Java: Update commons-io generated positive models based on main.

Author: michaelnebel

java/ql/lib/semmle/code/java/frameworks/apache/IOGenerated.qll

@@ -13,7 +13,9 @@ private class IOGeneratedSinksCsv extends SinkModelCsv {
         "org.apache.commons.io.file;PathFilter;true;accept;(Path,BasicFileAttributes);;Argument[0];create-file;generated",
         "org.apache.commons.io.file;PathUtils;false;copyFile;(URL,Path,CopyOption[]);;Argument[0];open-url;generated",
         "org.apache.commons.io.file;PathUtils;false;copyFile;(URL,Path,CopyOption[]);;Argument[1];create-file;generated",
+        "org.apache.commons.io.file;PathUtils;false;copyFileToDirectory;(Path,Path,CopyOption[]);;Argument[1];create-file;generated",
         "org.apache.commons.io.file;PathUtils;false;copyFileToDirectory;(URL,Path,CopyOption[]);;Argument[0];open-url;generated",
+        "org.apache.commons.io.file;PathUtils;false;copyFileToDirectory;(URL,Path,CopyOption[]);;Argument[1];create-file;generated",
         "org.apache.commons.io.file;PathUtils;false;newOutputStream;(Path,boolean);;Argument[0];create-file;generated",
         "org.apache.commons.io.file;PathUtils;false;writeString;(Path,CharSequence,Charset,OpenOption[]);;Argument[0];create-file;generated",
         "org.apache.commons.io.filefilter;FileFilterUtils;true;filter;(IOFileFilter,File[]);;Argument[1];create-file;generated",
@@ -631,14 +633,10 @@ private class IOGeneratedSummaryCsv extends SummaryModelCsv {
         "org.apache.commons.io;IOUtils;true;readLines;(InputStream,Charset);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;readLines;(InputStream,String);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;readLines;(Reader);;Argument[0];ReturnValue;taint;generated",
-        "org.apache.commons.io;IOUtils;true;toBufferedInputStream;(InputStream);;Argument[0];ReturnValue;taint;generated",
-        "org.apache.commons.io;IOUtils;true;toBufferedInputStream;(InputStream,int);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;toBufferedReader;(Reader);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;toBufferedReader;(Reader,int);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;toByteArray;(InputStream,int);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;toByteArray;(InputStream,long);;Argument[0];ReturnValue;taint;generated",
-        "org.apache.commons.io;IOUtils;true;toByteArray;(Reader);;Argument[0];ReturnValue;taint;generated",
-        "org.apache.commons.io;IOUtils;true;toByteArray;(Reader,String);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;toByteArray;(String);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;toCharArray;(InputStream);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;IOUtils;true;toCharArray;(InputStream,Charset);;Argument[0];ReturnValue;taint;generated",
@@ -669,7 +667,6 @@ private class IOGeneratedSummaryCsv extends SummaryModelCsv {
         "org.apache.commons.io;IOUtils;true;writeLines;(Collection,String,OutputStream);;Argument[1];Argument[2];taint;generated",
         "org.apache.commons.io;IOUtils;true;writeLines;(Collection,String,OutputStream,Charset);;Argument[1];Argument[2];taint;generated",
         "org.apache.commons.io;IOUtils;true;writeLines;(Collection,String,OutputStream,String);;Argument[1];Argument[2];taint;generated",
-        "org.apache.commons.io;IOUtils;true;writeLines;(Collection,String,Writer);;Argument[0].Element;Argument[2];taint;generated",
         "org.apache.commons.io;IOUtils;true;writeLines;(Collection,String,Writer);;Argument[1];Argument[2];taint;generated",
         "org.apache.commons.io;IOUtils;true;writer;(Appendable);;Argument[0];ReturnValue;taint;generated",
         "org.apache.commons.io;LineIterator;true;LineIterator;(Reader);;Argument[0];Argument[-1];taint;generated",