def main():
"""
NAME
upload_magic.py
DESCRIPTION
This program will prepare your PMAG text files created by the programs nfo_magic.py,
zeq_magic.py, thellier_magic.py, mag_magic, specimens_results_magic.py and so on.
it will check for all the MagIC text files and skip the missing ones
SYNTAX
upload_magic.py
INPUT
MagIC txt files
OPTIONS
-h prints help message and quits
-all include all the measurement data, default is only those used in interpretations
OUTPUT
upload.txt: Unix formatted file (on Macs, Dos on PCs)
upload_dos.txt: Dos formated file ready for importing to MagIC Console (v2.2) for checking.
"""
# set up filenames to upload
concat,All=0,0
dir_path='.'
if '-h' in sys.argv:
print main.__doc__
sys.exit()
if '-cat' in sys.argv: concat=1
if '-all' in sys.argv: All=1
if '-WD' in sys.argv:
ind=sys.argv.index('-WD')
dir_path=sys.argv[ind+1]
file_names=[]
file_names.append(dir_path+'/'+"er_expeditions.txt")
file_names.append(dir_path+'/'+"er_locations.txt")
file_names.append(dir_path+'/'+"er_samples.txt")
file_names.append(dir_path+'/'+"er_specimens.txt")
file_names.append(dir_path+'/'+"er_sites.txt")
file_names.append(dir_path+'/'+"er_ages.txt")
file_names.append(dir_path+'/'+"er_citations.txt")
file_names.append(dir_path+'/'+"er_mailinglist.txt")
file_names.append(dir_path+'/'+"magic_measurements.txt")
file_names.append(dir_path+'/'+"rmag_hysteresis.txt")
file_names.append(dir_path+'/'+"rmag_anisotropy.txt")
file_names.append(dir_path+'/'+"rmag_remanence.txt")
file_names.append(dir_path+'/'+"rmag_results.txt")
file_names.append(dir_path+'/'+"pmag_specimens.txt")
file_names.append(dir_path+'/'+"pmag_samples.txt")
file_names.append(dir_path+'/'+"pmag_sites.txt")
file_names.append(dir_path+'/'+"pmag_results.txt")
file_names.append(dir_path+'/'+"pmag_criteria.txt")
file_names.append(dir_path+'/'+"magic_instruments.txt")
# begin the upload process
up=dir_path+"/upload.txt"
RmKeys=['citation_label','compilation','calculation_type','average_n_lines','average_n_planes','specimen_grade','site_vgp_lat','site_vgp_lon','direction_type','specimen_Z','magic_instrument_codes','cooling_rate_corr','cooling_rate_mcd','anisotropy_atrm_alt','anisotropy_apar_perc','anisotropy_F','anisotropy_F_crit','specimen_scat','specimen_gmax','specimen_frac']
print "Removing: ",RmKeys
last=file_names[-1]
methods,first_file=[],1
for file in file_names:
# read in the data
Data,file_type=pmag.magic_read(file)
if file_type!="bad_file":
print "file ",file," successfully read in"
if len(RmKeys)>0:
for rec in Data:
for key in RmKeys:
if key=='specimen_Z' and key in rec.keys():
rec[key]='specimen_z' # change # change this to lower case
if key in rec.keys():del rec[key] # get rid of unwanted keys
if file_type=='er_samples': # check to only upload top priority orientation record!
NewSamps,Done=[],[]
for rec in Data:
if rec['er_sample_name'] not in Done:
orient,az_type=pmag.get_orient(Data,rec['er_sample_name'])
NewSamps.append(orient)
Done.append(rec['er_sample_name'])
Data=NewSamps
print 'only highest priority orientation record from er_samples.txt read in '
if file_type=='er_specimens': # only specimens that have sample names
NewData,SpecDone=[],[]
for rec in Data:
if rec['er_sample_name'] in Done:
NewData.append(rec)
SpecDone.append(rec['er_specimen_name'])
else:
print 'no sample record found for: '
print rec
Data=NewData
print 'only measurements that have specimen/sample info'
if file_type=='magic_measurments': # only measurments that have specimen names
NewData=[]
for rec in Data:
if rec['er_sample_name'] in SpecDone:
NewData.append(rec)
else:
print 'no specimen record found for: '
print rec
Data=NewData
# write out the data
if len(Data)>0:
if first_file==1:
keystring=pmag.first_rec(up,Data[0],file_type)
first_file=0
else:
keystring=pmag.first_up(up,Data[0],file_type)
for rec in Data:
# collect the method codes
if "magic_method_codes" in rec.keys():
meths=rec["magic_method_codes"].split(':')
for meth in meths:
if meth.strip() not in methods:
if meth.strip()!="LP-DIR-":
methods.append(meth.strip())
pmag.putout(up,keystring,rec)
# write out the file separator
f=open(up,'a')
f.write('>>>>>>>>>>\n')
f.close()
print file_type, 'written to ',up
else:
print file, 'is bad or non-existent - skipping '
# write out the methods table
first_rec,MethRec=1,{}
for meth in methods:
MethRec["magic_method_code"]=meth
if first_rec==1:meth_keys=pmag.first_up(up,MethRec,"magic_methods")
first_rec=0
pmag.putout(up,meth_keys,MethRec)
if concat==1:
f=open(up,'a')
f.write('>>>>>>>>>>\n')
f.close()
print "now converting to dos file 'upload_dos.txt'"
f=open(up,'rU')
o=open(dir_path+'/'+"upload_dos.txt",'w')
for line in f.readlines():
line=line[:-1]+'\r\n'
o.write(line)
print "Finished preparing upload file "
def main():
"""
NAME
zeq_magic_redo.py
DESCRIPTION
Calculate principal components through demagnetization data using bounds and calculation type stored in "redo" file
SYNTAX
zeq_magic_redo.py [command line options]
OPTIONS
-h prints help message
-usr USER: identify user, default is ""
-f: specify input file, default is magic_measurements.txt
-F: specify output file, default is zeq_specimens.txt
-fre REDO: specify redo file, default is "zeq_redo"
-fsa SAMPFILE: specify er_samples format file, default is "er_samples.txt"
-A : don't average replicate measurements, default is yes
-crd [s,g,t] :
specify coordinate system [s,g,t] [default is specimen coordinates]
are specimen, geographic, and tilt corrected respectively
NB: you must have a SAMPFILE in this directory to rotate from specimen coordinates
-leg: attaches "Recalculated from original measurements; supercedes published results. " to comment field
INPUTS
zeq_redo format file is:
specimen_name calculation_type[DE-BFL,DE-BFL-A,DE-BFL-O,DE-BFP,DE-FM] step_min step_max component_name[A,B,C]
"""
dir_path='.'
INCL=["LT-NO","LT-AF-Z","LT-T-Z","LT-M-Z"] # looking for demag data
beg,end,pole,geo,tilt,askave,save=0,0,[],0,0,0,0
user,doave,comment= "",1,""
geo,tilt=0,0
version_num=pmag.get_version()
args=sys.argv
if '-WD' in args:
ind=args.index('-WD')
dir_path=args[ind+1]
meas_file,pmag_file,mk_file= dir_path+"/"+"magic_measurements.txt",dir_path+"/"+"zeq_specimens.txt",dir_path+"/"+"zeq_redo"
samp_file,coord=dir_path+"/"+"er_samples.txt",""
if "-h" in args:
print main.__doc__
sys.exit()
if "-usr" in args:
ind=args.index("-usr")
user=sys.argv[ind+1]
if "-A" in args:doave=0
if "-leg" in args: comment="Recalculated from original measurements; supercedes published results. "
if "-f" in args:
ind=args.index("-f")
meas_file=dir_path+'/'+sys.argv[ind+1]
if "-F" in args:
ind=args.index("-F")
pmag_file=dir_path+'/'+sys.argv[ind+1]
if "-fre" in args:
ind=args.index("-fre")
mk_file=dir_path+"/"+args[ind+1]
try:
mk_f=open(mk_file,'rU')
except:
print "Bad redo file"
sys.exit()
mkspec,skipped=[],[]
speclist=[]
for line in mk_f.readlines():
tmp=line.split()
mkspec.append(tmp)
speclist.append(tmp[0])
if "-fsa" in args:
ind=args.index("-fsa")
samp_file=dir_path+'/'+sys.argv[ind+1]
if "-crd" in args:
ind=args.index("-crd")
coord=sys.argv[ind+1]
if coord=="g":geo,tilt=1,0
if coord=="t":geo,tilt=1,1
#
# now get down to bidness
if geo==1:
samp_data,file_type=pmag.magic_read(samp_file)
if file_type != 'er_samples':
print file_type
print "This is not a valid er_samples file "
sys.exit()
#
#
#
meas_data,file_type=pmag.magic_read(meas_file)
if file_type != 'magic_measurements':
print file_type
print file_type,"This is not a valid magic_measurements file "
sys.exit()
#
# sort the specimen names
#
k = 0
print 'Processing ',len(speclist), ' specimens - please wait'
PmagSpecs=[]
while k < len(speclist):
s=speclist[k]
recnum=0
PmagSpecRec={}
method_codes,inst_codes=[],[]
# find the data from the meas_data file for this sample
#
# collect info for the PmagSpecRec dictionary
#
meas_meth=[]
spec=pmag.get_dictitem(meas_data,'er_specimen_name',s,'T')
if len(spec)==0:
print 'no data found for specimen: ',s
print 'delete from zeq_redo input file...., then try again'
else:
for rec in spec: # copy of vital stats to PmagSpecRec from first spec record in demag block
skip=1
methods=rec["magic_method_codes"].split(":")
if len(set(methods) & set(INCL))>0:
PmagSpecRec["er_analyst_mail_names"]=user
PmagSpecRec["magic_software_packages"]=version_num
PmagSpecRec["er_specimen_name"]=s
PmagSpecRec["er_sample_name"]=rec["er_sample_name"]
PmagSpecRec["er_site_name"]=rec["er_site_name"]
PmagSpecRec["er_location_name"]=rec["er_location_name"]
if "er_expedition_name" in rec.keys():PmagSpecRec["er_expedition_name"]=rec["er_expedition_name"]
PmagSpecRec["er_citation_names"]="This study"
if "magic_experiment_name" not in rec.keys(): rec["magic_experiment_name"]=""
PmagSpecRec["magic_experiment_names"]=rec["magic_experiment_name"]
if "magic_instrument_codes" not in rec.keys(): rec["magic_instrument_codes"]=""
inst=rec['magic_instrument_codes'].split(":")
for I in inst:
if I not in inst_codes: # copy over instruments
inst_codes.append(I)
meths=rec["magic_method_codes"].split(":")
for meth in meths:
if meth.strip() not in meas_meth:meas_meth.append(meth)
if "LP-DIR-AF" in meas_meth or "LT-AF-Z" in meas_meth:
PmagSpecRec["measurement_step_unit"]="T"
if "LP-DIR-AF" not in method_codes:method_codes.append("LP-DIR-AF")
if "LP-DIR-T" in meas_meth or "LT-T-Z" in meas_meth:
PmagSpecRec["measurement_step_unit"]="K"
if "LP-DIR-T" not in method_codes:method_codes.append("LP-DIR-T")
if "LP-DIR-M" in meas_meth or "LT-M-Z" in meas_meth:
PmagSpecRec["measurement_step_unit"]="J"
if "LP-DIR-M" not in method_codes:method_codes.append("LP-DIR-M")
#
#
datablock,units=pmag.find_dmag_rec(s,spec) # fish out the demag data for this specimen
#
if len(datablock) <2 or s not in speclist :
k+=1
# print 'skipping ', s,len(datablock)
else:
#
# find replicate measurements at given treatment step and average them
#
# step_meth,avedata=pmag.vspec(data)
#
# if len(avedata) != len(datablock):
# if doave==1:
# method_codes.append("DE-VM")
# datablock=avedata
#
# do geo or stratigraphic correction now
#
if geo==1 or tilt==1:
# find top priority orientation method
orient,az_type=pmag.get_orient(samp_data,PmagSpecRec["er_sample_name"])
if az_type not in method_codes:method_codes.append(az_type)
#
# if tilt selected, get stratigraphic correction
#
tiltblock,geoblock=[],[]
for rec in datablock:
if "sample_azimuth" in orient.keys() and orient["sample_azimuth"]!="":
d_geo,i_geo=pmag.dogeo(rec[1],rec[2],float(orient["sample_azimuth"]),float(orient["sample_dip"]))
geoblock.append([rec[0],d_geo,i_geo,rec[3],rec[4],rec[5]])
if tilt==1 and "sample_bed_dip_direction" in orient.keys():
d_tilt,i_tilt=pmag.dotilt(d_geo,i_geo,float(orient["sample_bed_dip_direction"]),float(orient["sample_bed_dip"]))
tiltblock.append([rec[0],d_tilt,i_tilt,rec[3],rec[4],rec[5]])
elif tilt==1:
if PmagSpecRec["er_sample_name"] not in skipped:
print 'no tilt correction for ', PmagSpecRec["er_sample_name"],' skipping....'
skipped.append(PmagSpecRec["er_sample_name"])
else:
if PmagSpecRec["er_sample_name"] not in skipped:
print 'no geographic correction for ', PmagSpecRec["er_sample_name"],' skipping....'
skipped.append(PmagSpecRec["er_sample_name"])
#
# get beg_pca, end_pca, pca
if PmagSpecRec['er_sample_name'] not in skipped:
compnum=-1
for spec in mkspec:
if spec[0]==s:
CompRec={}
for key in PmagSpecRec.keys():CompRec[key]=PmagSpecRec[key]
compnum+=1
calculation_type=spec[1]
beg=float(spec[2])
end=float(spec[3])
if len(spec)>4:
comp_name=spec[4]
else:
comp_name=string.uppercase[compnum]
CompRec['specimen_comp_name']=comp_name
if beg < float(datablock[0][0]):beg=float(datablock[0][0])
if end > float(datablock[-1][0]):end=float(datablock[-1][0])
for l in range(len(datablock)):
if datablock[l][0]==beg:beg_pca=l
if datablock[l][0]==end:end_pca=l
if geo==1 and tilt==0:
mpars=pmag.domean(geoblock,beg_pca,end_pca,calculation_type)
if mpars["specimen_direction_type"]!="Error":
CompRec["specimen_dec"]='%7.1f ' %(mpars["specimen_dec"])
CompRec["specimen_inc"]='%7.1f ' %(mpars["specimen_inc"])
CompRec["specimen_tilt_correction"]='0'
if geo==1 and tilt==1:
mpars=pmag.domean(tiltblock,beg_pca,end_pca,calculation_type)
if mpars["specimen_direction_type"]!="Error":
CompRec["specimen_dec"]='%7.1f ' %(mpars["specimen_dec"])
CompRec["specimen_inc"]='%7.1f ' %(mpars["specimen_inc"])
CompRec["specimen_tilt_correction"]='100'
if geo==0 and tilt==0:
mpars=pmag.domean(datablock,beg_pca,end_pca,calculation_type)
if mpars["specimen_direction_type"]!="Error":
CompRec["specimen_dec"]='%7.1f ' %(mpars["specimen_dec"])
CompRec["specimen_inc"]='%7.1f ' %(mpars["specimen_inc"])
CompRec["specimen_tilt_correction"]='-1'
if mpars["specimen_direction_type"]=="Error":
pass
else:
CompRec["measurement_step_min"]='%8.3e '%(datablock[beg_pca][0])
try:
CompRec["measurement_step_max"]='%8.3e '%(datablock[end_pca][0] )
except:
print 'error in end_pca ',PmagSpecRec['er_specimen_name']
CompRec["specimen_correction"]='u'
if calculation_type!='DE-FM':
CompRec["specimen_mad"]='%7.1f '%(mpars["specimen_mad"])
CompRec["specimen_alpha95"]=""
else:
CompRec["specimen_mad"]=""
CompRec["specimen_alpha95"]='%7.1f '%(mpars["specimen_alpha95"])
CompRec["specimen_n"]='%i '%(mpars["specimen_n"])
CompRec["specimen_dang"]='%7.1f '%(mpars["specimen_dang"])
CompMeths=[]
for meth in method_codes:
if meth not in CompMeths:CompMeths.append(meth)
if calculation_type not in CompMeths:CompMeths.append(calculation_type)
if geo==1: CompMeths.append("DA-DIR-GEO")
if tilt==1: CompMeths.append("DA-DIR-TILT")
if "DE-BFP" not in calculation_type:
CompRec["specimen_direction_type"]='l'
else:
CompRec["specimen_direction_type"]='p'
CompRec["magic_method_codes"]=""
if len(CompMeths) != 0:
methstring=""
for meth in CompMeths:
methstring=methstring+ ":" +meth
CompRec["magic_method_codes"]=methstring.strip(':')
CompRec["specimen_description"]=comment
if len(inst_codes) != 0:
inststring=""
for inst in inst_codes:
inststring=inststring+ ":" +inst
CompRec["magic_instrument_codes"]=inststring.strip(':')
PmagSpecs.append(CompRec)
k+=1
pmag.magic_write(pmag_file,PmagSpecs,'pmag_specimens')
print "Recalculated specimen data stored in ",pmag_file
def main():
"""
NAME
zeq_magic.py
DESCRIPTION
reads in magic_measurements formatted file, makes plots of remanence decay
during demagnetization experiments. Reads in prior interpretations saved in
a pmag_specimens formatted file and allows re-interpretations of best-fit lines
and planes and saves (revised or new) interpretations in a pmag_specimens file.
interpretations are saved in the coordinate system used. Also allows judicious editting of
measurements to eliminate "bad" measurements. These are marked as such in the magic_measurements
input file. they are NOT deleted, just ignored.
SYNTAX
zeq_magic.py [command line options]
OPTIONS
-h prints help message and quits
-f MEASFILE: sets magic_measurements format input file, default: magic_measurements.txt
-fsp SPECFILE: sets pmag_specimens format file with prior interpreations, default: zeq_specimens.txt
-Fp PLTFILE: sets filename for saved plot, default is name_type.fmt (where type is zijd, eqarea or decay curve)
-crd [s,g,t]: sets coordinate system, g=geographic, t=tilt adjusted, default: specimen coordinate system
-fsa SAMPFILE: sets er_samples format file with orientation information, default: er_samples.txt
-spc SPEC plots single specimen SPEC, saves plot with specified format
with optional -dir settings and quits
-dir [L,P,F][beg][end]: sets calculation type for principal component analysis, default is none
beg: starting step for PCA calculation
end: ending step for PCA calculation
[L,P,F]: calculation type for line, plane or fisher mean
must be used with -spc option
-fmt FMT: set format of saved plot [png,svg,jpg]
-A: suppresses averaging of replicate measurements, default is to average
-sav: saves all plots without review
SCREEN OUTPUT:
Specimen, N, a95, StepMin, StepMax, Dec, Inc, calculation type
"""
# initialize some variables
doave,e,b=1,0,0 # average replicates, initial end and beginning step
plots,coord=0,'s'
noorient=0
version_num=pmag.get_version()
verbose=pmagplotlib.verbose
beg_pca,end_pca,direction_type="","",'l'
calculation_type,fmt="","svg"
user,spec_keys,locname="",[],''
plot_file=""
sfile=""
plot_file=""
PriorRecs=[] # empty list for prior interpretations
backup=0
specimen="" # can skip everything and just plot one specimen with bounds e,b
if '-h' in sys.argv:
print main.__doc__
sys.exit()
if '-WD' in sys.argv:
ind=sys.argv.index('-WD')
dir_path=sys.argv[ind+1]
else:
dir_path='.'
inspec=dir_path+'/'+'zeq_specimens.txt'
meas_file,geo,tilt,ask,samp_file=dir_path+'/magic_measurements.txt',0,0,0,dir_path+'/er_samples.txt'
if '-f' in sys.argv:
ind=sys.argv.index('-f')
meas_file=dir_path+'/'+sys.argv[ind+1]
if '-fsp' in sys.argv:
ind=sys.argv.index('-fsp')
inspec=dir_path+'/'+sys.argv[ind+1]
if '-fsa' in sys.argv:
ind=sys.argv.index('-fsa')
samp_file=dir_path+'/'+sys.argv[ind+1]
sfile='ok'
if '-crd' in sys.argv:
ind=sys.argv.index('-crd')
coord=sys.argv[ind+1]
if coord=='g' or coord=='t':
samp_data,file_type=pmag.magic_read(samp_file)
if file_type=='er_samples':sfile='ok'
geo=1
if coord=='t':tilt=1
if '-spc' in sys.argv:
ind=sys.argv.index('-spc')
specimen=sys.argv[ind+1]
if '-dir' in sys.argv:
ind=sys.argv.index('-dir')
direction_type=sys.argv[ind+1]
beg_pca=int(sys.argv[ind+2])
end_pca=int(sys.argv[ind+3])
if direction_type=='L':calculation_type='DE-BFL'
if direction_type=='P':calculation_type='DE-BFP'
if direction_type=='F':calculation_type='DE-FM'
if '-Fp' in sys.argv:
ind=sys.argv.index('-Fp')
plot_file=dir_path+'/'+sys.argv[ind+1]
if '-A' in sys.argv: doave=0
if '-sav' in sys.argv:
plots=1
verbose=0
if '-fmt' in sys.argv:
ind=sys.argv.index('-fmt')
fmt=sys.argv[ind+1]
#
first_save=1
meas_data,file_type=pmag.magic_read(meas_file)
changeM,changeS=0,0 # check if data or interpretations have changed
if file_type != 'magic_measurements':
print file_type
print file_type,"This is not a valid magic_measurements file "
sys.exit()
for rec in meas_data:
if "magic_method_codes" not in rec.keys(): rec["magic_method_codes"]=""
methods=""
tmp=rec["magic_method_codes"].replace(" ","").split(":")
for meth in tmp:
methods=methods+meth+":"
rec["magic_method_codes"]=methods[:-1] # get rid of annoying spaces in Anthony's export files
if "magic_instrument_codes" not in rec.keys() :rec["magic_instrument_codes"]=""
PriorSpecs=[]
PriorRecs,file_type=pmag.magic_read(inspec)
if len(PriorRecs)==0:
if verbose:print "starting new file ",inspec
for Rec in PriorRecs:
if 'magic_software_packages' not in Rec.keys():Rec['magic_software_packages']=""
if Rec['er_specimen_name'] not in PriorSpecs:
if 'specimen_comp_name' not in Rec.keys():Rec['specimen_comp_name']="A"
PriorSpecs.append(Rec['er_specimen_name'])
else:
if 'specimen_comp_name' not in Rec.keys():Rec['specimen_comp_name']="A"
if "magic_method_codes" in Rec.keys():
methods=[]
tmp=Rec["magic_method_codes"].replace(" ","").split(":")
for meth in tmp:
methods.append(meth)
if 'DE-FM' in methods:
Rec['calculation_type']='DE-FM' # this won't be imported but helps
if 'DE-BFL' in methods:
Rec['calculation_type']='DE-BFL'
if 'DE-BFL-A' in methods:
Rec['calculation_type']='DE-BFL-A'
if 'DE-BFL-O' in methods:
Rec['calculation_type']='DE-BFL-O'
if 'DE-BFP' in methods:
Rec['calculation_type']='DE-BFP'
else:
Rec['calculation_type']='DE-BFL' # default is to assume a best-fit line
#
# get list of unique specimen names
#
sids=pmag.get_specs(meas_data)
#
# set up plots, angle sets X axis to horizontal, direction_type 'l' is best-fit line
# direction_type='p' is great circle
#
#
# draw plots for sample s - default is just to step through zijderveld diagrams
#
#
# define figure numbers for equal area, zijderveld,
# and intensity vs. demagnetiztion step respectively
ZED={}
ZED['eqarea'],ZED['zijd'], ZED['demag']=1,2,3
pmagplotlib.plot_init(ZED['eqarea'],5,5)
pmagplotlib.plot_init(ZED['zijd'],6,5)
pmagplotlib.plot_init(ZED['demag'],5,5)
save_pca=0
if specimen=="":
k = 0
else:
k=sids.index(specimen)
angle,direction_type="",""
setangle=0
CurrRecs=[]
while k < len(sids):
CurrRecs=[]
if setangle==0:angle=""
method_codes,inst_code=[],""
s=sids[k]
PmagSpecRec={}
PmagSpecRec["er_analyst_mail_names"]=user
PmagSpecRec['magic_software_packages']=version_num
PmagSpecRec['specimen_description']=""
PmagSpecRec['magic_method_codes']=""
if verbose and s!="":print s, k , 'out of ',len(sids)
#
# collect info for the PmagSpecRec dictionary
#
s_meas=pmag.get_dictitem(meas_data,'er_specimen_name',s,'T') # fish out this specimen
s_meas=pmag.get_dictitem(s_meas,'magic_method_codes','Z','has') # fish out zero field steps
if len(s_meas)>0:
for rec in s_meas: # fix up a few things for the output record
PmagSpecRec["magic_instrument_codes"]=rec["magic_instrument_codes"] # copy over instruments
PmagSpecRec["er_citation_names"]="This study"
PmagSpecRec["er_specimen_name"]=s
PmagSpecRec["er_sample_name"]=rec["er_sample_name"]
PmagSpecRec["er_site_name"]=rec["er_site_name"]
PmagSpecRec["er_location_name"]=rec["er_location_name"]
locname=rec['er_location_name']
if 'er_expedition_name' in rec.keys(): PmagSpecRec["er_expedition_name"]=rec["er_expedition_name"]
PmagSpecRec["magic_method_codes"]=rec["magic_method_codes"]
if "magic_experiment_name" not in rec.keys():
PmagSpecRec["magic_experiment_names"]=""
else:
PmagSpecRec["magic_experiment_names"]=rec["magic_experiment_name"]
break
#
# find the data from the meas_data file for this specimen
#
data,units=pmag.find_dmag_rec(s,meas_data)
PmagSpecRec["measurement_step_unit"]= units
u=units.split(":")
if "T" in units:PmagSpecRec["magic_method_codes"]=PmagSpecRec["magic_method_codes"]+":LP-DIR-AF"
if "K" in units:PmagSpecRec["magic_method_codes"]=PmagSpecRec["magic_method_codes"]+":LP-DIR-T"
if "J" in units:PmagSpecRec["magic_method_codes"]=PmagSpecRec["magic_method_codes"]+":LP-DIR-M"
#
# find prior interpretation
#
if len(CurrRecs)==0: # check if already in
beg_pca,end_pca="",""
calculation_type=""
if inspec !="":
if verbose: print " looking up previous interpretations..."
precs=pmag.get_dictitem(PriorRecs,'er_specimen_name',s,'T') # get all the prior recs with this specimen name
precs=pmag.get_dictitem(precs,'magic_method_codes','LP-DIR','has') # get the directional data
PriorRecs=pmag.get_dictitem(PriorRecs,'er_specimen_name',s,'F') # take them all out of prior recs
# get the ones that meet the current coordinate system
for prec in precs:
if 'specimen_tilt_correction' not in prec.keys() or prec['specimen_tilt_correction']=='-1':
crd='s'
elif prec['specimen_tilt_correction']=='0':
crd='g'
elif prec['specimen_tilt_correction']=='100':
crd='t'
else:
crd='?'
CurrRec={}
for key in prec.keys():CurrRec[key]=prec[key]
CurrRecs.append(CurrRec) # put in CurrRecs
method_codes= CurrRec["magic_method_codes"].replace(" ","").split(':')
calculation_type='DE-BFL'
if 'DE-FM' in method_codes: calculation_type='DE-FM'
if 'DE-BFP' in method_codes: calculation_type='DE-BFP'
if 'DE-BFL-A' in method_codes: calculation_type='DE-BFL-A'
if 'specimen_dang' not in CurrRec.keys():
if verbose:print 'Run mk_redo.py and zeq_magic_redo.py to get the specimen_dang values'
CurrRec['specimen_dang']=-1
if calculation_type!='DE-FM' and crd==coord: # not a fisher mean
if verbose:print "Specimen N MAD DANG start end dec inc type component coordinates"
if units=='K':
if verbose:print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f %s %s %s \n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_mad"]),float(CurrRec["specimen_dang"]),float(CurrRec["measurement_step_min"])-273,float(CurrRec["measurement_step_max"])-273,float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,CurrRec['specimen_comp_name'],crd)
elif units=='T':
if verbose:print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f %s %s %s \n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_mad"]),float(CurrRec["specimen_dang"]),float(CurrRec["measurement_step_min"])*1e3,float(CurrRec["measurement_step_max"])*1e3,float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,CurrRec['specimen_comp_name'],crd)
elif 'T' in units and 'K' in units:
if float(CurrRec['measurement_step_min'])<1.0 :
min=float(CurrRec['measurement_step_min'])*1e3
else:
min=float(CurrRec['measurement_step_min'])-273
if float(CurrRec['measurement_step_max'])<1.0 :
max=float(CurrRec['measurement_step_max'])*1e3
else:
max=float(CurrRec['measurement_step_max'])-273
if verbose:print '%s %i %7.1f %i %i %7.1f %7.1f %7.1f, %s %s\n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_mad"]),float(CurrRec['specimen_dang']),min,max,float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,crd)
elif 'J' in units:
if verbose:print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f %s %s %s \n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_mad"]),float(CurrRec['specimen_dang']),float(CurrRec["measurement_step_min"]),float(CurrRec["measurement_step_max"]),float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,CurrRec['specimen_comp_name'],crd)
elif calculation_type=='DE-FM' and crd==coord: # fisher mean
if verbose:print "Specimen a95 DANG start end dec inc type component coordinates"
if units=='K':
if verbose:print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %s %s %s \n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_alpha95"]),float(CurrRec["measurement_step_min"])-273,float(CurrRec["measurement_step_max"])-273,float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,CurrRec['specimen_comp_name'],crd)
elif units=='T':
if verbose:print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %s %s %s \n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_alpha95"]),float(CurrRec["measurement_step_min"])*1e3,float(CurrRec["measurement_step_max"])*1e3,float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,CurrRec['specimen_comp_name'],crd)
elif 'T' in units and 'K' in units:
if float(CurrRec['measurement_step_min'])<1.0 :
min=float(CurrRec['measurement_step_min'])*1e3
else:
min=float(CurrRec['measurement_step_min'])-273
if float(CurrRec['measurement_step_max'])<1.0 :
max=float(CurrRec['measurement_step_max'])*1e3
else:
max=float(CurrRec['measurement_step_max'])-273
if verbose:print '%s %i %7.1f %i %i %7.1f %7.1f %s %s \n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_alpha95"]),min,max,float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,crd)
elif 'J' in units:
if verbose:print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %s %s %s \n' % (CurrRec["er_specimen_name"],int(CurrRec["specimen_n"]),float(CurrRec["specimen_mad"]),float(CurrRec["measurement_step_min"]),float(CurrRec["measurement_step_max"]),float(CurrRec["specimen_dec"]),float(CurrRec["specimen_inc"]),calculation_type,CurrRec['specimen_comp_name'],crd)
if len(CurrRecs)==0:beg_pca,end_pca="",""
datablock=data
noskip=1
if len(datablock) <3:
noskip=0
if backup==0:
k+=1
else:
k-=1
if len(CurrRecs)>0:
for rec in CurrRecs:
PriorRecs.append(rec)
CurrRecs=[]
else:
backup=0
if noskip:
#
# find replicate measurements at given treatment step and average them
#
# step_meth,avedata=pmag.vspec(data)
# if len(avedata) != len(datablock):
# if doave==1:
# method_codes.append("DE-VM")
# datablock=avedata
# #
# do geo or stratigraphic correction now
#
if geo==1:
#
# find top priority orientation method
orient,az_type=pmag.get_orient(samp_data,PmagSpecRec["er_sample_name"])
if az_type=='SO-NO':
if verbose: print "no orientation data for ",s
orient["sample_azimuth"]=0
orient["sample_dip"]=0
noorient=1
method_codes.append("SO-NO")
orient["sample_azimuth"]=0
orient["sample_dip"]=0
orient["sample_bed_dip_azimuth"]=0
orient["sample_bed_dip"]=0
noorient=1
method_codes.append("SO-NO")
else:
noorient=0
#
# if stratigraphic selected, get stratigraphic correction
#
tiltblock,geoblock=[],[]
for rec in datablock:
d_geo,i_geo=pmag.dogeo(rec[1],rec[2],float(orient["sample_azimuth"]),float(orient["sample_dip"]))
geoblock.append([rec[0],d_geo,i_geo,rec[3],rec[4],rec[5],rec[6]])
if tilt==1 and "sample_bed_dip" in orient.keys() and float(orient['sample_bed_dip'])!=0:
d_tilt,i_tilt=pmag.dotilt(d_geo,i_geo,float(orient["sample_bed_dip_direction"]),float(orient["sample_bed_dip"]))
tiltblock.append([rec[0],d_tilt,i_tilt,rec[3],rec[4],rec[5],rec[6]])
if tilt==1: plotblock=tiltblock
if geo==1 and tilt==0:plotblock=geoblock
if geo==0 and tilt==0: plotblock=datablock
#
# set the end pca point to last point if not set
if e==0 or e>len(plotblock)-1: e=len(plotblock)-1
if angle=="": angle=plotblock[0][1] # rotate to NRM declination
title=s+'_s'
if geo==1 and tilt==0 and noorient!=1:title=s+'_g'
if tilt==1 and noorient!=1:title=s+'_t'
pmagplotlib.plotZED(ZED,plotblock,angle,title,units)
if verbose:pmagplotlib.drawFIGS(ZED)
if len(CurrRecs)!=0:
for prec in CurrRecs:
if 'calculation_type' not in prec.keys():
calculation_type=''
else:
calculation_type=prec["calculation_type"]
direction_type=prec["specimen_direction_type"]
if calculation_type !="":
beg_pca,end_pca="",""
for j in range(len(datablock)):
if data[j][0]==float(prec["measurement_step_min"]):beg_pca=j
if data[j][0]==float(prec["measurement_step_max"]):end_pca=j
if beg_pca=="" or end_pca=="":
if verbose:
print "something wrong with prior interpretation "
break
if calculation_type!="":
if beg_pca=="":beg_pca=0
if end_pca=="":end_pca=len(plotblock)-1
if geo==1 and tilt==0:
mpars=pmag.domean(geoblock,beg_pca,end_pca,calculation_type)
if mpars["specimen_direction_type"]!="Error":
pmagplotlib.plotDir(ZED,mpars,geoblock,angle)
if verbose:pmagplotlib.drawFIGS(ZED)
if geo==1 and tilt==1:
mpars=pmag.domean(tiltblock,beg_pca,end_pca,calculation_type)
if mpars["specimen_direction_type"]!="Error":
pmagplotlib.plotDir(ZED,mpars,tiltblock,angle)
if verbose:pmagplotlib.drawFIGS(ZED)
if geo==0 and tilt==0:
mpars=pmag.domean(datablock,beg_pca,end_pca,calculation_type)
if mpars["specimen_direction_type"]!="Error":
pmagplotlib.plotDir(ZED,mpars,plotblock,angle)
if verbose:pmagplotlib.drawFIGS(ZED)
#
# print out data for this sample to screen
#
recnum=0
for plotrec in plotblock:
if units=='T' and verbose: print '%s: %i %7.1f %s %8.3e %7.1f %7.1f %s' % (plotrec[5], recnum,plotrec[0]*1e3," mT",plotrec[3],plotrec[1],plotrec[2],plotrec[6])
if units=="K" and verbose: print '%s: %i %7.1f %s %8.3e %7.1f %7.1f %s' % (plotrec[5], recnum,plotrec[0]-273,' C',plotrec[3],plotrec[1],plotrec[2],plotrec[6])
if units=="J" and verbose: print '%s: %i %7.1f %s %8.3e %7.1f %7.1f %s' % (plotrec[5], recnum,plotrec[0],' J',plotrec[3],plotrec[1],plotrec[2],plotrec[6])
if 'K' in units and 'T' in units:
if plotrec[0]>=1. and verbose: print '%s: %i %7.1f %s %8.3e %7.1f %7.1f %s' % (plotrec[5], recnum,plotrec[0]-273,' C',plotrec[3],plotrec[1],plotrec[2],plotrec[6])
if plotrec[0]<1. and verbose: print '%s: %i %7.1f %s %8.3e %7.1f %7.1f %s' % (plotrec[5], recnum,plotrec[0]*1e3," mT",plotrec[3],plotrec[1],plotrec[2],plotrec[6])
recnum += 1
if specimen!="":
if plot_file=="":
basename=locname+'_'+s
else:
basename=plot_file
files={}
for key in ZED.keys():
files[key]=basename+'_'+key+'.'+fmt
pmagplotlib.saveP(ZED,files)
sys.exit()
else: # interactive
if plots==0:
ans='b'
k+=1
changeS=0
while ans != "":
if len(CurrRecs)==0:
print """
g/b: indicates good/bad measurement. "bad" measurements excluded from calculation
set s[a]ve plot, [b]ounds for pca and calculate, [p]revious, [s]pecimen,
change [h]orizontal projection angle, change [c]oordinate systems,
[e]dit data, [q]uit:
"""
else:
print """
g/b: indicates good/bad measurement. "bad" measurements excluded from calculation
set s[a]ve plot, [b]ounds for pca and calculate, [p]revious, [s]pecimen,
change [h]orizontal projection angle, change [c]oordinate systems,
[d]elete current interpretation(s), [e]dit data, [q]uit:
"""
ans=raw_input('<Return> for next specimen \n')
setangle=0
if ans=='d': # delete this interpretation
CurrRecs=[]
k-=1 # replot same specimen
ans=""
changeS=1
if ans=='q':
if changeM==1:
ans=raw_input('Save changes to magic_measurements.txt? y/[n] ')
if ans=='y':
pmag.magic_write(meas_file,meas_data,'magic_measurements')
print "Good bye"
sys.exit()
if ans=='a':
if plot_file=="":
basename=locname+'_'+s+'_'
else:
basename=plot_file
files={}
for key in ZED.keys():
files[key]=basename+'_'+coord+'_'+key+'.'+fmt
pmagplotlib.saveP(ZED,files)
ans=""
if ans=='p':
k-=2
ans=""
backup=1
if ans=='c':
k-=1 # replot same block
if tilt==0 and geo ==1:print "You are currently viewing geographic coordinates "
if tilt==1 and geo ==1:print "You are currently viewing stratigraphic coordinates "
if tilt==0 and geo ==0: print "You are currently viewing sample coordinates "
print "\n Which coordinate system do you wish to view? "
coord=raw_input(" <Return> specimen, [g] geographic, [t] tilt corrected ")
if coord=="g":geo,tilt=1,0
if coord=="t":
geo=1
tilt=1
if coord=="":
coord='s'
geo=0
tilt=0
if geo==1 and sfile=="":
samp_file=raw_input(" Input er_samples file for sample orientations [er_samples.txt] " )
if samp_file=="":samp_file="er_samples.txt"
samp_data,file_type=pmag.magic_read(samp_file)
if file_type != 'er_samples':
print file_type
print "This is not a valid er_samples file - coordinate system not changed"
else:
sfile="ok"
ans=""
if ans=='s':
keepon=1
sample=raw_input('Enter desired specimen name (or first part there of): ')
while keepon==1:
try:
k =sids.index(sample)
keepon=0
except:
tmplist=[]
for qq in range(len(sids)):
if sample in sids[qq]:tmplist.append(sids[qq])
print sample," not found, but this was: "
print tmplist
sample=raw_input('Select one or try again\n ')
angle,direction_type="",""
setangle=0
ans=""
if ans=='h':
k-=1
angle=raw_input("Enter desired declination for X axis 0-360 ")
angle=float(angle)
if angle==0:angle=0.001
s=sids[k]
setangle=1
ans=""
if ans=='e':
k-=1
ans=""
recnum=0
for plotrec in plotblock:
if plotrec[0]<=200 and verbose: print '%s: %i %7.1f %s %8.3e %7.1f %7.1f ' % (plotrec[5], recnum,plotrec[0]*1e3," mT",plotrec[3],plotrec[1],plotrec[2])
if plotrec[0]>200 and verbose: print '%s: %i %7.1f %s %8.3e %7.1f %7.1f ' % (plotrec[5], recnum,plotrec[0]-273,' C',plotrec[3],plotrec[1],plotrec[2])
recnum += 1
answer=raw_input('Enter index of point to change from bad to good or vice versa: ')
try:
ind=int(answer)
meas_data=pmag.mark_dmag_rec(s,ind,meas_data)
changeM=1
except:
'bad entry, try again'
if ans=='b':
if end_pca=="":end_pca=len(plotblock)-1
if beg_pca=="":beg_pca=0
k-=1 # stay on same sample until through
GoOn=0
while GoOn==0:
print 'Enter index of first point for pca: ','[',beg_pca,']'
answer=raw_input('return to keep default ')
if answer != "":
beg_pca=int(answer)
print 'Enter index of last point for pca: ','[',end_pca,']'
answer=raw_input('return to keep default ')
try:
end_pca=int(answer)
if plotblock[beg_pca][5]=='b' or plotblock[end_pca][5]=='b':
print "Can't select 'bad' measurement for PCA bounds -try again"
end_pca=len(plotblock)-1
beg_pca=0
elif beg_pca >=0 and beg_pca<=len(plotblock)-2 and end_pca>0 and end_pca<len(plotblock):
GoOn=1
else:
print beg_pca,end_pca, " are bad entry of indices - try again"
end_pca=len(plotblock)-1
beg_pca=0
except:
print beg_pca,end_pca, " are bad entry of indices - try again"
end_pca=len(plotblock)-1
beg_pca=0
GoOn=0
while GoOn==0:
if calculation_type!="":
print "Prior calculation type = ",calculation_type
ct=raw_input('Enter new Calculation Type: best-fit line, plane or fisher mean [l]/p/f : ' )
if ct=="" or ct=="l":
direction_type="l"
calculation_type="DE-BFL"
GoOn=1
elif ct=='p':
direction_type="p"
calculation_type="DE-BFP"
GoOn=1
elif ct=='f':
direction_type="l"
calculation_type="DE-FM"
GoOn=1
else:
print "bad entry of calculation type: try again. "
pmagplotlib.plotZED(ZED,plotblock,angle,s,units)
if verbose:pmagplotlib.drawFIGS(ZED)
if geo==1 and tilt==0:
mpars=pmag.domean(geoblock,beg_pca,end_pca,calculation_type)
if mpars['specimen_direction_type']=='Error':break
PmagSpecRec["specimen_dec"]='%7.1f ' %(mpars["specimen_dec"])
PmagSpecRec["specimen_inc"]='%7.1f ' %(mpars["specimen_inc"])
if "SO-NO" not in method_codes:
PmagSpecRec["specimen_tilt_correction"]='0'
method_codes.append("DA-DIR-GEO")
else:
PmagSpecRec["specimen_tilt_correction"]='-1'
pmagplotlib.plotDir(ZED,mpars,geoblock,angle)
if verbose:pmagplotlib.drawFIGS(ZED)
if geo==1 and tilt==1:
mpars=pmag.domean(tiltblock,beg_pca,end_pca,calculation_type)
if mpars['specimen_direction_type']=='Error':break
PmagSpecRec["specimen_dec"]='%7.1f ' %(mpars["specimen_dec"])
PmagSpecRec["specimen_inc"]='%7.1f ' %(mpars["specimen_inc"])
if "SO-NO" not in method_codes:
PmagSpecRec["specimen_tilt_correction"]='100'
method_codes.append("DA-DIR-TILT")
else:
PmagSpecRec["specimen_tilt_correction"]='-1'
pmagplotlib.plotDir(ZED,mpars,tiltblock,angle)
if verbose:pmagplotlib.drawFIGS(ZED)
if geo==0 and tilt==0:
mpars=pmag.domean(datablock,beg_pca,end_pca,calculation_type)
if mpars['specimen_direction_type']=='Error':break
PmagSpecRec["specimen_dec"]='%7.1f ' %(mpars["specimen_dec"])
PmagSpecRec["specimen_inc"]='%7.1f ' %(mpars["specimen_inc"])
PmagSpecRec["specimen_tilt_correction"]='-1'
pmagplotlib.plotDir(ZED,mpars,plotblock,angle)
if verbose:pmagplotlib.drawFIGS(ZED)
PmagSpecRec["measurement_step_min"]='%8.3e ' %(mpars["measurement_step_min"])
PmagSpecRec["measurement_step_max"]='%8.3e ' %(mpars["measurement_step_max"])
PmagSpecRec["specimen_correction"]='u'
PmagSpecRec["specimen_dang"]='%7.1f ' %(mpars['specimen_dang'])
print 'DANG: ',PmagSpecRec["specimen_dang"]
if calculation_type!='DE-FM':
PmagSpecRec["specimen_mad"]='%7.1f ' %(mpars["specimen_mad"])
PmagSpecRec["specimen_alpha95"]=""
else:
PmagSpecRec["specimen_alpha95"]='%7.1f ' %(mpars["specimen_alpha95"])
PmagSpecRec["specimen_mad"]=""
PmagSpecRec["specimen_n"]='%i ' %(mpars["specimen_n"])
PmagSpecRec["specimen_direction_type"]=direction_type
PmagSpecRec["calculation_type"]=calculation_type # redundant and won't be imported - just for convenience
method_codes=PmagSpecRec["magic_method_codes"].split(':')
if len(method_codes) != 0:
methstring=""
for meth in method_codes:
ctype=meth.split('-')
if 'DE' not in ctype:methstring=methstring+ ":" +meth # don't include old direction estimation methods
methstring=methstring+':'+calculation_type
PmagSpecRec["magic_method_codes"]= methstring.strip(':')
print 'Method codes: ',PmagSpecRec['magic_method_codes']
if calculation_type!='DE-FM':
if units=='K':
print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_mad"]),float(PmagSpecRec["specimen_dang"]),float(PmagSpecRec["measurement_step_min"])-273,float(PmagSpecRec["measurement_step_max"])-273,float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
elif units== 'T':
print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_mad"]),float(PmagSpecRec["specimen_dang"]),float(PmagSpecRec["measurement_step_min"])*1e3,float(PmagSpecRec["measurement_step_max"])*1e3,float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
elif 'T' in units and 'K' in units:
if float(PmagSpecRec['measurement_step_min'])<1.0 :
min=float(PmagSpecRec['measurement_step_min'])*1e3
else:
min=float(PmagSpecRec['measurement_step_min'])-273
if float(PmagSpecRec['measurement_step_max'])<1.0 :
max=float(PmagSpecRec['measurement_step_max'])*1e3
else:
max=float(PmagSpecRec['measurement_step_max'])-273
print '%s %i %7.1f %i %i %7.1f %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_mad"]),float(PmagSpecRec["specimen_dang"]),min,max,float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
else:
print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_mad"]),float(PmagSpecRec["specimen_dang"]),float(PmagSpecRec["measurement_step_min"]),float(PmagSpecRec["measurement_step_max"]),float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
else:
if 'K' in units:
print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_alpha95"]),float(PmagSpecRec["specimen_dang"]),float(PmagSpecRec["measurement_step_min"])-273,float(PmagSpecRec["measurement_step_max"])-273,float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
elif 'T' in units:
print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_alpha95"]),float(PmagSpecRec["specimen_dang"]),float(PmagSpecRec["measurement_step_min"])*1e3,float(PmagSpecRec["measurement_step_max"])*1e3,float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
elif 'T' in units and 'K' in units:
if float(PmagSpecRec['measurement_step_min'])<1.0 :
min=float(PmagSpecRec['measurement_step_min'])*1e3
else:
min=float(PmagSpecRec['measurement_step_min'])-273
if float(PmagSpecRec['measurement_step_max'])<1.0 :
max=float(PmagSpecRec['measurement_step_max'])*1e3
else:
max=float(PmagSpecRec['measurement_step_max'])-273
print '%s %i %7.1f %i %i %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_alpha95"]),min,max,float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
else:
print '%s %i %7.1f %7.1f %7.1f %7.1f %7.1f, %s \n' % (PmagSpecRec["er_specimen_name"],int(PmagSpecRec["specimen_n"]),float(PmagSpecRec["specimen_alpha95"]),float(PmagSpecRec["measurement_step_min"]),float(PmagSpecRec["measurement_step_max"]),float(PmagSpecRec["specimen_dec"]),float(PmagSpecRec["specimen_inc"]),calculation_type)
saveit=raw_input("Save this interpretation? [y]/n \n")
if saveit!="n":
changeS=1
#
# put in details
#
angle,direction_type,setangle="","",0
if len(CurrRecs)>0:
replace=raw_input(" [0] add new component, or [1] replace existing interpretation(s) [default is replace] ")
if replace=="1" or replace=="":
CurrRecs=[]
PmagSpecRec['specimen_comp_name']='A'
CurrRecs.append(PmagSpecRec)
else:
print 'These are the current component names for this specimen: '
for trec in CurrRecs:print trec['specimen_comp_name']
compnum=raw_input("Enter new component name: ")
PmagSpecRec['specimen_comp_name']=compnum
print "Adding new component: ",PmagSpecRec['specimen_comp_name']
CurrRecs.append(PmagSpecRec)
else:
PmagSpecRec['specimen_comp_name']='A'
CurrRecs.append(PmagSpecRec)
k+=1
ans=""
else:
ans=""
else: # plots=1
k+=1
files={}
locname.replace('/','-')
print PmagSpecRec
for key in ZED.keys():
files[key]="LO:_"+locname+'_SI:_'+PmagSpecRec['er_site_name']+'_SA:_'+PmagSpecRec['er_sample_name']+'_SP:_'+s+'_CO:_'+coord+'_TY:_'+key+'_.'+fmt
if pmagplotlib.isServer:
black = '#000000'
purple = '#800080'
titles={}
titles['demag']='DeMag Plot'
titles['zijd']='Zijderveld Plot'
titles['eqarea']='Equal Area Plot'
ZED = pmagplotlib.addBorders(ZED,titles,black,purple)
pmagplotlib.saveP(ZED,files)
if len(CurrRecs)>0:
for rec in CurrRecs: PriorRecs.append(rec)
if changeS==1:
if len(PriorRecs)>0:
save_redo(PriorRecs,inspec)
else:
os.system('rm '+inspec)
CurrRecs,beg_pca,end_pca=[],"","" # next up
changeS=0
else: k+=1 # skip record - not enough data
if changeM==1:
pmag.magic_write(meas_file,meas_data,'magic_measurements')
