/usr/share/xcrysden/Tcl/cxxAdvGeom.tcl is in xcrysden-data 1.5.53-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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# Author: #
# ------ #
# Anton Kokalj Email: Tone.Kokalj@ijs.si #
# Department of Physical and Organic Chemistry Phone: x 386 1 477 3523 #
# Jozef Stefan Institute Fax: x 386 1 477 3811 #
# Jamova 39, SI-1000 Ljubljana #
# SLOVENIA #
# #
# Source: $XCRYSDEN_TOPDIR/Tcl/cxxAdvGeom.tcl
# ------ #
# Copyright (c) 1996-2003 by Anton Kokalj #
#############################################################################
proc cxxAdvGeom.manualOption {{retry 0}} {
global system AdvGeom
set file $system(SCRDIR)/CRYSTAL.option
set helpText {#
# Please add an "advanced geometrical" option manually. Refer
# to CRYSTAL Manual if you want to get a help on
# "advanced geometrical option"
#
# Start at the begining of next line:
}
if { $retry == 0 } {
WriteFile $file $helpText w
} else {
set old [ReadFile -nonewline $file]
set text [format "%s%s\n" $helpText $old]
WriteFile $file $text w
}
update
xcEditFile $file -foreground
#
# drop the comments from file
#
set content {}
foreach line [split [ReadFile -nonewline $file] \n] {
if { [string match *\#* $line] == 0 } {
if { $line != {} } {
append option [format "%s\n" $line]
}
}
}
xcDebug -stderr "manualOption:"
xcDebug -stderr "-------------"
xcDebug -stderr $option
#
# register the option
#
set n [xcAdvGeomState new]
set AdvGeom($n,option) $option
#
# check if option is OK
#
set cxxInput [MakeInput]
set inp xc_inp.$system(PID)
set out xc_out.$system(PID)
WriteFile $inp $cxxInput w
set status [cxxAdvGeom.testINPUT $inp $out]
if { $status == "noretry" } {
xcAdvGeomState delete
return 0
} elseif { $status == "retry" } {
xcAdvGeomState delete
set status [cxxAdvGeom.manualOption retry]
return $status
} else {
#
# option is OK -> update the display
#
GenCommUndoRedo "Add an Option Manually"
CalStru
xcUpdateState
return 1
}
}
proc cxxAdvGeom.viewScript {} {
xcDisplayVarText [MakeInput] {CRYSTAL Input Script}
}
proc cxxAdvGeom.manualEdit {{retry 0}} {
global system cxx AdvGeom
if { $retry == 0 } {
set input [MakeInput]
} else {
set input $cxx(tmpInputContent)
}
#
# edit a file
#
cd $system(SCRDIR)
set inp xc_inp.$system(PID)
set out xc_out.$system(PID)
WriteFile $inp $input w
update
xcEditFile $inp -foreground
# handle correctly the EXTPRT/COORPRT/STOP keywords
set cxx(tmpInputContent) [cxxHandleEXTPRT [ReadFile -nonewline $inp]]
WriteFile $inp $cxx(tmpInputContent) w
#
# test a new file
#
set status [cxxAdvGeom.testINPUT $inp $out]
if { $status == "noretry" } {
return 0
} elseif { $status == "retry" } {
set status [cxxAdvGeom.manualEdit retry]
return $status
} else {
#
# option is OK -> proceed
#
# register the option
set n [xcAdvGeomState new]
set AdvGeom($n,edit) $cxx(tmpInputContent)
GenCommUndoRedo "Edit Manually"
CalStru
xcUpdateState
return 1
}
}
proc cxxAdvGeom.testINPUT {inp out} {
global system
set catchCode [catch {exec $system(c95_integrals) < $inp > $out} errMsg]
if { $errMsg == {} } {
set errMsg "CRYSTAL module: $system(c95_integrals) exited with and
exit status 0, but the \"ERROR ****\" string
exists in the output"
}
if { $errMsg == "FORTRAN STOP" && $catchCode } {
# printing the "FORTRAN STOP" to stderr caused the error.
set catchCode 0
}
set content [ReadFile $out]
if { [string match "*ERROR \*\*\*\**" $content] || $catchCode > 0 } {
# option is BAD - and error occured!!!
set id [tk_dialog [WidgetName] ERROR \
"An ERROR occur while executing CRYSTAL module: $system(c95_integrals)" error 0 OK ErrorInfo {View Crystal Ouput}]
if { $id == 1 } {
set t [xcDisplayVarText $errMsg {Error Info}]
tkwait window $t
} elseif { $id == 2 } {
set cxxOutput [ReadFile $out]
set t [xcDisplayVarText $cxxOutput {Crystal Ouput}]
tkwait window $t
}
# ask user "Do you want top retry?
set id [tk_dialog [WidgetName] QUESTION \
"Do You want to retry ?" question 1 No Yes]
if { $id == 1 } {
return retry
} else {
return noretry
}
} else {
return 1
}
}
proc cxxHandleEXTPRT {geoInput} {
# maybe EXTPRT/COORPRT/STOP are already specified, but there may
# be some additional geometry manipulation after EXTPRT keyword,
# so the only safe thing is to throw that out and specifying it
# again
xcDebug -debug "bug-fixing: geoInput: $geoInput"
set swap $geoInput
regsub -all EXTPRT|COORPRT|STOP $swap {} geoInput
append geoInput "\nEXTPRT\nCOORPRT\nSTOP\n"
# skip empty lines
set geoInput [xcSkipEmptyLines $geoInput]
xcDebug -debug "bug-fixing: geoInput_new: $geoInput"
return $geoInput
}
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