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!commandline.f90, routine to process command line options
!(C) Roger Wesson
module mod_commandline
use mod_globals
use mod_functions
contains
subroutine readcommandline(runs,switch_ext,switch_he,switch_icf,meanextinction,diagnostics,verbosity,R,identifylines,identifyconfirm,nbins,norp,calculate_extinction,subtract_recombination,configfile,nperbin)
implicit none
character(len=2048), dimension(:), allocatable :: options
character(len=512) :: configfile
integer :: i,Narg,runs,verbosity,nbins,nperbin,subtract_recombination
character :: switch_ext !switch for extinction laws
character :: switch_he !switch for helium atomic data
character :: switch_icf !switch for which ICF scheme to use
logical :: file_exists,identifylines,identifyconfirm,norp,calculate_extinction
type(diagnostic_array) :: diagnostics
real(kind=dp) :: meanextinction, R
#ifdef CO
print *,"subroutine: readcommandline"
#endif
Narg = IARGC() !count input arguments
if (Narg .eq. 0) then
print *,"Syntax: neat [option1 value1] [option2 value2] .. [optionx valuex]"
print *,"type man neat for help"
call exit(0)
endif
call get_command(commandline)
print *,gettime(),"command line: ",trim(commandline)
allocate (options(Narg))
do i=1,Narg
call getarg(i,options(i))
enddo
do i=1,Narg
if ((trim(options(i))=="-n" .or. trim(options(i))=="--n-iterations") .and. (i+1) .le. Narg) then
if (runs .ne. 20000) then
read (options(i+1),*) runs
endif
endif
if ((trim(options(i))=="-i" .or. trim(options(i))=="--input") .and. (i+1) .le. Narg) then
filename=trim(options(i+1))
endif
if ((trim(options(i))=="-e" .or. trim(options(i))=="--extinction-law") .and. (i+1) .le. Narg) then
if (trim(options(i+1)) == "LMC")then
switch_ext = "H"
elseif (trim(options(i+1)) == "CCM")then
switch_ext = "C"
elseif (trim(options(i+1)) == "SMC")then
switch_ext = "P"
elseif (trim(options(i+1)) == "Fitz")then
switch_ext = "F"
endif
endif
if (trim(options(i))=="-c" .and. (i+1) .le. Narg) then
read (options(i+1),*) meanextinction
calculate_extinction = .false.
endif
if (trim(options(i))=="-nelow" .and. (i+1) .le. Narg) then
read (options(i+1),*) diagnostics%lowdens
endif
if (trim(options(i))=="-nemed" .and. (i+1) .le. Narg) then
read (options(i+1),*) diagnostics%meddens
endif
if (trim(options(i))=="-nehigh" .and. (i+1) .le. Narg) then
read (options(i+1),*) diagnostics%highdens
endif
if (trim(options(i))=="-telow" .and. (i+1) .le. Narg) then
read (options(i+1),*) diagnostics%lowtemp
endif
if (trim(options(i))=="-temed" .and. (i+1) .le. Narg) then
read (options(i+1),*) diagnostics%medtemp
endif
if (trim(options(i))=="-tehigh" .and. (i+1) .le. Narg) then
read (options(i+1),*) diagnostics%hightemp
endif
if ((trim(options(i))=="-he" .or. trim(options(i))=="--helium-data") .and. (i+1) .le. Narg) then
if (trim(options(i+1))=="S96") then
switch_he="S"
endif
endif
if (trim(options(i))=="-u" .or. trim(options(i))=="--uncertainties") then
runs=10000
endif
if ((trim(options(i))=="-icf" .or. trim(options(i))=="--ionisation-correction-scheme") .and. (i+1) .le. Narg) then
if (trim(options(i+1))=="PT92") then
switch_icf="P"
elseif (trim(options(i+1))=="KB94") then
switch_icf="K"
elseif (trim(options(i+1))=="DI14mod") then
switch_icf="E"
endif
endif
if ((trim(options(i))=="-v" .or. trim(options(i))=="--verbosity") .and. (i+1) .le. Narg) then
read (options(i+1),*) verbosity
if (verbosity .lt. 1 .or. verbosity .gt. 3) then
print *,gettime(),"warning: verbosity outside allowed range of 1-3. Set to 3."
verbosity=3
endif
endif
if (trim(options(i))=="-id" .or. trim(options(i))=="--identify") then
identifylines=.true.
endif
if (trim(options(i))=="-idc" .or. trim(options(i))=="--identify-confirm") then
identifylines=.true.
identifyconfirm=.true.
endif
if ((trim(options(i))=="-R") .and. (i+1) .le. Narg) then
read (options(i+1),*) R
endif
if ((trim(options(i))=="-nbins") .and. (i+1).le. Narg) then
read (options(i+1),*) nbins
endif
if (trim(options(i))=="-rp") then
norp=.false.
endif
if ((trim(options(i))=="-cf" .or. trim(options(i))=="--configuration-file") .and. (i+1) .le. Narg) then
configfile=trim(options(i+1))
endif
if ((trim(options(i))=="-sr" .or. trim(options(i))=="--subtract-recombination")) then
subtract_recombination = 2
endif
if (trim(options(i))=="--citation") then
print *
print *,"NEAT was described in Wesson, Stock and Scicluna, MNRAS, 2012, 422, 3516"
print *,"https://ui.adsabs.harvard.edu/abs/2012MNRAS.422.3516W/"
print *,"The bibtex data for this paper is:"
print *
print *,"@ARTICLE{2012MNRAS.422.3516W,"
print *," author = {{Wesson}, R. and {Stock}, D.~J. and {Scicluna}, P.},"
print *,' title = "{Understanding and reducing statistical uncertainties in nebular abundance determinations}",'
print *," journal = {\mnras},"
print *," keywords = {atomic processes, methods: statistical, ISM: abundances, Astrophysics - Astrophysics of Galaxies, Astrophysics - Instrumentation and Methods for Astrophysics},"
print *," year = 2012,"
print *," month = jun,"
print *," volume = {422},"
print *," number = {4},"
print *," pages = {3516-3526},"
print *," doi = {10.1111/j.1365-2966.2012.20863.x},"
print *,"archivePrefix = {arXiv},"
print *," eprint = {1203.0567},"
print *," primaryClass = {astro-ph.GA},"
print *," adsurl = {https://ui.adsabs.harvard.edu/abs/2012MNRAS.422.3516W},"
print *," adsnote = {Provided by the SAO/NASA Astrophysics Data System}"
print *,"}"
call exit(0)
endif
if ((trim(options(i))=="-o" .or. trim(options(i))=="--output-dir") .and. (i+1) .le. Narg) then
outputdirectory=trim(options(i+1))
endif
if ((trim(options(i))=="-of" .or. trim(options(i))=="--output-format") .and. (i+1) .le. Narg) then
outputformat=trim(options(i+1))
if (outputformat.ne."fits" .and. outputformat.ne."text") then
print *,gettime(),"invalid output format. valid options are 'text' and 'fits'"
call exit(104)
endif
endif
! to be fully implemented:
! -R : R (default 3.1) - only used with CCM at the moment
! -b : batch mode
enddo
if (Narg .eq. 1) then
filename=trim(options(1))
endif
if (filename=="") then
print *,gettime(),"error: No input file specified"
call exit(100)
endif
inquire(file=filename, exist=file_exists) ! see if the input file is present
if (.not. file_exists) then
print *,gettime(),"error: input file ",trim(filename)," does not exist"
call exit(101)
endif
if (configfile .ne. "") then
inquire(file=configfile, exist=file_exists) ! see if the configuration file is present
endif
if (.not. file_exists) then
print *,gettime(),"error: configuration file ",trim(configfile)," does not exist"
call exit(102)
endif
!check number of runs
if (runs .gt. 1 .and. runs .lt. 5000) print *,gettime(),"warning: number of iterations is low. At least 5000 is recommended for good sampling of probability distributions"
if (runs .gt. 1) nperbin=runs/nbins
if (mod(runs,nbins) .gt. 0 .and. runs .gt. 1) then
print*,gettime(),': error: number of iterations does not divide exactly by number of bins'
print*,' Please set number of iterations to an exact multiple of ',nbins
print*,' or modify the number of bins using -nbins'
call exit(103)
endif
deallocate(options)
end subroutine readcommandline
end module mod_commandline
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