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private object alloc object from free list int size object vtable heap address addr alloc from free list size if addr is null not enough space in free list try a gc collect addr alloc from free list size if addr is null need to allocate new block of memory return null addr heap address addr offset object layout obj header size addr offset object layout vtable offset poke heap address address of vtable if flip addr offset object layout status word offset poke4 object layout gc bit return addr as object
try to allocate an object from the free list
public object allocate object align8 int size object vtable throws out of memory error heap current heap address heap current offset object layout obj header size align 3 offset object layout obj header size return allocate object size vtable
allocate an object such that the first field is 8 byte aligned
public object allocate array align8 int length int size object vtable throws out of memory error negative array size exception heap current heap address heap current offset object layout array header size align 3 offset object layout array header size return allocate array length size vtable
allocate an array such that the elements are 8 byte aligned
public int compare to jq compiled code that code address ip this get ip code address start that get start if start difference ip 0 return 1 if start offset that get length difference ip 0 return 1 return 0
compare this instruction pointer to a compiled code object
public int compare to instruction pointer that if this ip difference that ip 0 return 1 if this ip difference that ip 0 return 1 return 0
compare this instruction pointer to another instruction pointer
public int compare to java lang object that if that instanceof jq compiled code return compare to jq compiled code that else return compare to instruction pointer that
compares this instruction pointer to the given object
public boolean equals jq compiled code that code address ip this get ip code address start that get start if ip difference start 0 return false if ip difference start offset that get length 0 return false return true
returns true if this instruction pointer refers to a location
public boolean equals instruction pointer that return this ip difference that ip 0
returns true if this instruction pointer refers to the same location
public boolean equals object that if that instanceof jq compiled code return equals jq compiled code that else return equals instruction pointer that
compares this instruction pointer with the given object
public int compare to heap pointer that if this ip difference that ip 0 return 1 if this ip difference that ip 0 return 1 return 0
compare this heap pointer to another heap pointer
public int compare to java lang object that return compare to heap pointer that
compares this heap pointer to the given object
public boolean equals heap pointer that return this ip difference that ip 0
returns true if this heap pointer refers to the same location
public boolean equals object that return equals heap pointer that
compares this heap pointer with the given object
public void reset mode nowrap decode blocks decode header total in total out 0 input reset output window reset dyn header null litlen tree null dist tree null is last block false adler reset
resets the inflater so that a new stream can be decompressed
private boolean decode dict while needed bits 0 int dict byte input peek bits 8 if dict byte 0 return false input drop bits 8 read adler read adler 8 dict byte needed bits 8 return false
decodes the dictionary checksum after the deflate header
private boolean decode chksum throws data format exception while needed bits 0 int chk byte input peek bits 8 if chk byte 0 return false input drop bits 8 read adler read adler 8 chk byte needed bits 8 if int adler get value read adler throw new data format exception adler chksum doesn t match integer to hex string int adler get value vs integer to hex string read adler mode finished return false
decodes the adler checksum after the deflate stream
public void set dictionary byte buffer set dictionary buffer 0 buffer length
sets the preset dictionary
public void set dictionary byte buffer int off int len if needs dictionary throw new illegal state exception adler update buffer off len if int adler get value read adler throw new illegal argument exception wrong adler checksum adler reset output window copy dict buffer off len mode decode blocks
sets the preset dictionary
public void set input byte buf int off int len input set input buf off len total in len
sets the input
public boolean needs input return input needs input
returns true if the input buffer is empty
public boolean needs dictionary return mode decode dict needed bits 0
returns true if a preset dictionary is needed to inflate the input
public boolean finished return mode finished output window get available 0
returns true if the inflater has finished
public int get adler return needs dictionary read adler int adler get value
gets the adler checksum
public int get total out return total out
gets the total number of output bytes returned by inflate
public int get total in return total in get remaining
gets the total number of processed compressed input bytes
public int get remaining return input get available bytes
gets the number of unprocessed input
public void end output window null input null dyn header null litlen tree null dist tree null adler null
frees all objects allocated by the inflater
protected void finalize throws throwable exists only for compatibility super finalize
finalizes this object
public void wait on semaphore if this semaphore 0 this semaphore system interface init semaphore todo integrate waiting on a semaphore into the scheduler for int rc system interface wait for single object this semaphore 10 timeout if rc system interface wait timeout thread yield continue else if rc 0 return else system interface debugwriteln bad return value from wait for single object rc
create a semaphore if there isnt one already and wait on it
public void release semaphore if this semaphore 0 this semaphore system interface init semaphore system interface release semaphore this semaphore 1
create a semaphore if there isnt one already and release it
public jq thread get current thread return current thread
returns the jq thread that is currently running on this native thread
public code allocator get code allocator return my code allocator
get the native thread local code allocator
public heap allocator get heap allocator return my heap allocator
get the native thread local heap allocator
public jq thread get current java thread return current thread
get the currently executing java thread
public void resume system interface resume thread thread handle
starts up resumes this native thread
public void suspend system interface suspend thread thread handle
suspends this native thread
public boolean get context jq register state r return system interface get thread context pid r
gets context of this native thread and puts it in r
public boolean set context jq register state r return system interface set thread context pid r
sets context of this native thread to r
public void thread switch jq thread t1 this current thread t1 was preempted true if trace system interface debugwriteln timer interrupt in native thread this java thread t1 switch thread assert unreachable
thread switch based on a timer or poker interrupt
public void yield current thread jq thread t1 this current thread if t1 this scheduler thread the scheduler thread is trying to yield this occurs when there is contention on a monitor that the scheduler thread uses e g the monitor for the transfer queue the scheduler thread doesn t have anyone to yield to so we just return which will cause us to busy wait t1 enable thread switch assert assert t1 is thread switch enabled return t1 was preempted false if trace system interface debugwriteln explicit yield in native thread this java thread t1 switch thread assert unreachable
thread switch based on explicit yield
public boolean is compatible long tgt profile id long src profile id boolean compatible false try profile profile profile util fetch by primary key tgt profile id list profile matches get matches profile false src profile id compatible matches null matches is empty catch exception e log error e get message return compatible
this method checks if two profiles are compatible
private string to proper csv string input csv if validator is null input csv input csv equals ignore case 0 return string pool blank string buffer sb new string buffer string parts input csv split sb append parts 0 for int i 1 i parts length i string part parts i sb append sb append part return sb to string
removes all unwanted commas
public boolean is primitive return this roles is empty
proxy model is primitive if his set of roles is empty
private void check clash for term t terms string op t get operator if op null op equals reasoner constants not if terms contains t get first subterm this is clashed true
checks this node for clashes e
public edge type get edge type int p id int c id for tableau edge e edges values if e child id c id e parent id p id return e type return null
returns the particular relation between one parent and one child node
public boolean in terms of int id term t set term temp new tree set term temp add t set term terms1 apply intersection rule temp set term terms2 get terms id for term t1 terms1 if terms2 contains t1 return false return true
use this instead of
private void create result label ct ctsim result ct sim result ctsim result sim result string result text span style font size 20 color 286 ea0 similarity between ct sim result get search concept get uri get fragment and ct sim result get target concept is ct sim result get value 100 span result label ct set text view component add sim cat markup result text result label ct set visible true
creates a label for visualizing similarity scores compared to one single
public jlabel get label string background color selected 286ea0 ffffff return new jlabel html head body bgcolor background color get mark up body html
retrieves the label for visualizing the contained context element
public void jump to string element name try description pane set page help url element name catch ioexception e todo exception handling
displays the according help item
protected string get mark up string text uitranslator get translator get translation context elem name return selected font color ffffff text font text
the formatted name of the context element
public void server start queued thread pool thread pool new queued thread pool thread pool set min threads 5 this server set thread pool thread pool try this server start this server join logger debug debug is enabled catch exception e
starts the server
public void server stop try this server stop catch exception e
stops the server
public void set server handler sim cat handler handler this server set handler org eclipse jetty server handler handler
assigns a jetty7 handler to the server
public void process input stream request output stream response throws saxexception ioexception reasoner process request response
parses the requests elements and starts operations corresponding to different request tags
public void handle string target request base request http servlet request request http servlet response response throws ioexception servlet exception base request set handled true try response set content type text xml this controller process request get input stream response get output stream catch exception e e print stack trace
implements a simple server handler needed for sim cat processes
public string get edge name long p id long c id for tableau edge e edges if e child id c id e parent id p id return e name return null
returns the name of a directional edge
public boolean in terms of long id term t set term temp new tree set term temp add t set term terms1 apply intersection rule temp set term terms2 get terms id for term t1 terms1 if terms2 contains t1 return false return true
use instead of get terms id
private void create result label ct ctsim result ct sim result ctsim result sim result string result text span style font size 20 color 286 ea0 similarity between ct sim result get search concept get iri get fragment and ct sim result get target concept is ct sim result get value 100 span result label ct set text sim cat2 view component add sim cat markup result text result label ct set visible true
creates a label for visualizing similarity scores compared to one single
public sim cat version info get version info if vinfo null vinfo new sim cat version info return vinfo
method for the current version of the sim cat dl reasoner
private concept optimize number restrictions in concept concept concept array list unqualified number restriction number restrictions find number restrictions in concept concept array list tuple replacements find number restrictions replacements number restrictions return replace number restrictions in concept concept replacements
rewriting rule 4
public document create xmldocument input stream in throws jdomexception ioexception reader in reader new input stream reader in return builder build in reader
parses the server request into a jdom document
public void release kb string uri while in use in use true uuid kbmapping remove uri in use false
releases a specified knowledge base
public knowledge base get uuid kbby uri string uri while in use in use true if uuid kbmapping contains key uri in use false return null knowledge base kb uuid kbmapping get uri kb set last access date system current time millis in use false return kb
retrieves the knowledge bases uuid mappings
private sim cat version info get version info if vinfo null vinfo new sim cat version info return vinfo
assembles a response that knowledge base has been created and provides its uuid
protected element add element document doc string tag element parent element element doc create element tag parent append child element return element
appends a new element to a given parent element in the current document
public document build release kbresponse document doc new document impl element root doc create element response doc append child root root set attribute xmlns server constants namespace root set attribute xmlns xsi server constants xsi root set attribute ns server constants xsi xsi schema location server constants namespace server constants schema add element doc server constants ok root return doc
assembles a response that the knowledge base has been released
public document build tells response document doc new document impl element root doc create element response doc append child root root set attribute xmlns server constants namespace root set attribute xmlns xsi server constants xsi root set attribute ns server constants xsi xsi schema location server constants namespace server constants schema add element doc server constants ok root return doc
assembles a tell response
public void server start bounded thread pool thread pool new bounded thread pool thread pool set min threads 5 this server set thread pool thread pool try this server start this server join logger debug debug is enabled catch exception e
starts the server
public void set server handler sim cat handler handler this server set handler org mortbay jetty handler handler
assigns a jetty6 handler to the server
public void delete direct sub node concept taxonomy node sub node direct sub nodes remove sub node sub node direct super nodes remove this
this method removes a sub node from the list of direct sub nodes
private boolean contains concept concept subsumption concept defining concept if subsumption instanceof intersection return intersection subsumption get first concepts are equal defining concept intersection subsumption get second concepts are equal defining concept return subsumption concepts are equal defining concept
checks if subsumptions is already in the definition of definig concept
public named concept get concept string name for iterator concepts iterator concepts iterator concepts iterator has next concept con concept concepts iterator next if con instanceof named concept named concept con get name equals name return named concept con return null if there is no concept with given name return null
get a concept by name
public boolean is sub node of concept taxonomy node node if get all super nodes contains node return true return false
this method checks whether the given node is a super node
public tuple add unequal pair tuple tuple if is unequal tuple individual pairs add tuple return tuple
sets the unequalityvalue in the matrix
public concept taxonomy node create topnode concept top new named concept server constants top concept taxonomy node node new concept taxonomy node top nodes add new tuple top node return node
this method creates the top node for this taxonomy
public concept taxonomy node create bottomnode concept bottom new named concept server constants bottom concept taxonomy node node new concept taxonomy node bottom nodes add new tuple bottom node return node
this method creates the bottom node for this taxonomy
private concept taxonomy node add node concept concept concept taxonomy node node new concept taxonomy node concept nodes add new tuple concept node return node
this method creates a new node and adds it to the concept taxonomy
public boolean contains node concept concept for tuple tuple nodes if concepts are equal concept tuple get first element concept return true return false
this method checks whether a concept is contained in the
public abox get abox return a box
this method returns the abox of a knowledge base
public void delete direct sub node concept taxonomy node old sub node direct sub nodes remove sub node sub node direct super nodes remove this
this method removes a sub node from the list of direct sub nodes
public tbox get tbox return t box
this method returns the tbox of a knowledge base
public tbox get normalized tbox return normalized tbox
this method returns the normalized tbox of a knowledge base
public void set tbox tbox box concept taxonomy null role graph null t box box
this method sets the tbox of a knowledge base
public concept taxonomy node get node concept concept for tuple tuple nodes if concepts are equal concept tuple get first element concept return concept taxonomy node tuple get second element return add node concept
this method returns a node to a given concept
public concept taxonomy node get top return top node
getter for the top node
public void set normalized tbox tbox normalized tbox this normalized tbox normalized tbox
this method sets the normalized tbox of a knowledge base
public void add equivalent node concept taxonomy node old node equivalents add node
this method adds an equivalent node
public concept taxonomy node get bottom return bottom node
getter for the bottom node
public concept taxonomy node old create topnode concept top new named concept server constants top concept taxonomy node old node new concept taxonomy node old top nodes add new tuple top node return node
this method creates the top node for this taxonomy
public boolean is sub node of concept taxonomy node old node if get all super nodes contains node return true return false
this method checks whether the given node is a super node
public concept taxonomy node old create bottomnode concept bottom new named concept server constants bottom concept taxonomy node old node new concept taxonomy node old bottom nodes add new tuple bottom node return node
this method creates the bottom node for this taxonomy
private concept taxonomy node old add node concept concept concept taxonomy node old node new concept taxonomy node old concept top node nodes add new tuple concept node return node
this method creates a new node and adds it to the concept taxonomy
public void hide is hidden true
this method hides this node
public concept taxonomy node old get node concept concept for tuple tuple nodes if concepts are equal concept tuple get first element concept return concept taxonomy node old tuple get second element return add node concept
this method returns a node to a given concept
public concept taxonomy node old get top return top node
getter for the top node
public concept taxonomy node old get bottom return bottom node
getter for the bottom node
public void set knowledge base knowledge base kb this kb kb
set the knowledge base that has been used with this similarity operation
public result concept get concept string concept name for iterator result concept iter concepts iterator iter has next result concept c iter next if c get concept name equals concept name return c return null
retrieves the concept with the specified name from this rank
public void set similarity ranking ccsimilarity result sim ranking this sim ranking sim ranking
set the ranking that has been computed from the similarity request
public void submit context logger log similarity operation this
submit the similarity operation to the context logger