Re: [Bioc-devel] how to declare vignette processing properly

2016-05-06 Thread Dan Tenenbaum
Dan Tenenbaum wrote: >> Is pandoc-citeproc installed? >> >> >> - Original Message ----- >>> From: "Vincent Carey" >>> To: "Andrzej Oleś" >>> Cc: "bioc-devel" >>> Sent: Friday, May 6, 2016 9:44:06 AM &g

Re: [Bioc-devel] how to declare vignette processing properly

2016-05-06 Thread Leonardo Collado Torres
Cc: "bioc-devel" >> Sent: Friday, May 6, 2016 9:44:06 AM >> Subject: Re: [Bioc-devel] how to declare vignette processing properly > >> Thanks Andrzej, can you give a bit more diagnosis? Is 1.13.1 too old? >> >> %derby01> pandoc -v >> >> p

Re: [Bioc-devel] how to declare vignette processing properly

2016-05-06 Thread Vincent Carey
t; Cc: "bioc-devel" > > Sent: Friday, May 6, 2016 9:44:06 AM > > Subject: Re: [Bioc-devel] how to declare vignette processing properly > > > Thanks Andrzej, can you give a bit more diagnosis? Is 1.13.1 too old? > > > > %derby01> pandoc -v &

Re: [Bioc-devel] how to declare vignette processing properly

2016-05-06 Thread Dan Tenenbaum
Is pandoc-citeproc installed? - Original Message - > From: "Vincent Carey" > To: "Andrzej Oleś" > Cc: "bioc-devel" > Sent: Friday, May 6, 2016 9:44:06 AM > Subject: Re: [Bioc-devel] how to declare vignette processing properly > Thanks

Re: [Bioc-devel] how to declare vignette processing properly

2016-05-06 Thread Vincent Carey
Thanks Andrzej, can you give a bit more diagnosis? Is 1.13.1 too old? %derby01> pandoc -v pandoc 1.13.1 Compiled with texmath 0.8, highlighting-kate 0.5.11. Syntax highlighting is supported for the following languages: abc, actionscript, ada, agda, apache, asn1, asp, awk, bash, bibtex, bo

Re: [Bioc-devel] how to declare vignette processing properly

2016-05-06 Thread Andrzej Oleś
Hi Vince, this is most probably due to missing/incorrect pandoc installation. Cheers, Andrzej On Fri, May 6, 2016 at 6:18 PM, Vincent Carey wrote: > this is for the current svn version of yriMulti, from 00check.log > > * checking re-building of vignette outputs ... WARNING > > Error in re-buil

[Bioc-devel] how to declare vignette processing properly

2016-05-06 Thread Vincent Carey
this is for the current svn version of yriMulti, from 00check.log * checking re-building of vignette outputs ... WARNING Error in re-building vignettes: ... Warning in (if (grepl("\\.[Rr]md$", file)) knit2html else if (grepl("\\.[Rr]rst$", : It seems you should call rmarkdown::render() in