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https://issues.apache.org/jira/browse/CTAKES-484?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=17653214#comment-17653214
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Sean Finan commented on CTAKES-484:
-----------------------------------
The listed local file references are in training and resource creation scripts.
They would only be run by a 'super-user' generating resources from other
resources on their own machine and would be intimately familiar with those
classes. Given the 'example' appearance of the local resources in the code and
that the super-user would be pointing to their own local source I don't think
that this is really a problem. In fact, those were really one-off scripts
written by a single user for a specific purpose and will probably never be
touched again.
All of the above being said, this kind of thing isn't really a great practice
in general.
> Unused or out-of-project references
> -----------------------------------
>
> Key: CTAKES-484
> URL: https://issues.apache.org/jira/browse/CTAKES-484
> Project: cTAKES
> Issue Type: Bug
> Reporter: Alex Zbarcea
> Assignee: Alex Zbarcea
> Priority: Major
>
> References to resources outside of project:
> {code:java}
> $ grep --include "*.java" -nRI "C:/"
> ctakes-smoking-status/src/main/java/org/apache/ctakes/smokingstatus/MLutil/GenerateTrainingData.java:231:
> String keywordsFile = "C:/cTAKES-1.0.5/smoking
> status/resources/ss/data/PCS/keywords_PCS_NHGRI.txt";
> ctakes-smoking-status/src/main/java/org/apache/ctakes/smokingstatus/MLutil/GenerateTrainingData.java:232:
> String stopwordsFile = "C:/cTAKES-1.0.5/smoking
> status/resources/ss/data/PCS/stopwords_PCS.txt";
> ctakes-smoking-status/src/main/java/org/apache/ctakes/smokingstatus/MLutil/GenerateTrainingData.java:233:
> String dataFile = "C:/Temp/SentenceLevelSmokingStatus_PCS.txt";
> ctakes-smoking-status/src/main/java/org/apache/ctakes/smokingstatus/MLutil/GenerateTrainingData.java:234:
> String libsvmDataFile = "C:/Temp/libsvm_data.txt";
> ctakes-assertion/src/main/java/org/apache/ctakes/assertion/cr/MiPACQKnowtatorXMLReader.java:183:
> //File tmpFile = new File(textPath); // Note this does not work
> with something like "file:/C:/usr/data/MiPACQ/1/xml/0054074073-0.xml"
> ctakes-assertion/src/main/java/org/apache/ctakes/assertion/util/AssertionConst.java:33:
> // Note that on Windows, by default, /sharp-home/assertion/ the same as
> C:/sharp-home/assertion/
> ctakes-dictionary-lookup/scripts/java/org/apache/ctakes/dictionary/lookup/tools/CreateLuceneIndexForExampleDrugs.java:53:
> File indexDir = new
> File("C:/general_workspace/ctakes-dictionary-lookup/resources/lookup/drug_index");//C:/temp/lucene/"
> + "drug-index";
> ctakes-dictionary-lookup/scripts/java/org/apache/ctakes/dictionary/lookup/tools/CreateLuceneIndexForSnomedLikeSample.java:65:
> File indexDir = new File("C:/temp/lucene/" +
> "snomed-like_sample"); // lookup by first_word, results contain UMLS CUIs
> ctakes-dictionary-lookup/scripts/java/org/apache/ctakes/dictionary/lookup/tools/CreateLuceneIndexForSnomedLikeSample.java:66:
> File indexDir2 = new File("C:/temp/lucene/" +
> "snomed-like_codes_sample"); // for getting snomed codes for a CUI
> ctakes-ytex-uima/src/main/java/org/apache/ctakes/ytex/tools/DBAnnotationViewerMain.java:181:
> "C:/Program Files/apache-uima"));
> {code}
> {code:java}
> $ grep --include "*.java" -nRI "\"/home" | sed "s#.*\"\/#\/#g" | sed
> "s#\".*##g" | sort -u
> /home/dima/i2b2/wiki-index/index_nometa
> /home/dima/sharp/cloud/mipacq/xml/all/
> /home/dima/sharp/cloud/mipacq/xml/dev/
> /home/dima/sharp/cloud/mipacq/xml/test/
> /home/dima/sharp/cloud/mipacq/xml/train/
> /home/dima/sharp/cloud/share/xml/all/
> /home/dima/sharp/cloud/share/xml/dev/
> /home/dima/sharp/cloud/share/xml/test/
> /home/dima/sharp/cloud/share/xml/train/
> /home/dima/sharp/cloud/sharp/xml/all/
> /home/dima/sharp/cloud/sharp/xml/dev/
> /home/dima/sharp/cloud/sharp/xml/test/
> /home/dima/sharp/cloud/sharp/xml/train/
> /home/parent/child/someFile
> /home/parent/child/someFile.jpg
> /home/parent/child/someFile.txt.xmi
> /home/subdir/someFile.bsv
> /home/subdir/someFile.txt
> /home/tmill/Documents/wiki/index_med_5k
> /home/tmill/Documents/wiki/index_nometa
> /home/tmill/Projects/coref/training/
> /home/tmill/Projects/parser/reranker/matrix.txt
> /home/tmill/mnt/prv/data/index_vectors_notext
> /home/tmill/mnt/rc-pub/odie/gold-pairs/
> {code}
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