Rainer M Krug writes: > Thorsten Jolitz writes: > >> Rainer M Krug writes: >> >> Hi Rainer, >> >> sorry for the late reply, I was offline some time. > > No problem. > >> >>> I have modified the variable transfer in ob-R.el so that the variable >>> transfer code is enclosed as can be seen below. >>> >>> My idea is that I can fold the R output so that the variable transfer is >>> collapsed. I understand that I can use one of the org-outside-org minor >>> modes [1] (presumibly utshine?) - but I can't figure out how. >>> >>> My questions are: >>> >>> 1) which enclosing should I use to fold the transfer code away? >> >> Outshine is like Org, no enclosing, but file structuring with >> (outcommented) headlines. > > So everything after the outcommented headline will be folded - so if I > only want to fold one part, I have to use > > ,---- > | ## * If this is folded > | SOME R CODE > | ## * This not anymore > | SOME R CODE > `---- > > which I could fold to > > ,---- > | ## * If this is folded [...] > | ## * This not anymore > | SOME R CODE > `---- > > correct? I just tried it, and get the following: Unfolded: ,---- | > | + . + ## * Variable Transfer from org | ########################################################## | ## org:variables environment created and in search path | ########################################################## | | ## * Back to normal code | here it is @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ | > > `---- where "here it is @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@" is output From normal R code in a source block evaluated. Folded: ,---- | > | + . + ## * Variable Transfer from org | ##########################################################... | here it is @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ | > > `---- Is this what is expected? Rainer > >> >>> 2) which minor mode should I use for this and how can I configure it? >> >> I'm not sure if I understand. When you use ob-R.el, you work in Org >> files with R source blocks, right? > > Correct. > >> When do you want to fold the R output below? When you are in org-mode >> or when editing source blocks in R-mode? > > The evaluated code - not in the source code. > >> >> In the former case, Org-mode is in charge and you don't need >> outshine. > > True. > >> In the latter case, you could install outshine as described in the >> docs and then add outline-minor-mode to the ESS/R mode hook, i.e. > > That's it. > >> >> ,------------------------------------------------------------------------------- >> | ;; outline >> | (when (require 'outline nil t) >> | (add-hook 'ess-mode-hook 'outline-minor-mode)) ; is that the hook for R-mode? >> | >> | ;; outshine >> | (when (require 'outshine nil t) >> | (add-hook 'outline-minor-mode-hook 'outshine-hook-function) >> | (setq outshine-use-speed-commands t)) >> `------------------------------------------------------------------------------- >> >> Outshine headlines are outcommented Org headlines, i.e. >> >> ,---------------------------------- >> | * Beginning org variable transfer >> `---------------------------------- >> >> becomes >> >> ,---------- >> | ## * Beginning org variable transfer >> `---------- >> >> in R-mode. >> >> The R output would become an outshine-subtree with the header above, >> just like in Org-mode, possibly surrounded by other subtrees. > > Sounds great - thanks a lot. I will try it out, > > Rainer > >> >>> --8<---------------cut here---------------start------------->8--- >>>> ###################################################################### >>> ## Beginning org variable transfer >>> try(detach(.org_variables_), silent=TRUE) >>> .org_variables_ <- new.env() >>> assign( 'COLUMNS', read.table("/var/folders/50/wcr5bjwn75q595n6x82gxj280000gn/T/babel-74428N93/R-import-74428U4A", header=TRUE, row.names=1, sep="\t", as.is=TRUE ), envir = .org_variables_ ); lockBinding('COLUMNS', .org_variables_) >>> assign( 'COLS_TO_EVAL', read.table("/var/folders/50/wcr5bjwn75q595n6x82gxj280000gn/T/babel-74428N93/R-import-74428hCH", header=TRUE, row.names=1, sep="\t", as.is=TRUE ), envir = .org_variables_ ); lockBinding('COLS_TO_EVAL', .org_variables_) >>> assign( 'ALLSPECIES', read.table("/var/folders/50/wcr5bjwn75q595n6x82gxj280000gn/T/babel-74428N93/R-import-74428uMN", header=TRUE, row.names=1, sep="\t", as.is=TRUE ), envir = .org_variables_ ); lockBinding('ALLSPECIES', .org_variables_) >>> assign( 'SPECIES', read.table("/var/folders/50/wcr5bjwn75q595n6x82gxj280000gn/T/babel-74428N93/R-import-744287WT", header=TRUE, row.names=1, sep="\t", as.is=TRUE ), envir = .org_variables_ ); lockBinding('SPECIES', .org_variables_) >>> assign( 'YEARS', read.table("/var/folders/50/wcr5bjwn75q595n6x82gxj280000gn/T/babel-74428N93/R-import-74428IhZ", header=TRUE, row.names=1, sep="\t", as.is=TRUE ), envir = .org_variables_ ); lockBinding('YEARS', .org_variables_) >>> assign('PRESENT', 2008, envir = .org_variables_); lockBinding('PRESENT', .org_variables_) >>> assign('MINEFFORT', 3, envir = .org_variables_); lockBinding('MINEFFORT', .org_variables_) >>> assign('PROPTRAIN', 0.6, envir = .org_variables_); lockBinding('PROPTRAIN', .org_variables_) >>> assign('RNGSEED', 13, envir = .org_variables_); lockBinding('RNGSEED', .org_variables_) >>> assign('RNGKIND', "Mersenne-Twister", envir = .org_variables_); lockBinding('RNGKIND', .org_variables_) >>> assign('RNGNORMALKIND', "Inversion", envir = .org_variables_); lockBinding('RNGNORMALKIND', .org_variables_) >>> assign('REFGRID', "./refGrid_8km.rds", envir = .org_variables_); lockBinding('REFGRID', .org_variables_) >>> assign('IFN', "./__BOX__/IFN/DB_IFN/rds/tabplot.rds", envir = .org_variables_); lockBinding('IFN', .org_variables_) >>> assign('IFNCOUNT', "./__BOX__/IFN/DB_IFN/rdsRasterized/tabplot.count.8km.rds", envir = .org_variables_); lockBinding('IFNCOUNT', .org_variables_) >>> assign('IFNMEAN', "./__BOX__/IFN/DB_IFN/rdsRasterized/tabplot.mean.8km.rds", envir = .org_variables_); lockBinding('IFNMEAN', .org_variables_) >>> assign('IFNPRES', "./__BOX__/IFN/DB_IFN/rdsRasterized/tabplot.pres.8km.rds", envir = .org_variables_); lockBinding('IFNPRES', .org_variables_) >>> assign('IFNSD', "./__BOX__/IFN/DB_IFN/rdsRasterized/tabplot.sd.8km.rds", envir = .org_variables_); lockBinding('IFNSD', .org_variables_) >>> assign('IFNTABTREE', "./__BOX__/IFN/DB_IFN/rds/tabtree.rds", envir = .org_variables_); lockBinding('IFNTABTREE', .org_variables_) >>> lockEnvironment(.org_variables_) >>> attach(.org_variables_) >>> save(.org_variables_, file='org_variables.RData') >>> ## end org variable transfer >>> ###################################################################### >>> --8<---------------cut here---------------end--------------->8--- >>> >>> >>> Footnotes: >>> [1] http://orgmode.org/worg/org-tutorials/org-outside-org.html -- Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany) Centre of Excellence for Invasion Biology Stellenbosch University South Africa Tel : +33 - (0)9 53 10 27 44 Cell: +33 - (0)6 85 62 59 98 Fax : +33 - (0)9 58 10 27 44 Fax (D): +49 - (0)3 21 21 25 22 44 email: Rainer@krugs.de Skype: RMkrug PGP: 0x0F52F982