How to interpret the `path` attribute in `ElementDefinition` - hapi-fhir

I'm working on generating FHIR client code and am currently working on generating code for extensions.
I have trouble understanding paths in ElementDefinition that contain more than one . like for example
"path": "Extension.extension.id",
from http://hl7.org/fhir/StructureDefinition/qicore-adverseevent-cause
or
"path": "Extension.extension.extension.id",
from http://hl7.org/fhir/StructureDefinition/valueset-history
How should such paths be interpreted?

Hierarchy in FHIR models is represented using the dot notation. So Extension.extension.id corresponds to Extension/extension/id from an xpath perspective (or Extension.extension.id from a JSON object navigation perspective). Every time you see a new period in the path, you're nesting one level deeper.

Related

Is there a generally specification for references within a file?

I wanted writing an IDE plugin to simplify work with references to code in my documentation, but decided to first check the existence of a specification (like URI) so as not to reinvent the wheel.
I tried to find the answer to this on the internet but failed.
We know that such references work in different IDEs:
appRoot.folder.file.Class#method
appRoot.folder.file:35
appRoot/fodler/file.ext:35
But what if you need to get the path to the nested property JSON or XML?
I naively imagine that the sign # means the root and then for the JSON path I could use something like this:
appRoot/folder/jsonFile.json#oneLevelProp.twoLevelProp
But this of course does not work at the current moment in any IDE that I know of.

VSCode ANTLR4 Plugin: Export Call Graph to JSON?

The vscode-antlr4 plugin for VisualStudio Code has a nice call-graph feature which visualizes (as a dendrogram) how grammar (and lexer) rules interact. You can save the graphic as SVG.
Is there a way to export the information as JSON? I wouldn't mind going into the plugin's code to find a way to do it.
My aim is to create reachability graphs for individual rules, i.e. graphs that show from which other rules a particular rule can be reached (transitively). The "calls" and "is-called" information from the call-graph feature would be a nice starting point.
The data for the call graph comes from a source context instance (for each grammar file there's a single source context to manage all details for it). See the function getReferenceGraph, which collects the relations into a map object. You can use that object to generate a JSON object from it. Or you create another function, taking this one as template, to generate the JSON directly, without the overhead required for the UI.

Convert kaitai-struct .ksy file to "pretty" tree view

I need to write documentation for a parser that was developed in Kaitai. Given a .ksy file, is there any way to produce "pretty" views of the tree?
There is a two year old fork of ksc that supports GraphViz output but the resulting output is pretty hard to work with.
(https://www.reddit.com/r/dataisbeautiful/comments/4zhpvh/binary_data_formats_network_packets_archives/)
I can easily determine what the nodes are but getting their immediate parent would add very useful context.
Thank you.
-David
Please define what exactly do you expect from a "pretty tree".
GraphViz support is available in master and stable releases for a long time (as -t graphviz), and is very well supported — basically every ksy in official repo is accompanied nowadays with a chart: for example, http://formats.kaitai.io/lzh/index.html
If you want to have a tree of values (as opposed to "tree of data types"), we actually have ksdump, which allows you to dump arbitary data file using arbitrary .ksy in a YAML/JSON/XML tree of values. Will it work for you?

how to run the example of uima-text-segmenter?

I want to call the API of uima-text-segmenter https://code.google.com/p/uima-text-segmenter/source/browse/trunk/INSTALL?r=22 to run an example.
But I don`t know how to call the API...
the readme said,
With the DocumentAnalyzer, run the following descriptor
`desc/textSegmenter/wst-snowball-C99-JTextTilingAAE.xml` by taking the
uima-examples data as input.
Could anyone give me some code which could be run directly in main func for example?
Thanks a lot!
Long answer:
The link describes how you would set up the application from within the Eclipse UIMA environment. This sort of set-up is typically targeted at subject matter specialists with little or no coding experience. It allows them to work (relatively fast) with UIMA in a declarative way: all data structures and analysis engines (computing blocks within UIMA) are declared in xml (with a GUI on top of it), after which the framework takes care of the rest. In this scenario, you would typically run a UIMA pipeline using a run configuration from within Eclipse (or the included UIMA pipeline runner application). Luckily, UIMA allows you to do exactly the same from code, but I would recommend using UIMAFit (http://uima.apache.org/d/uimafit-current/tools.uimafit.book.html#d5e137) for this purpose instead of of UIMA, as it bundles lots of useful things and coding shortcuts.
Short answer:
Using UIMAFit, you can call Factory methods that create CollectionReader (read input), AnalysisEngine (process input) and Consumer objects (write/do other stuff) from (third-party provided) XML files. Use these methods to construct your pipeline and the SimplePipeline class to run it. To extract the data you need, you would manipulate the CAS object (containing your data) in a Consumer object, possibly with a callback. You could also do this in a Analysis Engine object. I recommend using DKPro's FeaturePathFactory (https://code.google.com/p/dkpro-core-asl/source/browse/de.tudarmstadt.ukp.dkpro.core-asl/trunk/de.tudarmstadt.ukp.dkpro.core.api.featurepath-asl/src/main/java/de/tudarmstadt/ukp/dkpro/core/api/featurepath/FeaturePathFactory.java?spec=svn1811&r=1811) to quickly access the feature you are after.
Code examples:
http://uima.apache.org/d/uimafit-current/tools.uimafit.book.html#d5e137 contains examples, but they all go in the opposite direction (class objects are used in the factory methods, instead of XML files - XML is generated from these classes). Take a look at the UIMAFit API to find the method you need, AnalysisEngineDescription from XML for example: http://uima.apache.org/d/uimafit-current/api/org/apache/uima/fit/factory/AnalysisEngineFactory.html#createEngineDescriptionFromPath-java.lang.String-java.lang.Object...-

How to internationalize java source code?

EDIT: I completely re-wrote the question since it seems like I was not clear enough in my first two versions. Thanks for the suggestions so far.
I would like to internationalize the source code for a tutorial project (please notice, not the runtime application). Here is an example (in Java):
/** A comment */
public String doSomething() {
System.out.println("Something was done successfully");
}
in English , and then have the French version be something like:
/** Un commentaire */
public String faitQuelqueChose() {
System.out.println("Quelque chose a été fait avec succès.");
}
and so on. And then have something like a properties file somewhere to edit these translations with usual tools, such as:
com.foo.class.comment1=A comment
com.foo.class.method1=doSomething
com.foo.class.string1=Something was done successfully
and for other languages:
com.foo.class.comment1=Un commentaire
com.foo.class.method1=faitQuelqueChose
com.foo.class.string1=Quelque chose a été fait avec succès.
I am trying to find the easiest, most efficient and unobtrusive way to do this with the least amount of manual grunt work (other than obviously translating the actual text). Preferably working under Eclipse. For example, the original code would be written in English, then externalized (to properties, preferably leaving the original source untouched), translated (humanly) and then re-generated (as a separate source file / project).
Some trails I have found (other than what AlexS suggested):
AntLR, a language parser / generator. There seems to be a supporting Eclipse plugin
Using Eclipse's AST (Abstract Syntax Tree) and I guess building some kind of plugin.
I am just surprised there isn't a tool out there that does this already.
I'd use unique strings as methodnames (or anything you want to be replaced by localized versions.
public String m37hod_1() {
System.out.println(m355a6e_1);
}
then I'd define a propertyfile for each language like this:
m37hod_1=doSomething
m355a6e_1="Something was done successfully"
And then I'd write a small program parsing the sourcefiles and replacing the strings. So everything just outside eclipse.
Or I'd use the ant task Replace and propertyfiles as well, instead of a standalone translation program.
Something like that:
<replace
file="${src}/*.*"
value="defaultvalue"
propertyFile="${language}.properties">
<replacefilter
token="m37hod_1"
property="m37hod_1"/>
<replacefilter
token="m355a6e_1"
property="m355a6e_1"/>
</replace>
Using one of these methods you won't have to explain anything about localization in your tutorials (except you want to), but can concentrate on your real topic.
What you want is a massive code change engine.
ANTLR won't do the trick; ASTs are necessary but not sufficient. See my essay on Life After Parsing. Eclipse's "AST" may be better, if the Eclipse package provides some support for name and type resolution; otherwise you'll never be able to figure out how to replace each "doSomething" (might be overloaded or local), unless you are willing to replace them all identically (and you likely can't do that, because some symbols refer to Java library elements).
Our DMS Software Reengineering Toolkit could be used to accomplish your task. DMS can parse Java to ASTs (including comment capture), traverse the ASTs in arbitrary ways, analyze/change ASTs, and the export modified ASTs as valid source code (including the comments).
Basically you want to enumerate all comments, strings, and declarations of identifiers, export them to an external "database" to be mapped (manually? by Google Translate?) to an equivalent. In each case you want to note not only the item of interest, but its precise location (source file, line, even column) because items that are spelled identically in the original text may need different spellings in the modified text.
Enumeration of strings is pretty easy if you have the AST; simply crawl the tree and look for tree nodes containing string literals. (ANTLR and Eclipse can surely do this, too).
Enumeration of comments is also straightforward if the parser you have captures comments. DMS does. I'm not quite sure if ANTLR's Java grammar does, or the Eclipse AST engine; I suspect they are both capable.
Enumeration of declarations (classes, methods, fields, locals) is relatively straightforward; there's rather more cases to worry about (e.g., anonymous classes containing extensions to base classes). You can code a procedure to walk the AST and match the tree structures, but here's the place that DMS starts to make a difference: you can write surface-syntax patterns that look like the source code you want to match. For instance:
pattern local_for_loop_index(i: IDENTIFIER, t: type, e: expression, e2: expression, e3:expression): for_loop_header
= "for (\t \i = \e,\e2,\e3)"
will match declarations of local for loop variables, and return subtrees for the IDENTIFIER, the type, and the various expressions; you'd want to capture just the identifier (and its location, easily done by taking if from the source position information that DMS stamps on every tree node). You'd probably need 10-20 such patterns to cover the cases of all the different kinds of identifiers.
Capture step completed, something needs to translate all the captured entities to your target language. I'll leave that to you; what's left is to put the translated entities back.
The key to this is the precise source location. A line number isn't good enough in practice; you may have several translated entities in the same line, in the worst case, some with different scopes (imagine nested for loops for example). The replacement process for comments, strings and the declarations are straightforward; rescan the tree for nodes that match any of the identified locations, and replace the entity found there with its translation. (You can do this with DMS and ANTLR. I think Eclipse ADT requires you generate a "patch" but I guess that would work.).
The fun part comes in replacing the identifier uses. For this, you need to know two things:
for any use of an identifier, what is the declaration is uses; if you know this, you can replace it with the new name for the declaration; DMS provides full name and type resolution as well as a usage list, making this pretty easy, and
Do renamed identifiers shadow one another in scopes differently than the originals? This is harder to do in general. However, for the Java language, we have a "shadowing" check, so you can at least decide after renaming that you have an issues. (There's even a renaming procedure that can be used to resolve such shadowing conflicts
After patching the trees, you simply rewrite the patched tree back out as a source file using DMS's built-in prettyprinter. I think Eclipse AST can write out its tree plus patches. I'm not sure ANTLR provides any facilities for regenerating source code from ASTs, although somebody may have coded one for the Java grammar. This is harder to do than it sounds, because of all the picky detail. YMMV.
Given your goal, I'm a little surprised that you don't want a sourcefile "foo.java" containing "class foo { ... }" to get renamed to .java. This would require not only writing the transformed tree to the translated file name (pretty easy) but perhaps even reconstructing the directory tree (DMS provides facilities for doing directory construction and file copies, too).
If you want to do this for many languages, you'd need to run the process once per language. If you wanted to do this just for strings (the classic internationalization case), you'd replace each string (that needs changing, not all of them do) by a call on a resource access with a unique resource id; a runtime table would hold the various strings.
One approach would be to finish the code in one language, then translate to others.
You could use Eclipse to help you.
Copy the finished code to language-specific projects.
Then:
Identifiers: In the Outline view (Window>Show View>Outline), select each item and Refactor>Rename (Alt+Shift+R). This takes care of renaming the identifier wherever it's used.
Comments: Use Search>File to find all instances of "/*" or "//". Click on each and modify.
Strings:
Use Source>Externalize strings to find all of the literal strings.
Search>File for "Messages.getString()".
Click on each result and modify.
On each file, ''Edit>Find/Replace'', replacing "//\$NON-NLS-.*\$" with empty string.
for the printed/logged string, java possess some internatization functionnalities, aka ResourceBundle. There is a tutorial about this on oracle site
Eclipse also possess a funtionnality for this ("Externalize String", as i recall).
for the function name, i don't think there anything out, since this will require you to maintain the code source on many version...
regards
Use .properties file, like:
Locale locale = new Locale(language, country);
ResourceBundle captions= ResourceBundle.getBundle("Messages",locale);
This way, Java picks the Messages.properties file according to the current local (which is acquired from the operating system or Java locale settings)
The file should be on the classpath, called Messages.properties (the default one), or Messages_de.properties for German, etc.
See this for a complete tutorial:
http://docs.oracle.com/javase/tutorial/i18n/intro/steps.html
As far as the source code goes, I'd strongly recommend staying with English. Method names like getUnternehmen() are worse to the average developer then plain English ones.
If you need to familiarize foreign developers to your code, write a proper developer documentation in their language.
If you'd like to have Javadoc in both English and other languages, see this SO thread.
You could write your code using freemarker templates (or another templating language such as velocity).
doSomething.tml
/** ${lang['doSomething.comment']} */
public String ${lang['doSomething.methodName']}() {
System.out.println("${lang['doSomething.message']}");
}
lang_en.prop
doSomething.comment=A comment
doSomething.methodName=doSomething
doSomething.message=Something was done successfully
And then merge the template with each language prop file during your build (using Ant / Gradle / Maven etc.)