Re: Using Sweave with LyX

Le 03/07/2015 15:06, Rich Shepard a écrit : On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the =...@ syntax. Jean-Marc, I do not see such an environment. You do not see Chunk in InsertCustom Inset ?

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 03, 2015 at 05:59:44AM -0700, Rich Shepard wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and compile, does it

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the =...@ syntax. Jean-Marc, I do not see such an environment. The document suffix is .lyx. When you want to preview, LyX outputs a .Rnw file, runs sweave

Re: Using Sweave with LyX [RESOLVED]

On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: You do not see Chunk in InsertCustom Inset ? This is weird. Jean-Marc, There, yes. I was looking in the combobox on the extreme left of the icon bar. Well, did you add some read.table statement to read it? Without an example file, it is

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and compile, does it work? Scott, Interesting. I'll take a little time to try

Re: Using Sweave with LyX

On Fri, Jul 3, 2015 at 4:29 PM, Jean-Marc Lasgouttes lasgout...@lyx.org wrote: Le 03/07/2015 15:06, Rich Shepard a écrit : On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the =...@ syntax. Jean-Marc,

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Scott Kostyshak wrote: On Fri, Jul 03, 2015 at 10:21:27AM -0700, Rich Shepard wrote: Here's the chunk: show-off= rnorm(5) @ Just to be clear, the above is in ERT or in the Chunk inset? Scott, Chunk. Can you please send the document with the above chunk in it?

Re: Using Sweave with LyX [RESOLVED]

On Fri, Jul 3, 2015 at 5:06 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: You do not see Chunk in InsertCustom Inset ? This is weird. Jean-Marc, There, yes. I was looking in the combobox on the extreme left of the icon bar. Well, did

Re: Using Sweave with LyX [FIXED -- FOR REAL]

On Fri, 3 Jul 2015, Rich Shepard wrote: Can you please send the document with the above chunk in it? Later. Aha! Found the problem: it was the Sweave-options box at the top of the document. Removed that and all's well. Obviously, knitr does not like that remnant. Sorry for the

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and compile, does it work? Scott, That's certainly a brief manual. :-) If so,

Re: Using Sweave with LyX [FIXED -- FOR REAL]

On Fri, Jul 03, 2015 at 11:37:38AM -0700, Rich Shepard wrote: On Fri, 3 Jul 2015, Rich Shepard wrote: Can you please send the document with the above chunk in it? Later. Aha! Found the problem: it was the Sweave-options box at the top of the document. Removed that and all's well.

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 2:59 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and

Re: Using Sweave with LyX

On Fri, Jul 03, 2015 at 10:21:27AM -0700, Rich Shepard wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: Here's the chunk: show-off= rnorm(5) @ Just to be clear, the above is in ERT or in the Chunk inset? Can you please send the document with the above chunk in it? and here's the

Re: Using Sweave with LyX [RESOLVED]

On Fri, 3 Jul 2015, Liviu Andronic wrote: It's not very clear what you're trying to do, but you can always load(.RData) towards the beginning, and then reuse existing objects from a previously saved workspace. Liviu, Thank you. I'll try that. Rich

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: If you have the results already ready, then what you generally want to do is: load(.RData) Liviu, For some reason this does not allow a function (saved in the current workspace) to be found and run in a knitr chunk in the lyx document. It does run

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: It should. Try to inspect how the function is created, whether the function object exists, if the workspace is loaded as expected, etc. Liviu, The function exists in the workspace. But, I cannot list the workspace objects (see attached .pdf).

xvdik/pdf problem

I recently upgraded to lyx 2.1.2 and now to 2.1.3 The following preamble worked fine until I did the upgrade to 2.1.2 and 2.1.3 didn't help. * \usepackage{geometry} * \newgeometry{top=.85in, bottom=.85in, left=1.30in, right=.65in} *

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 11:30 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: I would like to backtrack on this. Let's change this is not just a personal preference to this is just a personal preference. Please google to read about the differences.

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 10:33 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Liviu Andronic wrote: It should. Try to inspect how the function is created, whether the function object exists, if the workspace is loaded as expected, etc. Liviu, The function exists in

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 4:09 PM, Liviu Andronic landronim...@gmail.com wrote: At the same time it can be a pain until you get the hang of it. Right now I use a mix where I prepare the data and save it in the workspace, load workspace, and run needed code from there. It's not reproducible as

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: I strongly agree. It takes a long time to get it right (and right is of course subjective and depends on your workflow). For me, a lot of it has to do with how long each chunk takes to run. If it is short, then it is in as a simple chunk. If it is

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 4:17 AM, Scott Kostyshak skost...@lyx.org wrote: On Thu, Jul 02, 2015 at 03:16:05PM -0700, Rich Shepard wrote: On Thu, 2 Jul 2015, Rich Shepard wrote: How do I tell Sweave that the data frame, b.cast, is in the same directory as the document? And, ... there is no

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 9:29 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Liviu Andronic wrote: If you have the results already ready, then what you generally want to do is: load(.RData) Liviu, For some reason this does not allow a function (saved in the current

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: results=hide or echo=FALSE Liviu, is your friend, depending on what you want to hide. Using LyX chunks, you would right-click in Chunk to insert Options argument, and insert the above in there. Thank you. A chunk MUST always be on its own

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: I would like to backtrack on this. Let's change this is not just a personal preference to this is just a personal preference. Please google to read about the differences. Scott, Eh, semantics. From what I've read knitr is an augmented Sweave that

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: While not developed much these days, Sweave has the merit of being stable and mostly ironed out; updating your installation is unlikely to break your documents. Makes sense. knitr on the other hand can be a moving target, and not always backwards

Re: xvdik/pdf problem

I should note that the reason I updated to 2.1.2 was that I upgraded from Debian Wheezy to Debian Jessie. I bet some package was omitted in the upgrade process. On Friday, July 03, 2015 02:01:44 PM John White wrote: I recently upgraded to lyx 2.1.2 and now to 2.1.3 The following preamble

Re: Bibliography does not print when using biblatex instead of bibtex

On 07/02/2015 09:37 PM, Benedict Holland wrote: I have been working with biblatex now for over a year. It is exceptionally complex. It might actually be too complex to automate. I can't even think up a decent UI to present the hundreds of different configuration options, and there are probably

Re: Using Sweave with LyX -- TeX Compilation Output

On Thu, Jul 02, 2015 at 03:16:05PM -0700, Rich Shepard wrote: On Thu, 2 Jul 2015, Rich Shepard wrote: How do I tell Sweave that the data frame, b.cast, is in the same directory as the document? And, ... there is no Sweave article class; I've been using KOMA-article. Rich Hi Rich,

Re: Using Sweave with LyX

Le 02/07/2015 23:25, Rich Shepard a écrit : 1.) When the document refers to the 'Chunk' environment I assume that's the LyX-code in the menu and is different from Insert - TeX code (C-l on my system) which inserts the infamous ERT box. As a test, I opened a LaTeX box and inserted

Re: Bibliography does not print when using biblatex instead of bibtex

On 07/02/2015 09:37 PM, Benedict Holland wrote: I have been working with biblatex now for over a year. It is exceptionally complex. It might actually be too complex to automate. I can't even think up a decent UI to present the hundreds of different configuration options, and there are probably

Re: Using Sweave with LyX -- TeX Compilation Output

On Thu, Jul 02, 2015 at 03:16:05PM -0700, Rich Shepard wrote: On Thu, 2 Jul 2015, Rich Shepard wrote: How do I tell Sweave that the data frame, b.cast, is in the same directory as the document? And, ... there is no Sweave article class; I've been using KOMA-article. Rich Hi Rich,

Re: Using Sweave with LyX

Le 02/07/2015 23:25, Rich Shepard a écrit : 1.) When the document refers to the 'Chunk' environment I assume that's the LyX-code in the menu and is different from Insert - TeX code (C-l on my system) which inserts the infamous ERT box. As a test, I opened a LaTeX box and inserted

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and compile, does it work? Scott, Interesting. I'll take a little time to try

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 03, 2015 at 05:59:44AM -0700, Rich Shepard wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and compile, does it

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the =...@ syntax. Jean-Marc, I do not see such an environment. The document suffix is .lyx. When you want to preview, LyX outputs a .Rnw file, runs sweave

Re: Using Sweave with LyX

Le 03/07/2015 15:06, Rich Shepard a écrit : On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the =...@ syntax. Jean-Marc, I do not see such an environment. You do not see Chunk in InsertCustom Inset ?

Re: Using Sweave with LyX [RESOLVED]

On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: You do not see Chunk in InsertCustom Inset ? This is weird. Jean-Marc, There, yes. I was looking in the combobox on the extreme left of the icon bar. Well, did you add some read.table statement to read it? Without an example file, it is

Re: Using Sweave with LyX

On Fri, Jul 3, 2015 at 4:29 PM, Jean-Marc Lasgouttes lasgout...@lyx.org wrote: Le 03/07/2015 15:06, Rich Shepard a écrit : On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the =...@ syntax. Jean-Marc,

Re: Using Sweave with LyX [RESOLVED]

On Fri, Jul 3, 2015 at 5:06 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: You do not see Chunk in InsertCustom Inset ? This is weird. Jean-Marc, There, yes. I was looking in the combobox on the extreme left of the icon bar. Well, did

Re: Using Sweave with LyX [RESOLVED]

On Fri, 3 Jul 2015, Liviu Andronic wrote: It's not very clear what you're trying to do, but you can always load(.RData) towards the beginning, and then reuse existing objects from a previously saved workspace. Liviu, Thank you. I'll try that. Rich

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and compile, does it work? Scott, That's certainly a brief manual. :-) If so,

Re: Using Sweave with LyX

On Fri, Jul 03, 2015 at 10:21:27AM -0700, Rich Shepard wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: Here's the chunk: show-off= rnorm(5) @ Just to be clear, the above is in ERT or in the Chunk inset? Can you please send the document with the above chunk in it? and here's the

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Scott Kostyshak wrote: On Fri, Jul 03, 2015 at 10:21:27AM -0700, Rich Shepard wrote: Here's the chunk: show-off= rnorm(5) @ Just to be clear, the above is in ERT or in the Chunk inset? Scott, Chunk. Can you please send the document with the above chunk in it?

Re: Using Sweave with LyX [FIXED -- FOR REAL]

On Fri, 3 Jul 2015, Rich Shepard wrote: Can you please send the document with the above chunk in it? Later. Aha! Found the problem: it was the Sweave-options box at the top of the document. Removed that and all's well. Obviously, knitr does not like that remnant. Sorry for the

Re: Using Sweave with LyX [FIXED -- FOR REAL]

On Fri, Jul 03, 2015 at 11:37:38AM -0700, Rich Shepard wrote: On Fri, 3 Jul 2015, Rich Shepard wrote: Can you please send the document with the above chunk in it? Later. Aha! Found the problem: it was the Sweave-options box at the top of the document. Removed that and all's well.

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 2:59 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help Specific Manuals Knitr and

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: If you have the results already ready, then what you generally want to do is: load(.RData) Liviu, For some reason this does not allow a function (saved in the current workspace) to be found and run in a knitr chunk in the lyx document. It does run

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 9:29 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Liviu Andronic wrote: If you have the results already ready, then what you generally want to do is: load(.RData) Liviu, For some reason this does not allow a function (saved in the current

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 4:09 PM, Liviu Andronic landronim...@gmail.com wrote: At the same time it can be a pain until you get the hang of it. Right now I use a mix where I prepare the data and save it in the workspace, load workspace, and run needed code from there. It's not reproducible as

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: It should. Try to inspect how the function is created, whether the function object exists, if the workspace is loaded as expected, etc. Liviu, The function exists in the workspace. But, I cannot list the workspace objects (see attached .pdf).

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: I strongly agree. It takes a long time to get it right (and right is of course subjective and depends on your workflow). For me, a lot of it has to do with how long each chunk takes to run. If it is short, then it is in as a simple chunk. If it is

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 10:33 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Liviu Andronic wrote: It should. Try to inspect how the function is created, whether the function object exists, if the workspace is loaded as expected, etc. Liviu, The function exists in

xvdik/pdf problem

I recently upgraded to lyx 2.1.2 and now to 2.1.3 The following preamble worked fine until I did the upgrade to 2.1.2 and 2.1.3 didn't help. * \usepackage{geometry} * \newgeometry{top=.85in, bottom=.85in, left=1.30in, right=.65in} *

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: results=hide or echo=FALSE Liviu, is your friend, depending on what you want to hide. Using LyX chunks, you would right-click in Chunk to insert Options argument, and insert the above in there. Thank you. A chunk MUST always be on its own

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 4:17 AM, Scott Kostyshak skost...@lyx.org wrote: On Thu, Jul 02, 2015 at 03:16:05PM -0700, Rich Shepard wrote: On Thu, 2 Jul 2015, Rich Shepard wrote: How do I tell Sweave that the data frame, b.cast, is in the same directory as the document? And, ... there is no

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: I would like to backtrack on this. Let's change this is not just a personal preference to this is just a personal preference. Please google to read about the differences. Scott, Eh, semantics. From what I've read knitr is an augmented Sweave that

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 11:30 PM, Rich Shepard rshep...@appl-ecosys.com wrote: On Fri, 3 Jul 2015, Scott Kostyshak wrote: I would like to backtrack on this. Let's change this is not just a personal preference to this is just a personal preference. Please google to read about the differences.

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: While not developed much these days, Sweave has the merit of being stable and mostly ironed out; updating your installation is unlikely to break your documents. Makes sense. knitr on the other hand can be a moving target, and not always backwards

Re: xvdik/pdf problem

I should note that the reason I updated to 2.1.2 was that I upgraded from Debian Wheezy to Debian Jessie. I bet some package was omitted in the upgrade process. On Friday, July 03, 2015 02:01:44 PM John White wrote: I recently upgraded to lyx 2.1.2 and now to 2.1.3 The following preamble

Re: Bibliography does not print when using biblatex instead of bibtex

On 07/02/2015 09:37 PM, Benedict Holland wrote: I have been working with biblatex now for over a year. It is exceptionally complex. It might actually be too complex to automate. I can't even think up a decent UI to present the hundreds of different configuration options, and there are probably

Re: Using Sweave with LyX -- TeX Compilation Output

On Thu, Jul 02, 2015 at 03:16:05PM -0700, Rich Shepard wrote: > On Thu, 2 Jul 2015, Rich Shepard wrote: > > > How do I tell Sweave that the data frame, b.cast, is in the same directory > >as the document? > > And, ... there is no Sweave article class; I've been using KOMA-article. > > Rich

Re: Using Sweave with LyX

Le 02/07/2015 23:25, Rich Shepard a écrit : 1.) When the document refers to the 'Chunk' environment I assume that's the LyX-code in the menu and is different from Insert -> TeX code (C-l on my system) which inserts the infamous ERT box. As a test, I opened a LaTeX box and inserted >

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help > Specific Manuals > Knitr and compile, does it work? Scott, Interesting. I'll take a little time to try

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 03, 2015 at 05:59:44AM -0700, Rich Shepard wrote: > On Fri, 3 Jul 2015, Scott Kostyshak wrote: > > >Let's take this step-by-step. First, I strongly recommend using knitr over > >Sweave (this is not just a personal preference). If you go to Help > > >Specific Manuals > Knitr and

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the <<>>=...@ syntax. Jean-Marc, I do not see such an environment. The document suffix is .lyx. When you want to preview, LyX outputs a .Rnw file, runs

Re: Using Sweave with LyX

Le 03/07/2015 15:06, Rich Shepard a écrit : On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: In 2.1.x, you can use the Chunk custom inset instead of ERT; it handles transparently the <<>>=...@ syntax. Jean-Marc, I do not see such an environment. You do not see Chunk in Insert>Custom

Re: Using Sweave with LyX [RESOLVED]

On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: You do not see Chunk in Insert>Custom Inset ? This is weird. Jean-Marc, There, yes. I was looking in the combobox on the extreme left of the icon bar. Well, did you add some read.table statement to read it? Without an example file, it is

Re: Using Sweave with LyX

On Fri, Jul 3, 2015 at 4:29 PM, Jean-Marc Lasgouttes wrote: > Le 03/07/2015 15:06, Rich Shepard a écrit : >> >> On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: >> >>> In 2.1.x, you can use the Chunk custom inset instead of ERT; it >>> handles transparently the <<>>=...@

Re: Using Sweave with LyX [RESOLVED]

On Fri, Jul 3, 2015 at 5:06 PM, Rich Shepard wrote: > On Fri, 3 Jul 2015, Jean-Marc Lasgouttes wrote: > >> You do not see Chunk in Insert>Custom Inset ? This is weird. > > > Jean-Marc, > > There, yes. I was looking in the combobox on the extreme left of the icon > bar.

Re: Using Sweave with LyX [RESOLVED]

On Fri, 3 Jul 2015, Liviu Andronic wrote: It's not very clear what you're trying to do, but you can always load(".RData") towards the beginning, and then reuse existing objects from a previously saved workspace. Liviu, Thank you. I'll try that. Rich

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Scott Kostyshak wrote: Let's take this step-by-step. First, I strongly recommend using knitr over Sweave (this is not just a personal preference). If you go to Help > Specific Manuals > Knitr and compile, does it work? Scott, That's certainly a brief manual. :-) If

Re: Using Sweave with LyX

On Fri, Jul 03, 2015 at 10:21:27AM -0700, Rich Shepard wrote: > On Fri, 3 Jul 2015, Scott Kostyshak wrote: > Here's the chunk: > > <>= > rnorm(5) > @ Just to be clear, the above is in ERT or in the Chunk inset? Can you please send the document with the above "chunk" in it? > and here's the

Re: Using Sweave with LyX

On Fri, 3 Jul 2015, Scott Kostyshak wrote: On Fri, Jul 03, 2015 at 10:21:27AM -0700, Rich Shepard wrote: Here's the chunk: <>= rnorm(5) @ Just to be clear, the above is in ERT or in the Chunk inset? Scott, Chunk. Can you please send the document with the above "chunk" in it?

Re: Using Sweave with LyX [FIXED -- FOR REAL]

On Fri, 3 Jul 2015, Rich Shepard wrote: Can you please send the document with the above "chunk" in it? Later. Aha! Found the problem: it was the Sweave-options box at the top of the document. Removed that and all's well. Obviously, knitr does not like that remnant. Sorry for the

Re: Using Sweave with LyX [FIXED -- FOR REAL]

On Fri, Jul 03, 2015 at 11:37:38AM -0700, Rich Shepard wrote: > On Fri, 3 Jul 2015, Rich Shepard wrote: > > >>Can you please send the document with the above "chunk" in it? > > > > Later. > > Aha! Found the problem: it was the Sweave-options box at the top of the > document. Removed that and

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 2:59 PM, Rich Shepard wrote: > On Fri, 3 Jul 2015, Scott Kostyshak wrote: > >> Let's take this step-by-step. First, I strongly recommend using knitr over >> Sweave (this is not just a personal preference). If you go to Help > >> Specific Manuals >

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: If you have the results already ready, then what you generally want to do is: load(".RData") Liviu, For some reason this does not allow a function (saved in the current workspace) to be found and run in a knitr chunk in the lyx document. It does

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 9:29 PM, Rich Shepard wrote: > On Fri, 3 Jul 2015, Liviu Andronic wrote: > >> If you have the results already ready, then what you generally want to do >> is: load(".RData") > > > Liviu, > > For some reason this does not allow a function (saved

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 4:09 PM, Liviu Andronic wrote: > At the same time it can be a pain until you get the hang of it. Right > now I use a mix where I prepare the data and save it in the workspace, > load workspace, and run needed code from there. It's not reproducible >

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: It should. Try to inspect how the function is created, whether the function object exists, if the workspace is loaded as expected, etc. Liviu, The function exists in the workspace. But, I cannot list the workspace objects (see attached .pdf).

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: I strongly agree. It takes a long time to get it right (and "right" is of course subjective and depends on your workflow). For me, a lot of it has to do with how long each chunk takes to run. If it is short, then it is in as a simple chunk. If it is

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 10:33 PM, Rich Shepard wrote: > On Fri, 3 Jul 2015, Liviu Andronic wrote: > >> It should. Try to inspect how the function is created, whether the >> function object exists, if the workspace is loaded as expected, etc. > > > Liviu, > > The

xvdik/pdf problem

I recently upgraded to lyx 2.1.2 and now to 2.1.3 The following preamble worked fine until I did the upgrade to 2.1.2 and 2.1.3 didn't help. * \usepackage{geometry} * \newgeometry{top=.85in, bottom=.85in, left=1.30in, right=.65in} *

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: results="hide" or echo=FALSE Liviu, is your friend, depending on what you want to hide. Using LyX chunks, you would right-click in Chunk to insert Options argument, and insert the above in there. Thank you. A chunk MUST always be on its own

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 4:17 AM, Scott Kostyshak wrote: > On Thu, Jul 02, 2015 at 03:16:05PM -0700, Rich Shepard wrote: >> On Thu, 2 Jul 2015, Rich Shepard wrote: >> >> > How do I tell Sweave that the data frame, b.cast, is in the same directory >> >as the document? >> >> And,

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Scott Kostyshak wrote: I would like to backtrack on this. Let's change "this is not just a personal preference" to "this is just a personal preference". Please google to read about the differences. Scott, Eh, semantics. From what I've read knitr is an augmented Sweave

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, Jul 3, 2015 at 11:30 PM, Rich Shepard wrote: > On Fri, 3 Jul 2015, Scott Kostyshak wrote: > >> I would like to backtrack on this. Let's change "this is not just a >> personal preference" to "this is just a personal preference". Please >> google to read about the

Re: Using Sweave with LyX -- TeX Compilation Output

On Fri, 3 Jul 2015, Liviu Andronic wrote: While not developed much these days, Sweave has the merit of being stable and mostly ironed out; updating your installation is unlikely to break your documents. Makes sense. knitr on the other hand can be a moving target, and not always backwards

Re: xvdik/pdf problem

I should note that the reason I updated to 2.1.2 was that I upgraded from Debian Wheezy to Debian Jessie. I bet some package was omitted in the upgrade process. On Friday, July 03, 2015 02:01:44 PM John White wrote: > I recently upgraded to lyx 2.1.2 and now to 2.1.3 > > The following