def identify_line_GUI(self):
if self.label == 'None':
self.label = 'LLS Small'
data = line.read_line_list(self.label)
Transition_List = []
wavelist = []
for i in range(0, len(data)):
Transition_List.append(data[i]['ion'])
wavelist.append(data[i]['wrest'])
layout = [[sg.Text('Please select the transition and LineList')],
[
sg.Listbox(values=Transition_List,
size=(30, 6),
key='_Transition_')
],
[
sg.Text('LineList', size=(15, 1)),
sg.Drop(values=(self.label, 'LLS', 'LLS Small', 'DLA'),
size=(15, 1),
key='_Menu_')
], [sg.Button('Reset'),
sg.Button('Submit')]]
window = sg.Window('Line Identification',
layout,
font=("Helvetica", 12))
while True: # Event Loop
event, values = window.Read()
if event is None or event == 'Submit':
break
self.label = values['_Menu_']
data = line.read_line_list(self.label)
Transition_List = []
wavelist = []
for i in range(0, len(data)):
Transition_List.append(data[i]['ion'])
wavelist.append(data[i]['wrest'])
window.Element('_Transition_').Update(Transition_List)
window.Close()
Transition_List = np.array(Transition_List)
wavelist = np.array(wavelist)
Transition_rest = values['_Transition_']
qq = np.where(Transition_List == Transition_rest)
#ipdb.set_trace()
lambda_rest = wavelist[qq][0]
LineList = values['_Menu_']
return lambda_rest, LineList
def draw_any_linelist(self):
# Now make a smaller linelist within the current xaxes range.
#plt.figure(self.fig.number)
xlim = self.ax.get_xlim()
ylim = self.ax.get_ylim()
#Hardcoding that only 10 independent absorber systems can be plotted
for i in range(0, 10):
if self.zabs_list['color'][i] != 'None':
zabs = np.double(self.zabs_list['zabs'][i])
linelist = self.zabs_list['List'][i]
lineclr = self.zabs_list['color'][i]
data = line.read_line_list(linelist)
for i in range(0, len(data)):
if ((data[i]['wrest'] * (1. + zabs) >= np.double(xlim[0]))
& (data[i]['wrest'] *
(1. + zabs) <= np.double(xlim[1]))):
xdata = [
data[i]['wrest'] * (1. + zabs),
data[i]['wrest'] * (1. + zabs)
]
ss = self.ax.transData.transform((0, .9))
ydata = [0, ylim[1]]
lineplot_list, = self.ax.plot(xdata,
ydata,
'--',
color=lineclr)
tt_list = self.ax.text(xdata[0],
0.75 * ylim[1],
data[i]['ion'] + ' ' +
np.str('%.5f' % zabs),
rotation=90)
#print('Target Redshfit set at : ' + np.str(self.zabs))
plt.draw()
def DrawLineList(self, label):
del self.ax.lines[1:len(self.ax.lines)]
self.ax.texts = []
self.label = label
if label == 'None':
lineplot, = self.ax.plot([0], [0], 'k--')
else:
data = line.read_line_list(label)
# Now make a smaller linelist within the current xaxes range.
xlim = self.ax.get_xlim()
ylim = self.ax.get_ylim()
for i in range(0, len(data)):
if ((data[i]['wrest'] * (1. + self.zabs) >= np.double(xlim[0]))
& (data[i]['wrest'] *
(1. + self.zabs) <= np.double(xlim[1]))):
xdata = [
data[i]['wrest'] * (1. + self.zabs),
data[i]['wrest'] * (1. + self.zabs)
]
ss = self.ax.transData.transform((0, .9))
ydata = [0, ylim[1]]
lineplot, = self.ax.plot(
xdata,
ydata,
'k--',
)
tt = self.ax.text(xdata[0],
0.75 * ylim[1],
data[i]['ion'] + ' ' + np.str(self.zabs),
rotation=90)
#print('Target Redshfit set at : ' + np.str(self.zabs))
plt.draw()
def _get_linelist_df(self, linelist_name):
llist = pd.DataFrame(columns=['wave', 'name'])
tmp = read_line_list(linelist_name)
#need a line to append wrest to name if it doesn't have one
if any(map(str.isdigit, tmp[1]['ion'])):
# if name column has wrest
for li in tmp:
newrow = {'wave': li['wrest'], 'name': li['ion']}
llist = llist.append(newrow, ignore_index=True)
else:
# if name column doesn't have wrest, need to append
for li in tmp:
newrow = {
'wave': li['wrest'],
'name': li['ion'] + ' ' + str(round(li['wrest']))
}
llist = llist.append(newrow, ignore_index=True)
return llist
def prepare_absorber_object(z_abs,wave,flux,error,line_flg='LLS',vlim=[-1000,1000]):
# Read the full linelist
data=line.read_line_list(line_flg)
wavelist=[]
for i in range(0,len(data)):
wavelist.append(data[i]['wrest'])
wavelist=np.array(wavelist)
# select the lines within the wavelength range only
q= np.where((wavelist > np.min(wave)/(1.+z_abs)) & (wavelist < (np.max(wave)/(1.+z_abs))));
# Total transitions visible within the wavelength window
nTot= len(q[0]);
wavelist_selected=wavelist[q]
absys=A.Absorber(z_abs,wave,flux,error,list(wavelist_selected),window_lim=vlim,nofrills=True)
return absys.ions