667 lines
23 KiB
Tcl
667 lines
23 KiB
Tcl
##
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# @file nxscripts_common_1.tcl
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# @brief Defines functions to create and save a nexus datafile based on the hdb tree metadata
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#
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MakeNXScript
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sicsdatafactory new nxscript_data
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##
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# @brief Strips the output of a SICS command leaving only the value\n
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# TODO Replace $cmd_output with [$cmd_output] so we can just pass the command name
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#
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# @param cmd_output The output from a command substitution
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# @return The unadorned value returned by the SICS command which produced cmd_output
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proc getVal {cmd_output} {
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return [string trim [lindex [split $cmd_output =] 1 ] ]
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}
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##
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# @brief Generate a filename from sicsdatanumber and sicsdatapath
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#
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# @param postfix This is the filename suffix, must be one of: nx.hdf, hdf, h5, nx5, xml
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proc newFileName {postfix} {
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array set inst_mnem {quokka QKK wombat WBT echidna ECH kowari KWR koala KOL taipan TPN platypus PLP pelican PLN}
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set idNum [SplitReply [sicsdatanumber]]
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set dataPath [SplitReply [sicsdatapath]]
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# set prefix [SplitReply [sicsdataprefix]]
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set date_time_arr [split [sicstime] " "]
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set isodate [lindex $date_time_arr 0]
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set isotime [string map {: -} [lindex $date_time_arr 1]]
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return [format "%s/%s%07d.%s" $dataPath $inst_mnem([instname]) $idNum $postfix]
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}
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namespace eval nexus {
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##
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# @brief This is the nexus dictionary generated by the gen_nxdict function
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variable nxdictionary
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##
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# @brief Records the current Nexus file state.
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variable state
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set exports [list newfile closefile save data]
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eval namespace export $exports
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if 0 {datafilename}
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##
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# @brief Initialise state variables
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proc init {} {
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variable state
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variable nexusdic
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array set state {file,new "true" file,open "false" file,type "data" file,format "hdf"}
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set nexusdic "nexus.dic"
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}
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##
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# @brief Create a nexus file
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# This first generates a nexus dictionary file from the hdb tree and then creates a new
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# nexus file based on that dictionary.
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proc createfile {} {
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global cfPath
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variable nexusdic
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variable state
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if {$state(file,open) == "true"} {
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error_msg "Can't create a new file because the current file is still open"
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} elseif {$state(file,new) == "false"} {
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error_msg "This function should only be called when state(file,new) = true"
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}
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set file_format [SplitReply [SicsDataPostFix]]
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array set nxmode [list nx.hdf create5 hdf create5 h5 create5 nx5 create5 xml createxml]
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set nxdict_path [::nexus::gen_nxdict $nexusdic]
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if {$state(file,type) == "scratch"} {
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dataFileName [format "scratch.%s" $file_format]
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} else {
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sicsdatanumber incr
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dataFileName [newFileName $file_format]
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}
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hsetprop /data currentfiletype [::utility::hgetplainprop /data datatype]
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nxscript $nxmode($file_format) [SplitReply [dataFileName]] $nxdict_path
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set state(file,open) false
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set state(file,new) false
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}
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##
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# @brief Setup file state info for writing a new file.
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#
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# @param type
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#
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# postconditions:
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# state(file,open) true state(file,new) false
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# /data/currentfiletype == UNKNOWN
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proc newfile {{type data}} {
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variable state
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set state(file,type) $type
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set state(file,new) true
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hsetprop /data currentfiletype UNKNOWN
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}
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##
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# @brief Save data to the currently open file and then close it.
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#
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# @param point This is the array index for mutable data elements
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#
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# This function provides the top level call to the recursive ::nexus::savetree
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# function
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#
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# @see ::nexus::savetree
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proc save_data {point} {
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debug_msg "save point $point in [dataFileName]"
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::nexus::nxreopenfile
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foreach child [hlist /] {
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if {[::utility::hgetplainprop /$child data] == "true"} {
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::nexus::savetree $child $point
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}
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}
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::nexus::nxclosefile
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}
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##
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# @brief save data collected by last data acquisition command.
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#
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# @param point experimental point number, this is the array index for mutable
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# datasets in the nexus file. Optional, default = 0
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#
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# A new file will be created if the new file state has been set to true, or
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# if the current data type doesn't match the current file type.
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proc save {{point 0}} {
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variable state
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if 0 {
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if {$args == ""} {
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set point 0
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} else {
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set point [lindex $args 0]
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}
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}
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if {[string is integer $point] == 0} {
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error_msg "save index must be an integer"
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} elseif {$point < 0} {
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error_msg "save index cannot be negative"
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}
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::data::gumtree_save -set run_number $point
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set isNewFile [expr {$state(file,new) == "true"}]
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set currFileType [::utility::hgetplainprop /data currentfiletype]
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set currDataType [::utility::hgetplainprop /data datatype]
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set dataTypeChanged [expr {$currFileType != $currDataType}]
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if {$isNewFile || $dataTypeChanged} {
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set state(file,new) true
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::nexus::createfile
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::nexus::save_data $point
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::nexus::linkdata
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} else {
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::nexus::save_data $point
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}
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return
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}
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##
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# @brief Reopen the current file, close it with nxclosefile
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#
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# @see nxclosefile
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proc nxreopenfile {} {
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global cfPath
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variable state
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variable nexusdic
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if {$state(file,open) == "false"} {
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nxscript reopen [SplitReply [dataFileName]] $cfPath(nexus)/$nexusdic
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set state(file,open) true
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}
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}
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##
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# @brief Close the current file. You can reopen it with nxreopenfile
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#
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# @see nxreopenfile
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proc nxclosefile {} {
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variable state
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if {$state(file,open) == "true"} {
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nxscript close
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set state(file,open) false
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set flist [split [SplitReply [dataFileName]] "/"]
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set fname [lindex $flist [expr [llength $flist] - 1] ]
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clientput "$fname updated" "event"
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}
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}
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##
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# @brief Records that a given data source should be linked to nexus data target.
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#
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# NOTE: If a link has already been recorded then it does nothing. This allows you to
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# override default links set by a command. eg A "count" command may link axis_1 to
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# the run number but a "scan" command which uses the count command can link axis_1 to
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# a scan variable.
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#
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# Usage:
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# data data_set datsource
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# Records that /data/data_set should be linked to datsource and sets a data type identifier
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# data axis 1|2|3|4 datsource
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# Records that /data/axisn should be linked to datsource
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# data clear
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# Clears all link targets and sets the data type identifier to unknown
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# data alias <name>, remove alias <name>
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# data alias <name> <target>, set <name> as an alias for <target> unless it has already been defined.
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proc data {args} {
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variable state
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set dpath /data
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set opt [lindex $args 0]
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set arglist [lrange $args 1 end]
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switch $opt {
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"axis" {
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debug_msg "'axis' case of switch"
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set axnum [lindex $args 1]
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if {[string is integer $axnum] == 0} {
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error "ERROR: [info level -1]->data, index for data axis should be an integer, not $axnum"
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}
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set hp $dpath/axis_$axnum
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if {[::utility::hgetplainprop $hp link] == "@none"} {
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hsetprop $hp link [getatt [lindex $args 2] id]
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hsetprop $hp long_name [getatt [lindex $args 2] long_name]
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}
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}
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"data_set" {
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debug_msg "'data_set' case of switch"
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hsetprop $dpath datatype [lindex [info level -1] 0]
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set hp $dpath/data_set
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if {[::utility::hgetplainprop $hp link] == "@none"} {
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hsetprop $hp link [getatt [lindex $args 1] id]
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hsetprop $hp long_name [getatt [lindex $args 1] long_name]
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}
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}
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"clear" {
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debug_msg "'clear' case of switch"
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foreach child [hlist $dpath] {
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hsetprop $dpath/$child link @none
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hsetprop $dpath/$child long_name @none
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}
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}
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"alias" {
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debug_msg "'alias' case of switch"
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set alias_name [lindex $arglist 0]
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set alias_target [lindex $arglist 1]
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switch $alias_target {
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"" {
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if {[info exists state(data,alias,$alias_name)]} {
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definealias $alias_name
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set state(data,alias,$alias_name) @none
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}
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}
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default {
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if {[info exists state(data,alias,$alias_name)]} {
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if { $state(data,alias,$alias_name) == "@none" } {
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definealias $alias_name $alias_target
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}
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} else {
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definealias $alias_name $alias_target
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}
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return
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}
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}
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}
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default {error "ERROR: [info level -1]->data, Unsupported option $opt"}
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}
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}
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##
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# @brief Links data and axis into /data group
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proc linkdata {} {
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array unset axes
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set hpath /data
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::nexus::nxreopenfile
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foreach child [hlist $hpath] {
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array set p_arr [::utility::hlistplainprop $hpath/$child]
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if {$p_arr(data) == true && $p_arr(nxsave) == true} {
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if {[info exists p_arr(nxalias)]} {
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if {[info exists p_arr(type)] && $p_arr(type) == "nxvgroup"} {
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if {$p_arr(link) != "@none"} {
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nxscript makelink $p_arr(nxalias) $p_arr(link)
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switch -glob $child {
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"axis_*" {
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set n [lindex [split $child _] 1]
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set axes($n) [::utility::hgetplainprop $hpath/$child long_name]
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nxscript putattribute $p_arr(link) axis $n
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}
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"data_set" {
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nxscript putattribute $p_arr(link) signal 1
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set data_set_alias $p_arr(link)
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}
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default {error "ERROR: [info level -1]->linkdata, Unsupported data path $hpath/$child"}
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}
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}
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}
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}
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}
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}
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if {[info exists axes]} {
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foreach n [lsort [array names axes]] {
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lappend axes_list $axes($n)
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}
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nxscript putattribute $data_set_alias axes [join $axes_list :]
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}
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::nexus::nxclosefile
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::nexus::data clear
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}
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##
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# @brief Traverse the hdb subtree from the given path and save the data in the currently open file
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#
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# @param hpath path of subtree to save, must not be "/"
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# @param pt Current array index for mutable data (optional default=0)
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proc savetree {hpath {pt 0}} {
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foreach child [hlist /$hpath] {
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array unset p_arr
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array set p_arr [::utility::hlistplainprop /$hpath/$child]
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if {[info exists p_arr(type)] && $p_arr(type) == "nxvgroup"} {
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return
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}
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set data_type [lindex [split [hinfo /$hpath/$child] , ] 0]
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if {$p_arr(data) == true && $p_arr(nxsave) == true } {
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if {[info exists p_arr(savecmd)] && [info exists p_arr(nxalias)] } {
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if {[info exists p_arr(mutable)] && $p_arr(mutable) == "true" } {
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$p_arr(savecmd) $p_arr(sicsdev) $p_arr(nxalias) $data_type point $pt
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} else {
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$p_arr(savecmd) $p_arr(sicsdev) $p_arr(nxalias) $data_type
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}
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} elseif {[info exists p_arr(savecmd)] || [info exists p_arr(nxalias)]} {
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error_msg "/$hpath/$child must have both 'savecmd' and 'nxalias' properties\nThe actual property list for /$hpath/$child is [array get p_arr]"
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}
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::nexus::savetree $hpath/$child $pt
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}
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}
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}
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##
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# @brief Recursive portion of gen_nxdict function
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#
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# @param hpath hdb subtree path to generate dictionary fragment from, must not be "/"
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# @param dictPath parent path for nexus dictionary fragment.
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# @param name name for child dictionary path
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# @param nxc Nexus class name
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#
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# If the klass name doesn't begin with NX then construct the SDS name by replacing '/' with '_' in the
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# hdb path
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#
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# @see gen_nxdict
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proc _gen_nxdict {hpath dictPath name nxc} {
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variable nxdictionary
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if {[::utility::hgetplainprop /$hpath data] == "false"} {
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debug_msg "$hpath doesn't have a data property"
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return
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}
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foreach child [hlist /$hpath] {
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if {[::utility::hgetplainprop /$hpath/$child data] == true} {
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set nxclass [::utility::hgetplainprop /$hpath/$child klass]
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if {[string range $nxc 0 1] == "NX"} {
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::nexus::_gen_nxdict $hpath/$child $dictPath/$name,$nxc $child $nxclass
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} else {
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::nexus::_gen_nxdict $hpath/$child $dictPath ${name}_$child $nxclass
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}
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}
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}
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array set p_arr [::utility::hlistplainprop /$hpath]
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set data_type [lindex [split [hinfo /$hpath] , ] 0]
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if {$p_arr(data) == "true" && $p_arr(nxsave) == "true" && [info exists p_arr(nxalias)]} {
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set alias $p_arr(nxalias)
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if {[info exists p_arr(sdsinfo)]} {
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if {[info exists p_arr(mutable)] && $p_arr(mutable) == "true"} {
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set nxdictionary($alias) "$dictPath/SDS $name [$p_arr(sdsinfo) $p_arr(sicsdev) $data_type mutable true]"
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} else {
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set nxdictionary($alias) "$dictPath/SDS $name [$p_arr(sdsinfo) $p_arr(sicsdev) $data_type mutable false]"
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}
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} elseif {[info exists p_arr(type)] && $p_arr(type) == "nxvgroup"} {
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set nxdictionary($alias) "$dictPath/NXVGROUP"
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}
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}
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}
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##
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# @brief Generate a nexus dictionary file from the hdb tree
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#
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# An entry in the nexus dictionary is generated for each node in the
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# hdb tree which has the following properties and values, data=true and nxsave=true
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#
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# @param nexusdic Name of the nexus dictionary that will be created.
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# @return Full path to the nexus dictionary.
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proc gen_nxdict {nexusdic} {
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global cfPath
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variable nxdictionary
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set nxdict_path $cfPath(nexus)/$nexusdic
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array unset nxdictionary
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foreach hp [hlist /] {
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if {[::utility::hgetplainprop /$hp data] == true} {
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set nxclass [::utility::hgetplainprop /$hp klass]
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::nexus::_gen_nxdict $hp /entry1,NXentry $hp $nxclass
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}
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}
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set fh [open $nxdict_path w]
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puts $fh "##NXDICT-1.0"
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puts $fh padim0=0
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puts $fh padim1=0
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puts $fh padim2=0
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foreach {n v} [array get nxdictionary] {
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puts $fh "$n = $v"
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}
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close $fh
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return $nxdict_path
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}
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##
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# @brief Set SICS object attributes which are required for creating nexus data files.
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proc set_sobj_attributes {} {
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# SICS commands
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sicslist setatt nxscript privilege internal
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# SICS data objects
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sicslist setatt nxscript_data privilege internal
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foreach sobj [lrange [sicslist type motor] 1 end] {
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sicslist setatt $sobj savecmd ::nexus::motor::save
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sicslist setatt $sobj sdsinfo ::nexus::motor::sdsinfo
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}
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foreach sobj [sicslist type configurablevirtualmotor] {
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sicslist setatt $sobj savecmd ::nexus::motor::save
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sicslist setatt $sobj sdsinfo ::nexus::motor::sdsinfo
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}
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foreach sobj [sicslist type histmem] {
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sicslist setatt $sobj savecmd ::nexus::histmem::save
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sicslist setatt $sobj sdsinfo ::nexus::histmem::sdsinfo
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}
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foreach sobj [sicslist type sicsvariable] {
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sicslist setatt $sobj savecmd ::nexus::sicsvariable::save
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sicslist setatt $sobj sdsinfo ::nexus::sicsvariable::sdsinfo
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}
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foreach sobj [sicslist type singlecounter] {
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sicslist setatt $sobj savecmd ::nexus::singlecounter::save
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sicslist setatt $sobj sdsinfo ::nexus::singlecounter::sdsinfo
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}
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foreach sobj [sicslist kind script] {
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sicslist setatt $sobj savecmd ::nexus::script::save
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sicslist setatt $sobj sdsinfo ::nexus::script::sdsinfo
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}
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}
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}
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namespace eval ::nexus::histmem {}
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namespace eval ::nexus::motor {}
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namespace eval ::nexus::evcontroller {}
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namespace eval ::nexus::sicsvariable {}
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namespace eval ::nexus::singlecounter {}
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namespace eval ::nexus::script {}
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namespace import ::nexus::*
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foreach expt $::nexus::exports {
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publish $expt user
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sicslist setatt $expt privilege internal
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}
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##
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# @brief Convert the given hdb type to Nexus data type
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#
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# @param dtype hdb data type
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# @return Nexus data type
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proc ::nexus::hdb2nx_type {dtype} {
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switch $dtype {
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int {return NX_INT32}
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intar {return NX_INT32}
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intvarar {return NX_INT32}
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float {return NX_FLOAT32}
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floatar {return NX_FLOAT32}
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floatvarar {return NX_FLOAT32}
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text {return NX_CHAR}
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default {error "ERROR: [info level -1]->hdb2nx_type, Unknown type $dtype"}
|
|
}
|
|
}
|
|
|
|
##
|
|
# @brief Save command for histogram memory data.
|
|
#
|
|
# The savecmd attribute of any histogram memory objects should be set to this function
|
|
#
|
|
# @see set_sobj_attributes
|
|
proc ::nexus::histmem::save {hm nxalias data_type args} {
|
|
set dim0 [SplitReply [$hm configure dim0]]
|
|
set dim1 [SplitReply [$hm configure dim1]]
|
|
set dim2 [SplitReply [$hm configure dim2]]
|
|
nxscript updatedictvar padim0 $dim0
|
|
nxscript updatedictvar padim1 $dim1
|
|
nxscript updatedictvar padim2 $dim2
|
|
set data_start 0
|
|
set datalen [expr {$dim0 * $dim1 * $dim2}]
|
|
set bank 0
|
|
if {[lindex $args 0] == "point"} {
|
|
set index [lindex $args 1]
|
|
nxscript putslab $nxalias [list $index 0 0 0] [list 1 $dim0 $dim1 $dim2] $hm $data_start $datalen $bank
|
|
} else {
|
|
}
|
|
}
|
|
proc ::nexus::histmem::sdsinfo {hm data_type args} {
|
|
array set param $args
|
|
array set hm_prop [attlist $hm]
|
|
if {$param(mutable) == true} {
|
|
return " -type NX_INT32 -LZW -rank 4 -dim {-1,\$(padim0),\$(padim1),\$(padim2)}"
|
|
} else {
|
|
return " -type NX_INT32 -LZW -rank 3 -dim {\$(padim0),\$(padim1),\$(padim2)}"
|
|
}
|
|
}
|
|
|
|
# The save commands are called with the sobj name and nxalias
|
|
# The sdsinfo commands provide the SDS description for an nxdic
|
|
|
|
proc ::nexus::motor::save {motor nxalias data_type args} {
|
|
if {[lindex $args 0] == "point"} {
|
|
set index [lindex $args 1]
|
|
nxscript_data clear
|
|
nxscript_data putfloat 0 [getVal [$motor] ]
|
|
nxscript putslab $nxalias [list $index] [list 1] nxscript_data
|
|
} else {
|
|
if {[getatt $motor type] == "motor"} {
|
|
nxscript putmot $nxalias $motor
|
|
} else {
|
|
nxscript putfloat $nxalias [SplitReply [$motor]]
|
|
}
|
|
}
|
|
}
|
|
proc ::nexus::motor::sdsinfo {motor data_type args} {
|
|
array set param $args
|
|
array set mot_prop [attlist $motor]
|
|
set dtype [::nexus::hdb2nx_type $data_type]
|
|
if {$param(mutable) == true} {
|
|
return " -type $dtype -rank 1 -dim {-1} -attr {units,$mot_prop(units)} -attr {long_name,$mot_prop(long_name)}"
|
|
} else {
|
|
return " -type $dtype -attr {units,$mot_prop(units)} -attr {long_name,$mot_prop(long_name)}"
|
|
}
|
|
}
|
|
|
|
proc ::nexus::evcontroller::save {evc nxalias data_type args} {
|
|
if {[lindex $args 0] == "point"} {
|
|
set index [lindex $args 1]
|
|
nxscript_data clear
|
|
nxscript_data putfloat 0 [getVal [$evc] ]
|
|
nxscript putslab $nxalias [list $index] [list 1] nxscript_data
|
|
} else {
|
|
nxscript putfloat $nxalias [SplitReply [$evc]]
|
|
}
|
|
}
|
|
proc ::nexus::evcontroller::sdsinfo {evc data_type args} {
|
|
array set param $args
|
|
array set evc_prop [attlist $evc]
|
|
set dtype [::nexus::hdb2nx_type $data_type]
|
|
if {$param(mutable) == true} {
|
|
return " -type $dtype -rank 1 -dim {-1} -attr {units,$evc_prop(units)} -attr {long_name,$evc_prop(long_name)}"
|
|
} else {
|
|
return " -type $dtype -attr {units,$evc_prop(units)} -attr {long_name,$evc_prop(long_name)}"
|
|
}
|
|
}
|
|
|
|
namespace eval ::nexus {
|
|
}
|
|
|
|
proc ::nexus::sicsvariable::save {svar nxalias data_type args} {
|
|
array set attribute [attlist $svar]
|
|
set val [SplitReply [$svar]]
|
|
if {[lindex $args 0] == "point"} {
|
|
set index [lindex $args 1]
|
|
nxscript_data clear
|
|
switch $data_type {
|
|
int {nxscript_data putint 0 $val}
|
|
float {nxscript_data putfloat 0 $val}
|
|
default {error "ERROR: [info level -1]->::nexus::sicsvariable::save, unknown type $data_type"}
|
|
}
|
|
nxscript putslab $nxalias [list $index] [list 1] nxscript_data
|
|
} else {
|
|
switch $data_type {
|
|
int {nxscript putint $nxalias $val}
|
|
float {nxscript putfloat $nxalias $val}
|
|
text {nxscript puttext $nxalias $val}
|
|
default {error "ERROR: [info level -1]->::nexus::sicsvariable::save, unknown type $data_type"}
|
|
}
|
|
}
|
|
if {[info exists attribute(units)]} {
|
|
nxscript putattribute $nxalias units $attribute(units)
|
|
}
|
|
}
|
|
proc ::nexus::sicsvariable::sdsinfo {svar data_type args} {
|
|
array set param $args
|
|
set dtype [::nexus::hdb2nx_type $data_type]
|
|
if {$param(mutable) == true} {
|
|
return " -type $dtype -rank 1 -dim {-1}"
|
|
} else {
|
|
return " -type $dtype"
|
|
}
|
|
}
|
|
|
|
proc ::nexus::singlecounter::save {counter nxalias data_type args} {
|
|
todo_msg "Save counter: $counter"
|
|
}
|
|
proc ::nexus::singlecounter::sdsinfo {counter data_type args} {
|
|
todo_msg "Get sdsinfo for counter: $counter"
|
|
}
|
|
|
|
##
|
|
# @brief Save command for hdb nodes associated with a tcl macro
|
|
#
|
|
# The macro must return a 1D associative array when called with -arrayname.
|
|
proc ::nexus::script::save {script nxalias data_type args} {
|
|
array set attribute [attlist $script]
|
|
set darray [$script -arrayname]
|
|
set size [array size $darray]
|
|
switch $data_type {
|
|
"intar" - "intvarar" {
|
|
nxscript putintarray $nxalias $darray $size
|
|
}
|
|
"floatar" - "floatvarar" {
|
|
nxscript putarray $nxalias $darray $size
|
|
}
|
|
}
|
|
if {[info exists attribute(units)]} {
|
|
nxscript putattribute $nxalias units $attribute(units)
|
|
}
|
|
}
|
|
proc ::nexus::script::sdsinfo {script data_type args} {
|
|
set dtype [::nexus::hdb2nx_type $data_type]
|
|
set darray [$script -arrayname]
|
|
set size [array size $darray]
|
|
return " -type $dtype -rank 1 -dim {$size}"
|
|
}
|
|
|
|
# TODO Return filename from nxcreatefile and call nxreopen nxclose etc
|
|
# TODO Make an nxscript namespace for all this.
|
|
|
|
# dictalias is a global hash which records the alias which the value of
|
|
# a sics object (eg motors) is written to. The has is indexed by the
|
|
# objects name. It is useful for making links to datasets.
|
|
# dim0 = vertical axis on detector
|
|
# dim1 = horizontal axis on detector
|
|
|
|
set tmpstr [string map {"$" ""} {$Name: not supported by cvs2svn $}]
|
|
set nx_content_release_tag [lindex $tmpstr [expr [llength $tmpstr] - 1]]
|
|
set tmpstr [string map {"$" ""} {$Revision: 1.29 $}]
|
|
set nx_content_revision_num [lindex $tmpstr [expr [llength $tmpstr] - 1]]
|
|
|
|
namespace eval data {
|
|
##
|
|
# @brief Nexus data save command for gumtree control interface
|
|
#
|
|
# @param run_number This is the run or scan point number, it serves as the array
|
|
# index for nexus data sets which correspond to mutable data
|
|
command gumtree_save {int: run_number} {
|
|
::nexus::save $run_number
|
|
}
|
|
sicslist setatt ::data::gumtree_save long_name save
|
|
array set param [::data::gumtree_save -list param]
|
|
::utility::mkData $param(run_number) run_number instrument privilege READ_ONLY mutable true control false
|
|
command gumtree_type {text:nx.hdf,xml type} {
|
|
SicsDataPostFix $type
|
|
}
|
|
sicslist set ::data::gumtree_type long_name file_format
|
|
::data::gumtree_type -set type [SplitReply [SicsDataPostFix]]
|
|
}
|
|
|
|
::nexus::init
|