input
stringlengths 10
828
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stringlengths 5
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public string wp html excerpt string str int count str strings strip tags str str qmultibyte mb strcut str 0 count remove part of an entity at the end str qreg ex perl preg replace s 0 6 str return str
|
safely extracts not more than the first count characters from html
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public void close if file name equals we re reading from stdin don t do anything else try stream close catch ioexception e gaaa throw new runtime exception e
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close the file stream and reset the file name
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public energy particles atoms sim system sys this atoms atoms this sys sys size atoms number dim sim system dim parse interactions setup interactions
|
the energy class constructor
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public void calc energy final int intlength interactions energy length for int i 0 i intlength i interactions energy i run
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public void method calc energy calculates the bonded and non bonded forces br
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public fdpoisson boltzmann eps grid particles atoms sim system sys this atoms atoms this sys sys size atoms number
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the poisson boltzmannn eps grid class constructor
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public fdpoisson boltzmann boundary particles atoms sim system sys super atoms sys false
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the poisson boltzmann class constructor
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public void update with final double value nn final double ss double nn 1 nn final double delta value nn av ss av delta av2 value delta
|
update the average with a sample value
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public pairlist add offset final int offset for int ii 0 ii n particles ii for int jj 0 jj num pairs ii jj pairs ii jj offset return this
|
add an offset to the pairlist pairs
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public particles insert final int pos final particles head subset bla range 0 pos final particles tail subset bla range pos number final particles insertion new particles 1 return head join insertion join tail
|
inserts a new particle at a specific position
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public void write title final string title throws ioexception out file write author created by the esra md analysis package n out file write pdbtitle formatter format title out file flush
|
write more or less proper pdb header information author title
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public sim system parse system sim system system new sim system do bonds bonds bonds new bonds bondblock size string tokenizer tok for int i 0 i bonds number i line string bondblock get i tok new string tokenizer line tok next token trim bonds i i integer parse int tok next token trim bonds j i integer parse int tok next token trim system bond bonds return system
|
parses system information from mol2 file into a sim system object
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public string to string string string name description if required string string defaults to for int ii 0 ii default value length ii string default value ii string string n return string
|
convert argument to string
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public void put argument description a throws ioexception if definitions contains key a type name throw new ioexception definitions already contain key a type name n definitions put a type name a
|
add another argument description
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public string usage string us n usage progname n iterator string it definitions key set iterator while it has next us t argument description definitions get it next type to string us n return us
|
supply a usage string detailing program name
|
protected void check help hash map string array list string av throws ioexception if av contains key help system err print n help text for program progname n help text n usage system exit 0 else put new argument description new argument type spec help print the program help text and exit string null new argument value spec 0 0 argument checker no pattern
|
if the arguments contain the help keyword
|
protected void check values throws ioexception iterator string it definitions key set iterator while it has next string key it next array list string values available get key argument value spec avs argument description definitions get key values argument checker check key values avs min avs max avs pattern
|
assert that all the supplied arguments conform to the argument
|
public string read title final array list string block get next block if block size 0 throw new runtime exception no block found on file file name n final string first line string block get 0 if first line trim equals title throw new runtime exception next block in file file name is not a title block found first line n return string utils join string block sub list 1 block size 1 to array new string 0 n
|
gromos files are usually headed by a title block
|
public g96 frame read frame return read frame false
|
read and parse a gromos96 frame from file
|
public double fluctuation final double dd r avx av r avy av r avz av final double ff r dot av bla norm2 dd return ff
|
you shouldnt need this directly
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public double gamma final double temperature final double rr constants rgas temperature r vol av constants eps0 return fluctuation rr
|
dont worry you shouldnt need this either
|
public jcomponent get toolbar return toolbar
|
get the jcomponent which represents the toolbar
|
public void new ui test ui ui test ui ui
|
uilistener interface method implementation
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public list get seat list return seat list
|
return the list of seat ids as intuited from the locale files
|
public void reload debug info info m debug info info build ui false
|
reload the testbench
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public void new ui test ui ui this ui ui
|
uilistener interface method implementation
|
public list get command list return command list
|
return the list of commands found in testbench
|
private void write message text string message message handler print message
|
wrapper function to print a message string
|
protected user agent create user agent define an anonymous class which customizes the handling of svg errors instead of popping up batik s standard ugly dialog box we pass the buck to our own handlers user agent agent new jsvgcanvas canvas user agent public void display error string msg svgtest canvas this message handler print msg public void display error exception ex svgtest canvas this error handler error ex return agent
|
override the creation of a user agent
|
public void set all enabled boolean val m start game but set enabled val m end game but set enabled val m seat popup set enabled val for int ix 0 ix m components size ix jcomponent cmp jcomponent m components get ix cmp set enabled val
|
turn all the controls in the buttonbar on or off
|
public void force redraw do nothing
|
kludge to force the component to redraw itself
|
protected void reload ui build ui pack repaint 0 0 999 999
|
rebuild the contents of the window because the metadata has changed
|
public metadata load metadata try return metadata parse svgmetadata base url catch exception ex error handler error ex return new metadata
|
implementation of test ui
|
public void set crashed m crashed true m table null
|
the client can notice in several ways that the game has crashed
|
public void set message handler game ui message handler message handler this message handler message handler
|
this is a grody hack to get a message handler into the referee
|
public void send message string message throws xmppexception get connection create chat get responder jid send message message
|
send a text message to the referee
|
public object construct try object res if m query type query info if m node null res m disco man discover info m jid else res m disco man discover info m jid m node else if m node null res m disco man discover items m jid else res m disco man discover items m jid m node return res catch xmppexception ex return ex
|
internal thread handler
|
public void finished object obj get if obj instanceof xmppexception m callback run null xmppexception obj m rock else m callback run iq obj null m rock
|
internal thread handler
|
public string get ver return m ver
|
return the ver attribute
|
public string get ext as string if m ext null m ext length 0 return null string buffer buf new string buffer for int ix 0 ix m ext length ix a space separated list if ix 0 buf append buf append string m ext ix return buf to string
|
return the extensions attribute in the form of a space delimited list
|
public boolean has ext string string val if m ext null m ext length 0 return false for int ix 0 ix m ext length ix string ext string m ext ix if ext equals val return true return false
|
returns whether the extensions attribute contains the given string
|
public void begin script code synchronized call in progress lock if call in progress boolean true throw new assertion error tried to run two ecmascript calls at the same time call in progress boolean true
|
this exists only to support assertions and paranoia checks
|
public data form get form return m form
|
get the data form
|
public string get form type form field field get field form type if field null field get type null field get type equals form field type hidden string formtype string field get values next return formtype return null
|
get the type the form type that is of the data form
|
public iterator get fields return m form get fields
|
return the fields of the data form
|
public string to xml string buffer buf new string buffer buf append append get element name buf append xmlns append get namespace append buf append buf append m form to xml buf append append get element name buf append return buf to string
|
generate xml for this extension
|
public void end script code synchronized call in progress lock call in progress boolean false
|
call this after executing any script code
|
public object construct try object res res m target invoke timeout m method name m params m timeout return res catch token failure ex return ex catch rpcexception ex return ex catch xmppexception ex return ex
|
internal thread handler
|
public void finished object obj get if obj instanceof exception m callback run null exception obj m rock else m callback run obj null m rock
|
internal thread handler
|
public boolean is success return m success
|
ask whether the query succeeded
|
public xmppexception get error return m error
|
extract the error that resulted from the query
|
public discover info get info return discover info m iq
|
extract the discover info that resulted from the query
|
public discover items get items return discover items m iq
|
extract the discover items that resulted from the query
|
protected void resolve object obj m worker get if obj null obj new xmppexception disco operation interrupted if obj instanceof xmppexception m success false m error xmppexception obj else m success true m iq iq obj
|
check out the workers result object and set the querys member
|
public object construct for int ix 0 ix m count ix query query m queries ix query m worker new disco worker m query type query for int ix 0 ix m count ix query query m queries ix query m worker start for int ix 0 ix m count ix query query m queries ix object result query m worker get return m queries
|
internal thread handler
|
public void finished resolve all the query results we do this after the worker threads have finished because it s less confusing this way for int ix 0 ix m count ix query query m queries ix query resolve m callback run m queries m rock
|
internal thread handler
|
protected void set required boolean val m required val
|
set whether this is a required seat
|
protected void add player player player if m players index of player 1 already there else m players add player
|
add a player to this seat
|
protected void remove player player player int index m players index of player if index 1 m players remove index else already gone
|
remove a player from this seat
|
public iterator get players return m players iterator
|
get the list of players sitting in this seat
|
public boolean is occupied if m players is empty return false else return true
|
is this seat occupied
|
protected void set active boolean val m active val
|
set whether this seat is active that is involved in the current
|
public string translate string token string tokens new string 1 tokens 0 token return translate arrays as list tokens
|
translate one token
|
public string translate string token1 string token2 string tokens new string token1 token2 return translate arrays as list tokens
|
translate a pair of tokens
|
public string get alt return m alt tag
|
get the alternate text string for this audio resource
|
public string translate token failure ex return translate ex get tokens
|
translate tokens received in an rpc failure message
|
public void set alt string alt if alt null alt m alt tag alt
|
set the alternate text string for this audio resource
|
public int get loop return m loop
|
get the looping factor for this audio resource
|
public void set loop int val if val 1 val loop continuously throw new illegal argument exception loop value must be positive or 1 m loop val
|
set the looping factor for this audio resource
|
public string translate seat id string token if locale dir null map tab get current table seat if tab contains key token return string tab get token return null
|
translate a seat identifier
|
public bookkeeper xmppconnection connection string jid super connection jid this jid jid
|
connect to a volity bookkeeper
|
public void stop if m clip null m clip stop
|
stop the clip
|
public void clear cache table cache game clear table cache ui clear table cache seat clear
|
clear the cached tables we loaded from the ui package
|
public void set current seat string seat id current seat seat id
|
set where the imaginary client thinks its sitting
|
public void change locale dir file locale dir this locale dir locale dir clear cache
|
switch to a different locale directory
|
protected boolean call ui scriptable obj string name list params if obj null game ui null game ui scope null return false object method obj get name game ui scope if method null method instanceof function no ui method is the same as a no op return false game ui call uimethod function method params new game ui completion public void result object obj drop the return value on the floor public void error exception ex game ui error handler error ex return true
|
utility function to call a named method of an object
|
public void get rulesets final callback callback object rock disco background callback subback new disco background callback public void run iq result xmppexception err object rock if err null callback run null err rock return assert result null result instanceof discover items discover items items discover items result list rulesets new array list for iterator it items get items it has next discover items item item discover items item it next rulesets add uri create string item get node callback run rulesets null rock disco background query new disco background get connection subback disco background query items jid rulesets rock
|
ask the bookkeeper what rulesets are available
|
public void connect return
|
this method is supposed to connect to the urls resource
|
protected list massage token list object args list ls new array list for int ix 0 ix args length ix object obj args ix if obj instanceof string ok as is else if obj instanceof number obj literal string value of obj else if obj null obj literal null else obj literal unprintable object obj to string ls add obj return ls
|
a couple of javascript accessible functions message and localize take
|
public void add invitation listener invitation listener listener listeners add listener
|
add a game table invitation listener
|
public void remove invitation listener invitation listener listener listeners remove listener
|
remove a game table invitation listener
|
public void start responder start
|
start listening for invitations
|
public void stop responder stop
|
stop listening for invitations
|
public void inject invitation invitation invitation for iterator it listeners iterator it has next invitation listener it next invitation received invitation
|
take an invitation that was pulled from some other source e
|
protected string prettify params object args string buffer buf new string buffer string methname args 0 to string if methname index of 0 methname game methname buf append methname buf append for int ix 1 ix args length ix if ix 1 buf append object obj args ix prettify param buf obj buf append return buf to string
|
convert a list of arguments for rpc into a string
|
public list get client types list types new array list form field field form get field client type if field null return types for iterator it field get values it has next try types add new uri string it next catch urisyntax exception e return types
|
get the client types supported by this game ui
|
public list get languages list langs new array list form field field form get field languages if field null return langs for iterator it field get values it has next langs add it next return langs
|
get the languages supported by this game ui
|
public uri get ruleset return uri create get value ruleset
|
get the ruleset supported by this game ui
|
public int get reputation string val get value reputation if val null return 0 return integer parse int val
|
get the reputation ranking of this game ui
|
public boolean matches version spec spec if spec null return true the code that does this check lives in version spec so we call that return spec matches this
|
check whether this version matches the given spec
|
public string get contact email return get value contact email
|
get the email address of the person responsible for this game ui
|
public string get contact jid return get value contact jid
|
get the jid of the person responsible for this game ui
|
public string to string if m string form null m string form string value of m major if is minor visible m string form string value of m minor if m release null m string form m release return m string form
|
return the string form of the version number
|
public string get description return get value description
|
get the description of this game ui
|
public string get content type try return get location open connection get content type catch ioexception e return null
|
get the media type of the content of this game ui
|
protected string get value string name form field field form get field name if field null return null return field get values next to string
|
get the value of a text single field
|
public string to string string s name name n location location n for iterator it form get fields it has next form field field form field it next s field get variable boolean first true for iterator it2 field get values it2 has next if first first false else s s it2 next s n s content type get content type return s
|
a human readable representation of the information for this game ui
|
public string get game name return m game name
|
the non internationalized game name
|
public boolean matches version number version if m patterns null matches anything return true must match at least one pattern for int ix 0 ix m patterns length ix if m patterns ix matches version return true nope return false
|
does this spec match the given version
|
public string to string if m string form null m string form for int ix 0 ix m patterns length ix if ix 0 m string form m string form m patterns ix to string return m string form
|
return the string form of the version spec
|
public string get player jid return string fields get player
|
the jid of the inviting player
|
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