Hi Reed, Wow, you went through a lot of trouble. There actually is a much simpler solution. It does need proper documentation as it is only hinted at in [1] and [2]. You can put a dictionary anywhere you want. Then either in your piper file (configures pipeline) or the command line, or in the submitter gui [3], specify the LookupXml file location. That xml file is what points to the dictionary database and specifies how it should be used.
The best "how-to" is on the ctakes 4.0 wiki front page, the "pamphlet/manual" under Documentation. [4] Sean 1. https://cwiki.apache.org/confluence/display/CTAKES/Piper+Files 2. https://cwiki.apache.org/confluence/display/CTAKES/Dictionary+Creator+GUI 3. https://cwiki.apache.org/confluence/display/CTAKES/Piper+File+Submitter+GUI 4. https://cwiki.apache.org/confluence/display/CTAKES/cTAKES+4.0 ________________________________________ From: Reed Villanueva <villanuevar...@gmail.com> Sent: Friday, April 6, 2018 3:16 PM To: dev@ctakes.apache.org Subject: Re: How to add /desc and /resources to intellij IDEA project? [EXTERNAL] Fixed problem. Running similar program in the ctakes source trunk/examples..., I see that FileLocator.getResource() method should be using location=resources/org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab/sno_rx_16ab.script url=file:/home/ me /projects/ctakes/trunk/resources/org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab/sno_rx_16ab.script Problem appears to be within FileLocator.getSearchPaths() not including the location that I have the resource folder in my project ( which does not conform to a certain convention that the method seems to be expecting ( which was never mentioned in the ctakes documentation so far as I could find )). The relevant code snippet from the intellij debugging tool for the FileLocator.class when debugging looks like: ------------------------------------------------------------------------------------------- private static Collection<String> getFileSearchPaths(String location) { Collection<String> paths = new ArrayList(); // getting current working directory (I assume being registered as my toplevel intellij project location) String dir = System.getProperty("user.dir"); if (dir != null && !dir.isEmpty()) { paths.add(dir + "/" + location); paths.add(dir + "/resources/" + location); } String cTakesHome = System.getenv("CTAKES_HOME"); if (cTakesHome != null && !cTakesHome.isEmpty()) { paths.add(cTakesHome + "/" + location); paths.add(cTakesHome + "/resources/" + location); } if (dir != null && !dir.isEmpty()) { File ancestor = new File(dir); // then starting from the parent folder of the CWD... while(ancestor.getParentFile() != null) { ancestor = ancestor.getParentFile(); // ...recursively building back down into each "child" folder to form a list of possible paths following the conventions shown here paths.add(ancestor + "/" + location); paths.add(ancestor + "/ctakes/" + location); paths.add(ancestor + "/resources/" + location); } } return paths; } ------------------------------------------------------------------------------------------- Examining the "paths" variable before the function returns, I see that it expects a certain absolute path convention (when the CTAKES_HOME env. variable is not explicitly set). Solution seemes to be to move the resources/ folder to one of the locations that the ctakes-core FileLocator.class is expecting it to be. My previous project structure looked like: $HOME/ project/ play-space/ /resouces ("marked as" resource root in intellij) /desc (still don't know if I even need this, so please let me know) /src <my java files> changing this to $HOME/ project/ play-space/ /src <my java files> /resouces ("marked as" resource root in intellij) /desc (still don't know if I even need this, so please let me know) seems to have fixed that issue. If there is anything else I should know related to this issue that is not explicitly documented in the ctakes docs, please let me know. On Wed, Apr 4, 2018 at 1:00 PM, Reed Villanueva <villanuevar...@gmail.com> wrote: > As the title states, I am having trouble understanding where to place the > /resources (and /desc ?) folders in an intellij IDEA project that is trying > to use ctakes (don't work with java often). > > *TLDR: In intellij, how do I use the resources/ and des/ folders that come > in ctakes binary distributions? What is going on under the surface that > lets these things be recognized and used (even when outside of intellij)?* > > Currently I have added the jars by copying them to some folder and > pointing intellij to that folder as a library in the File --> Project > Structure. The way I am using the resources/ folder right now is by having > it in the same folder as a src folder in the intellij project ("marked as" > as "source" folder) and using the context menu on this resources/ copy to > "mark as" a "resource root". > > Testing with a simple variation of the HelloWorldAggregatePipeline.java > that can be found in the ctakes trunk/ctakes-examples/..., the code seems > to run, but I see errors like: > > ** Configuration Error: file:$PROJECT_HOME/project/ >> out/production/project/org/apache/ctakes/lvg/data/config/lvg.properties >> (No such file or directory) >> ** Error: problem of opening/reading config file: 'file:$PROJECT_HOME >> /project/out/production/project/org/apache/ctakes/lvg/data/config/lvg.properties'. >> Use -x option to specify the config file path. >> ** Configuration Error: file:$PROJECT_HOME/project/ >> out/production/project/org/apache/ctakes/lvg/data/config/lvg.properties >> (No such file or directory) >> ** Error: problem of opening/reading config file: 'file:$PROJECT_HOME >> /project/out/production/project/org/apache/ctakes/lvg/data/config/lvg.properties'. >> Use -x option to specify the config file path. > > > even though, checking in that location of the project, properties is > clearly there and I can open it and see its contents. > > This makes me suspect that I have not added them to the project correctly, > so what should be done? Thanks for advice. >
