua indirectly, when the standard pdflatex failed
to compile a Lyx file, and I discovered by trial-and-error that
using pdf through lua did work. 
I do not know why that was, but I suspect some dependence issue.

EK


On 05/26/2013 12:54 AM, Steve Litt
  wrote:


  Hi all,

Anyone here using LuaTeX with LyX? What are some of the things you do
with LuaTeX? Has anyone found a way to make commands and environments
with Lua, rather than the unobvious LaTeX methods? What else are you
guys doing with LuaTeX.

SteveT



-- 
  
  Ehud Kaplan, Ph.D.
  Jules and Doris Stein Research to Prevent Blindness
  Professor
  Director, The laboratory of Visual & Computational
  Neuroscience
  Director, Center for Excellence in Computational &
  Systems Neuroscience
  Friedman Brain Institute
  Departments of Neuroscience, Ophthalmology, Structural &
  Chemical Biology,
  The Icahn school of medicine at Mount Sinai
  One Gustave Levy Place, 
  NY, NY, 10029 

  

Re: Lyx biblatex biber jabref Mac OSX lion trouble

[Aleksey Orekhov]

Changing my preamble to  give the full path to the bib file
 solved the problem:

before
%biblatex
\usepackage[style=ieee,natbib=true,backend=biber]{biblatex}
\addbibresource{Research.bib}

after:
%biblatex
\usepackage[style=ieee,natbib=true,backend=biber]{biblatex}
\addbibresource{/Users/Aleksey/Desktop/Report/Research.bib}

Lyx has trouble when relative paths are given here. Is this a bug?