Re: [docbook-apps] How to make chemical structure automatically numbered
Bernhard-- I'll just comment on one thing, then shut up :-). It appears you're already familiar with LaTeX. It's possible to convert DocBook to LaTeX using the dblatex program (http://dblatex.sourceforge.net/), and you can create customizations to take advantage of other LaTeX packages, etc. We've used dblatex for over a decade to do grammars; we added a few XML schemas + transformations not in standard DocBook for linguistic structures. There was a bit of a learning curve; xslt is definitely my un-favorite programming language. (Andy Black, who may be lurking on this list, helped us through the early days.) Mike Maxwell University of Maryland - To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org
Re: [docbook-apps] How to make chemical structure automatically numbered
Hi Bernhard, You said: > As long as there is no possible was to have a "proprietary"counter for structures (as figures) structures do not have anindependent numbering. The DocBook XSL stylesheets allow for a great deal of customization, so it is possible to set up independent counters if you are willing to write sufficient code. In this case, it isn't too hard because there is a separate XSL mode used for that called 'label.markup'. In the stylesheet file common/labels.xsl, you will find this template: mode="intralabel.punctuation"> When a counter needs to be generated, the stylesheet does , and the element matched is processed by this template rather than the main template for that element. All it does is output a number label. Most of the template code is handling whether or not the label contains chapter-number or just number. The key line that generates the sequence number is: This instruction is quite flexible and has a long reference page describing all the ways its attributes can be combined to do counting. One of its attributes that isn't shown is "count", which indicates what element is being counted. It isn't shown here because the default is the current context element (that element matched by the template). The count attribute holds a match expression, so can be written as: count="d:figure[@condition='chem']" so then each instance of its application will count only condition="chem"> elements. You'll need two custom xsl:templates, one to match on figure[@condition != 'chem'] and one to match on figure[@condition = 'chem']. In each, you have elements to match the condition for counting. One further complication is the word "Figure" in your language would be applied to all of them. To change that will require further customization. Bob Stayton Sagehill Enterprises b...@sagehill.net On 10/12/2018 6:46 AM, Bernhard Kleine wrote: Hi, Peter and Thomas, @Peter: It seems that figure is a valid element, however, the numbering of figure for structures would conflict with the numbering a normal figure. As long as there is no possible was to have a "proprietary" counter for structures (as figures) structures do not have an independent numbering. I wonder since there are an awful lot of chemical papers where there is an independent list of structures, that none of them has been prepared with docbook. Otherwise there would be a solution already. @Thomas: since the structures are svg as well as most figure in my book, I have considered svg. However, than I would lable a contruct of structures, but not the individual ones. Coming from LaTeX, the numbering of figures was always a simple use of apropriate macros. Regards Bernhard Am 12.10.2018 um 14:28 schrieb Thomas Schraitle: Hi, Am Freitag, 12. Oktober 2018, 14:12:15 CEST schrieb Bernhard Kleine: In my second mail to this threat a showed a complex table with structures, arrows labeling etc. I cannot envisage this without a table structure. As Dave already pointed out, a table might not be the appropriate way to layout things. Have you considered SVG? With SVG (or any other vector format) you can do all the fancy stuff (arrows, labeling etc.) that you need.
Re: [docbook-apps] How to make chemical structure automatically numbered
I.e. Semantically marked up docbook is clearly the wrong tool then. Dave On Fri, 12 Oct 2018 at 14:20, Peter Desjardins wrote: > > I think the table is adding valid semantic structure here. It allows the > figure numbering to exist at the Docbook level, not in SVG. > > Maybe use elements inside an ? You could wrap the > informaltable in an example to give the entire set of diagrams a title. > > Peter > > > > > > > Chemical One > > > > > > > > > Chemical Two > > > > > > > > > > > > > On Fri, Oct 12, 2018, 08:28 Thomas Schraitle wrote: >> >> Hi, >> >> Am Freitag, 12. Oktober 2018, 14:12:15 CEST schrieb Bernhard Kleine: >> > In my second mail to this threat a showed a complex table with >> > structures, arrows labeling etc. I cannot envisage this without a table >> > structure. >> >> As Dave already pointed out, a table might not be the appropriate way to >> layout things. >> >> Have you considered SVG? With SVG (or any other vector format) you can do all >> the fancy stuff (arrows, labeling etc.) that you need. >> >> >> -- >> Gruß/Regards >> Thomas Schraitle >> >> >> >> >> - >> To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org >> For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org >> -- Dave Pawson XSLT XSL-FO FAQ. Docbook FAQ. - To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org
Re: [docbook-apps] How to make chemical structure automatically numbered
Hi, Am Freitag, 12. Oktober 2018, 15:46:50 CEST schrieb Bernhard Kleine: > > @Peter: It seems that figure is a valid element, however, the numbering > of figure for structures would conflict with the numbering a normal > figure. As long as there is no possible was to have a "proprietary" > counter for structures (as figures) structures do not have an > independent numbering. I wonder since there are an awful lot of chemical > papers where there is an independent list of structures, that none of > them has been prepared with docbook. Otherwise there would be a solution > already. As I've pointed out in my last mail (coincidentally sent at the same time), you could use . However, I see the following solutions in regards to numbering: 1. Use or Pros: * if the book doesn't contain any normal equation, it's easy to apply * no schema customization * no stylesheet customization needed Cons: * Not sure if you want to label your chemical structure as "Equation" (can be fixed) * More stylesheet customization is needed, if you need to distinguish between numbering of a normal equation and numbering of a chemical structure 2. Use Same as equation, it's just a matter of taste which one do you prefer. The same pros and cons apply. 3. Create your own element (?); creating DocBook RNG customization Pro: * free to design what structure you really need * easy with the help of RELAX NG * independent of any numbering of figure or equation Cons: * not be DocBook compatible anymore; to validate, you need your own schema * you need to write a customization layer for the DocBook XSL stylesheets I hope I haven't misunderstood your ideas. Does that make sense? > @Thomas: since the structures are svg as well as most figure in my book, > I have considered svg. However, than I would lable a contruct of > structures, but not the individual ones. Coming from LaTeX, the > numbering of figures was always a simple use of apropriate macros. I also come from a LaTeX background. ;) -- Gruß/Regards Thomas Schraitle - To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org
Re: [docbook-apps] How to make chemical structure automatically numbered
Hi, Peter and Thomas, @Peter: It seems that figure is a valid element, however, the numbering of figure for structures would conflict with the numbering a normal figure. As long as there is no possible was to have a "proprietary" counter for structures (as figures) structures do not have an independent numbering. I wonder since there are an awful lot of chemical papers where there is an independent list of structures, that none of them has been prepared with docbook. Otherwise there would be a solution already. @Thomas: since the structures are svg as well as most figure in my book, I have considered svg. However, than I would lable a contruct of structures, but not the individual ones. Coming from LaTeX, the numbering of figures was always a simple use of apropriate macros. Regards Bernhard Am 12.10.2018 um 14:28 schrieb Thomas Schraitle: > Hi, > > Am Freitag, 12. Oktober 2018, 14:12:15 CEST schrieb Bernhard Kleine: >> In my second mail to this threat a showed a complex table with >> structures, arrows labeling etc. I cannot envisage this without a table >> structure. > As Dave already pointed out, a table might not be the appropriate way to > layout things. > > Have you considered SVG? With SVG (or any other vector format) you can do all > the fancy stuff (arrows, labeling etc.) that you need. > > -- spitzhalde9 D-79853 lenzkirch bernhard.kle...@gmx.net www.b-kleine.com, www.urseetal.net - thunderbird mit enigmail GPG schlüssel: D5257409 fingerprint: 08 B7 F8 70 22 7A FC C1 15 49 CA A6 C7 6F A0 2E D5 25 74 09 signature.asc Description: OpenPGP digital signature
Re: [docbook-apps] How to make chemical structure automatically numbered
Hi, Am Freitag, 12. Oktober 2018, 15:19:59 CEST schrieb Peter Desjardins: > I think the table is adding valid semantic structure here. It allows the > figure numbering to exist at the Docbook level, not in SVG. > > Maybe use elements inside an ? You could wrap the > informaltable in an example to give the entire set of diagrams a title. Thanks for your reply Peter. I'm sorry, but I have to disagree. :) If Bernhard tries to display chemical structures, why using an overly complicated structure? KISS (keep it simple, stupid)! ;) I see no benefit in using a table here. Even the opposite: tables on mobile devices (EPUB) can have issues. It's better to avoid them. Even if you go from simple chemical structure to a chemical reaction, there is even no reason to split it into several pieces. A structure---and so a reaction---belongs together IMHO. With the features of SVG, it's possible. As DocBook doesn't provide a element for chemical structures, you need either use figure or equation (as Jirka pointed out). For example: Steran Steran... IMHO, this is totally enough. Put everything in steran.svg what you need: labeling, text, arrows, etc. With the @condition attribute, you can distinguish a chemical structure from a "normal" equation (if you need to). Even if you really have to use subfigures for a chemical structure I would avoid table structures at all costs. For example, if you need to have two subfigures, you could use two mediaobjects: Steran A and B Steran A... Steran B... Of course, you need to delegate the layout to the stylesheet and you need to write a customization layer. For FO it can be rendered indeed as a table and for HTML there are different (CSS) methods to position two objects side by side. -- Gruß/Regards Thomas Schraitle - To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org
Re: [docbook-apps] How to make chemical structure automatically numbered
I think the table is adding valid semantic structure here. It allows the figure numbering to exist at the Docbook level, not in SVG. Maybe use elements inside an ? You could wrap the informaltable in an example to give the entire set of diagrams a title. Peter Chemical One Chemical Two On Fri, Oct 12, 2018, 08:28 Thomas Schraitle wrote: > Hi, > > Am Freitag, 12. Oktober 2018, 14:12:15 CEST schrieb Bernhard Kleine: > > In my second mail to this threat a showed a complex table with > > structures, arrows labeling etc. I cannot envisage this without a table > > structure. > > As Dave already pointed out, a table might not be the appropriate way to > layout things. > > Have you considered SVG? With SVG (or any other vector format) you can do > all > the fancy stuff (arrows, labeling etc.) that you need. > > > -- > Gruß/Regards > Thomas Schraitle > > > > > - > To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org > For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org > >
Re: [docbook-apps] How to make chemical structure automatically numbered
Hi, Am Freitag, 12. Oktober 2018, 14:12:15 CEST schrieb Bernhard Kleine: > In my second mail to this threat a showed a complex table with > structures, arrows labeling etc. I cannot envisage this without a table > structure. As Dave already pointed out, a table might not be the appropriate way to layout things. Have you considered SVG? With SVG (or any other vector format) you can do all the fancy stuff (arrows, labeling etc.) that you need. -- Gruß/Regards Thomas Schraitle - To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org
Re: [docbook-apps] How to make chemical structure automatically numbered
In my second mail to this threat a showed a complex table with structures, arrows labeling etc. I cannot envisage this without a table structure. Bernhard Am 12.10.2018 um 14:06 schrieb Dave Pawson: > I might question if the table (as layout) is necessary for your purposes? > That would allow more flexibility in markup? > Dave > On Fri, 12 Oct 2018 at 12:57, Bernhard Kleine wrote: >> Hi Jirka, >> >> This works but raises an error: equation must not occur among the >> children or descendants of table >> >> It transforms anyhow. >> >> Thanks for the hint. >> >> Bernhard >> >> >> Am 11.10.2018 um 16:45 schrieb Jirka Kosek: >>> On 11.10.2018 16:26, Bernhard Kleine wrote: unfortunately, using figures does not work in my example for the following reasons. It seems not possible to arrange a couple of figure inside a table: I show to you an example of a table containing structures and errors and labelling: >>> You can use element for this. It can appear almost anywhere >>> in block context. >>> >> -- >> spitzhalde9 >> D-79853 lenzkirch >> bernhard.kle...@gmx.net >> www.b-kleine.com, www.urseetal.net >> - >> thunderbird mit enigmail >> GPG schlüssel: D5257409 >> fingerprint: >> 08 B7 F8 70 22 7A FC C1 15 49 CA A6 C7 6F A0 2E D5 25 74 09 >> >> > -- spitzhalde9 D-79853 lenzkirch bernhard.kle...@gmx.net www.b-kleine.com, www.urseetal.net - thunderbird mit enigmail GPG schlüssel: D5257409 fingerprint: 08 B7 F8 70 22 7A FC C1 15 49 CA A6 C7 6F A0 2E D5 25 74 09 signature.asc Description: OpenPGP digital signature
Re: [docbook-apps] How to make chemical structure automatically numbered
I might question if the table (as layout) is necessary for your purposes? That would allow more flexibility in markup? Dave On Fri, 12 Oct 2018 at 12:57, Bernhard Kleine wrote: > > Hi Jirka, > > This works but raises an error: equation must not occur among the > children or descendants of table > > It transforms anyhow. > > Thanks for the hint. > > Bernhard > > > Am 11.10.2018 um 16:45 schrieb Jirka Kosek: > > On 11.10.2018 16:26, Bernhard Kleine wrote: > >> unfortunately, using figures does not work in my example for the > >> following reasons. It seems not possible to arrange a couple of figure > >> inside a table: I show to you an example of a table containing > >> structures and errors and labelling: > > You can use element for this. It can appear almost anywhere > > in block context. > > > > -- > spitzhalde9 > D-79853 lenzkirch > bernhard.kle...@gmx.net > www.b-kleine.com, www.urseetal.net > - > thunderbird mit enigmail > GPG schlüssel: D5257409 > fingerprint: > 08 B7 F8 70 22 7A FC C1 15 49 CA A6 C7 6F A0 2E D5 25 74 09 > > -- Dave Pawson XSLT XSL-FO FAQ. Docbook FAQ. - To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org
Re: [docbook-apps] How to make chemical structure automatically numbered
Hi Jirka, This works but raises an error: equation must not occur among the children or descendants of table It transforms anyhow. Thanks for the hint. Bernhard Am 11.10.2018 um 16:45 schrieb Jirka Kosek: > On 11.10.2018 16:26, Bernhard Kleine wrote: >> unfortunately, using figures does not work in my example for the >> following reasons. It seems not possible to arrange a couple of figure >> inside a table: I show to you an example of a table containing >> structures and errors and labelling: > You can use element for this. It can appear almost anywhere > in block context. > -- spitzhalde9 D-79853 lenzkirch bernhard.kle...@gmx.net www.b-kleine.com, www.urseetal.net - thunderbird mit enigmail GPG schlüssel: D5257409 fingerprint: 08 B7 F8 70 22 7A FC C1 15 49 CA A6 C7 6F A0 2E D5 25 74 09 signature.asc Description: OpenPGP digital signature
Re: [docbook-apps] How to make chemical structure automatically numbered
On 11.10.2018 16:26, Bernhard Kleine wrote: > unfortunately, using figures does not work in my example for the > following reasons. It seems not possible to arrange a couple of figure > inside a table: I show to you an example of a table containing > structures and errors and labelling: You can use element for this. It can appear almost anywhere in block context. -- -- Jirka Kosek e-mail: ji...@kosek.cz http://xmlguru.cz -- Professional XML and Web consulting and training services DocBook/DITA customization, custom XSLT/XSL-FO document processing -- Bringing you XML Prague conferencehttp://xmlprague.cz -- signature.asc Description: OpenPGP digital signature
Re: [docbook-apps] How to make chemical structure automatically numbered
Hi, Bernhard. It sounds like you should be using the formal title numbering behavior of one of the existing elements like example or figure. I hope I'm not misunderstanding, is your problem that you are using those elements already, and you need a custom formal element to hold *only* chemical structure figures? I think that if you use the formal element to hold your chemical structure SVG diagrams, you should be able to use the default formal title numbering behavior of to automatically number those figures. You can do things like generate a list of figures and customize the words in the figure numbering (for example, "Chemical structure #: Steran Backbone"). I'm surprised that the element in your example isn't numbered in the way you want though. Here are some pages from Bob Stayton's DocBook XSL guide: http://www.sagehill.net/docbookxsl/FormalTitles.html#FormalNumbering http://www.sagehill.net/docbookxsl/TOCcontrol.html#TOCcomponents (if you wanted a list of figures at the start of a book or chapter) For example, I use figure elements like the one I pasted below. Good luck! Peter http://docbook.org/ns/docbook;> Test Steran Backbone Steran On Thu, Oct 11, 2018 at 12:46 AM Bernhard Kleine wrote: > > Hi, > > this is for sure not the first instance of numbering chemical structure > automatically during docbook transformation for print. But I can not find an > example to learn from. > > I have the following example (of about 100 structures in my book). I want > have these structures numbered with a bold number and automatically. I was > told by Thomas Schaitle, this can be done by xsl. In "docbook xsl", I do not > find an example. Chemical structures in my book are characterized by > property="chemical". What is needed is > > make a individual number for each structure > avoid numbering doubly if a structure is shown again > generate the xreflabel with this number that the xref references find a > target. > > BTW, if I generate an xreflabel by hand then these structures are correctly > numbered. However, to be able to change the sequential arrangement of > structures and still have the structures labeld sequentially, it is desirable > to number them automatically. Please give me an example how to proceed. I > have attached the svg file with the structure. > > Regards > > Bernhard > > > http://docbook.org/xml/5.1/rng/docbook.rng; > schematypens="http://relaxng.org/ns/structure/1.0;?> > http://docbook.org/xml/5.1/sch/docbook.sch; > type="application/xml" schematypens="http://purl.oclc.org/dsdl/schematron;?> > http://docbook.org/ns/docbook; > xmlns:xlink="http://www.w3.org/1999/xlink; version="5.1"> > > polycyclic steran ( role="chem.ref"/>) > xreflabel="Kap6.F:Steran"> > Sterane Backbone > > > > > Steran > > > xml:id="chem.steran"> > > width="3.8cm"/> > > > > > linkend="chem.steran"/> > > > > > > > > > -- > spitzhalde9 > D-79853 lenzkirch > bernhard.kle...@gmx.net > www.b-kleine.com, www.urseetal.net > - > thunderbird mit enigmail > GPG schlüssel: D5257409 > fingerprint: > 08 B7 F8 70 22 7A FC C1 15 49 CA A6 C7 6F A0 2E D5 25 74 09 - To unsubscribe, e-mail: docbook-apps-unsubscr...@lists.oasis-open.org For additional commands, e-mail: docbook-apps-h...@lists.oasis-open.org
[docbook-apps] How to make chemical structure automatically numbered
Hi, this is for sure not the first instance of numbering chemical structure automatically during docbook transformation for print. But I can not find an example to learn from. I have the following example (of about 100 structures in my book). I want have these structures numbered with a bold number and automatically. I was told by Thomas Schaitle, this can be done by xsl. In "docbook xsl", I do not find an example. Chemical structures in my book are characterized by property="chemical". What is needed is 1. make a individual number for each structure 2. avoid numbering doubly if a structure is shown again 3. generate the xreflabel with this number that the xref references find a target. BTW, if I generate an xreflabel by hand then these structures are correctly numbered. However, to be able to change the sequential arrangement of structures and still have the structures labeld sequentially, it is desirable to number them automatically. Please give me an example how to proceed. I have attached the svg file with the structure. Regards Bernhard http://docbook.org/xml/5.1/rng/docbook.rng; schematypens="http://relaxng.org/ns/structure/1.0;?> http://docbook.org/xml/5.1/sch/docbook.sch; type="application/xml" schematypens="http://purl.oclc.org/dsdl/schematron;?> http://docbook.org/ns/docbook; xmlns:xlink="http://www.w3.org/1999/xlink; version="5.1"> polycyclic steran () Sterane Backbone Steran -- spitzhalde9 D-79853 lenzkirch bernhard.kle...@gmx.net www.b-kleine.com, www.urseetal.net - thunderbird mit enigmail GPG schlüssel: D5257409 fingerprint: 08 B7 F8 70 22 7A FC C1 15 49 CA A6 C7 6F A0 2E D5 25 74 09 signature.asc Description: OpenPGP digital signature
