def update_asset(inv): asset = inv.what asset.holder = inv.who asset.inventoried = inv.when asset.current = inv.where asset.status = inv.how methods.save()
def edit_self():
if g.user:
fname = request.form.get('fname')
lname = request.form.get('lname')
phone = request.form.get('phone')
email = request.form.get('email')
annon = request.form.get('annon')
annon = bool(annon) if annon else None
g.user.fname = fname if fname else g.user.fname
g.user.lname = lname if lname else g.user.lname
g.user.phone = phone if phone else g.user.phone
g.user.email = email if email else g.user.email
g.user.annon = annon if annon else g.user.annon
methods.save()
return view.success(dict(g.user))
def edit_user(id):
if check_auth(auth.UserModifyWorld):
user = model.User.query.filter_by(uid=id).first()
if user:
grp = request.form.get('grp')
grp = int(grp) if grp else grp
user.grp = grp if grp else user.grp
perm = request.form.get('perm')
perm = int(perm) if perm else perm
user.perm = perm if perm else user.perm
methods.save()
return view.success(dict(user))
else:
return view.dne('user')
else:
return view.keep_away()
def refresh(self):
if self.napsterbot:
self.threads = self.napsterbot.get_nbthreads()
if not self.napsterbot.stopped:
self.napsterbot.check_threads()
new_logs = self.napsterbot.check_logs()
for log in new_logs:
self.Console_Output.insert(tk.END, log)
self.Console_Output.see("end")
if float(self.Console_Output.index('end')) > 100:
self.Console_Output.delete('1.0', '2.0')
self.streams = self.save[
'streams'] + self.napsterbot.get_nbstreams()
self.earnings = self.streams * 0.019
nm.save({
'streams': self.streams,
'earnings': self.earnings
}, 'save')
self.Lbl_Threads.configure(
text='Threads: {}'.format(self.threads))
self.Lbl_Streams.configure(
text='Streams: {}'.format(self.streams))
self.Lbl_Earnings.configure(
text='Earnings: {:.2f}$'.format(self.earnings))
#
scale = np.min(mean) / np.min(simulated)
print('Scaling factor: ' + str(scale))
#
# Create plot
#
pl.figure()
pl.xlabel('V [mV]')
pl.ylabel('Peak I$_{CaL}$ [A/F]')
pl.ylim(-10, 1)
methods.fill(vsteps_mv, p25, p75, 'red')
pl.plot(vsteps_mv,
mean,
'o-',
label='Experiment (mean, n=' + str(ncells) + ')',
color='#B22400')
pl.plot(vsteps * 1e3, simulated, label='Simulation')
pl.plot(vsteps * 1e3, simulated * scale, label='Fitted simulation')
pl.legend(loc='lower center',
fontsize=9,
ncol=3,
handlelength=1.5,
handletextpad=0.5)
pl.tight_layout()
# Store
methods.save('figure1b')
print('Figure saved to ' + methods.FIGURES)
# Create colormap
cmap = matplotlib.cm.get_cmap('viridis')
norm = matplotlib.colors.Normalize(min(vsteps), max(vsteps))
# Create plot
pl.figure(figsize=(methods.FIGSIZE[0] * 2.1, methods.FIGSIZE[1] * 1.3))
n = len(CURRENTS)
n2 = int(np.ceil(n * 0.5))
for i, current in enumerate(CURRENTS):
pl.subplot(2, n2, i + 1)
if i >= n * 0.5:
pl.xlabel('Time [ms]')
if i % n2 == 0:
pl.ylabel('I [A/F]')
pl.title(LABELS[current])
for i, v in enumerate(vsteps):
pl.plot(log.time() * 1e3,
log[current, i],
color=cmap(norm(v)),
label=str(v * 1e3) + ' mV')
pl.tight_layout()
pl.legend(bbox_to_anchor=(1.05, 0), loc='lower left', borderaxespad=0.)
#plt.figlegend( lines, labels, loc = 'lower center', ncol=5, labelspacing=0. )
methods.save('figureS2')
print('Figures saved to ' + methods.FIGURES)
#pl.show()
pl.plot(sim_time,
mid,
lw=3,
label='Fitted models (' + ('median' if MEDIAN else 'mean') + ', n=' +
str(n) + ')')
#for ap in sim_aps:
# pl.plot(sim_time, ap, color='tab:orange', alpha=0.25, lw=2)
# Show APD line
pl.axhline(PT, ls='--', color='gray', label=str(PT))
# Add legend
pl.legend(loc='upper right')
# Store
methods.save('figure4a' if PT == 0.1 else 'figure104a')
#
# Figure 4b: Plot histogram of normalised APDs
#
pl.figure()
pl.xlabel('APD$_{' + ('90' if PT == 0.1 else '50') + '}$ [ms]')
pl.ylabel('Probability density')
if PT == 0.1:
pl.xlim(150, 500)
elif PT == 0.5:
pl.xlim(100, 375)
bins = np.arange(0, 600, 25)
pl.hist(
#
# Plot histogram of peak current
#
pl.figure()
pl.xlabel('Peak outward current [A/F]')
pl.ylabel('Probability density')
#pl.xlim(125, 575)
#pl.ylim(0, 0.011)
for peak in sorted(peaks):
print(' ' + str(peak))
bins = np.arange(0, 70, 5)
pl.hist(
peaks,
normed=True,
bins=bins,
label='Peak outward current',
color='tab:green',
edgecolor='tab:green',
alpha=0.5,
)
methods.save('figureS6')
print('Figure S6 saved to ' + methods.FIGURES)
#pl.show()
('median' if MEDIAN else 'mean') + ', n=' +
str(min(nmodels)) + '-' + str(max(nmodels)) + ')')
# Show points with alternans
if False:
for star in set(stars):
x = star[0] * 0.95
y = mid[detailed.index(star[0])] + 25
pl.plot(x, y, '*', color='tab:orange')
# Set y-axis limits
if PT == 0.5:
ax1.set_ylim(25, 1000)
ax2.set_ylim(25, 1000)
else:
ax1.set_ylim(100, 1100)
ax2.set_ylim(100, 1100)
# Fix legend for quinidine figure
if drug == 'quinidine':
pl.legend(bbox_to_anchor=(0.58, 0.99))
else:
pl.legend(loc=legends[idrug])
# Store figure
methods.save(figures[idrug])
print('Figures saved to ' + methods.FIGURES + ' (plus apds)')
#pl.show()
#pl.ylim(-85, 40)
for i, long_id in enumerate(outward.ORDER):
short_id = table['short_id'][i]
axes[4].plot(aps.time()*1e3, aps['inaca.INaCa', i],
color=cmap(norm(order[i])),
label=short_id)
#pl.tight_layout()
axes[5].set_ylabel('I$_{Kr}$ [A/F]')
#pl.ylim(-85, 40)
for i, long_id in enumerate(outward.ORDER):
short_id = table['short_id'][i]
axes[5].plot(aps.time()*1e3, aps['ikr.IKr', i],
color=cmap(norm(order[i])),
label=short_id)
fig.subplots_adjust(hspace=0)
#plt.setp([a.get_xticklabels() for a in fig.axes[:-1]], visible=False)
#pl.savefig('iall.png',bbox_inches='tight')
for a in axes:
pl.setp(a.get_yticklabels()[0], visible=False)
pl.setp(a.get_yticklabels()[-1], visible=False)
pl.setp(axes[5].get_yticklabels()[-2], visible=False)
methods.save('figureS7')
print('Figure S7 saved to ' + methods.FIGURES)
#pl.show()
for i, v in enumerate(outward.VSTEPS_mV):
total_i = np.zeros(time.shape)
for current in outward.CURRENTS:
total_i += data[current, i]
total.append(total_i)
#
# Plot
#
cmap = matplotlib.cm.get_cmap('viridis')
norm = matplotlib.colors.Normalize(0, len(total))
pl.figure()
pl.xlabel('Time [ms]')
pl.ylabel('Outward current [A/F]')
pl.ylim(-6, 2)
for i, current in enumerate(total):
vm = outward.VSTEPS_mV[i]
pl.plot(time, current, color=cmap(norm(i)), label=str(vm) + ' mV')
pl.legend(loc='lower right',
ncol=5,
columnspacing=1.2,
fontsize=9,
handlelength=1.5,
handletextpad=0.5)
methods.save('figureS4')
print('Figure S4 saved to ' + methods.FIGURES)
#pl.show()
def stop_command(self):
nm.save({'streams': self.streams, 'earnings': self.earnings}, 'save')
self.napsterbot.stop()
self.bot_thread.join()
self.Lbl_Status.configure(text='OFF')
def __init__(self):
try:
self.save = nm.load('save')
except:
self.save = {'streams': 0, 'earnings': 0}
nm.save(self.save, 'save')
self.napsterbot = ''
self.accounts_path = ''
self.proxies_path = ''
self.tracks_path = ''
self.threads = 0
self.streams = 0
self.earnings = 0
self.top = tk.Tk()
w = 700
h = 500
ws = self.top.winfo_screenwidth()
hs = self.top.winfo_screenheight()
x = (ws / 2) - (w / 2)
y = (hs / 2) - (h / 2)
self.top.geometry('%dx%d+%d+%d' % (w, h, x, y))
self.top.resizable(True, False)
self.top.minsize(w, h)
self.top.maxsize(w + 200, h)
self.top.title('Omega Napster')
self.top.configure(background="#2d2d2d")
self.top.attributes("-topmost", True)
# Frame Principale
self.Frm_Main = tk.Frame(self.top)
self.Frm_Main.place(relx=0.0,
rely=-0.02,
relheight=0.99,
relwidth=0.994)
self.Frm_Main.configure(relief="groove")
self.Frm_Main.configure(background="#2d2d2d")
# Frame Haut-Gauche
self.Frm_UpLeft = tk.Frame(self.Frm_Main)
self.Frm_UpLeft.place(relx=0.029,
rely=0.04,
relheight=0.303,
relwidth=0.481)
self.Frm_UpLeft.configure(relief='ridge')
self.Frm_UpLeft.configure(borderwidth="3")
self.Frm_UpLeft.configure(relief="ridge")
self.Frm_UpLeft.configure(background="#1b1b1b")
self.Frm_UpLeft.configure(highlightbackground="#000000")
self.Frm_UpLeft.configure(highlightcolor="#000000")
self.Lbl_Accounts = tk.Label(self.Frm_UpLeft)
self.Lbl_Accounts.place(relx=0.06, rely=0.133, height=29, width=90)
self.Lbl_Accounts.configure(activebackground="#ffffff")
self.Lbl_Accounts.configure(activeforeground="black")
self.Lbl_Accounts.configure(anchor='n')
self.Lbl_Accounts.configure(background="#3f3f3f")
self.Lbl_Accounts.configure(disabledforeground="#a3a3a3")
self.Lbl_Accounts.configure(
font="-family {Calibri} -size 12 -weight bold")
self.Lbl_Accounts.configure(foreground="#ffffff")
self.Lbl_Accounts.configure(highlightbackground="#d9d9d9")
self.Lbl_Accounts.configure(highlightcolor="black")
self.Lbl_Accounts.configure(relief="ridge")
self.Lbl_Accounts.configure(text='''Accounts:''')
self.Lbl_Accounts_File = tk.Label(self.Frm_UpLeft)
self.Lbl_Accounts_File.place(relx=0.328,
rely=0.147,
height=25,
width=120)
self.Lbl_Accounts_File.configure(activebackground="#f9f9f9")
self.Lbl_Accounts_File.configure(activeforeground="black")
self.Lbl_Accounts_File.configure(background="#e6e6e6")
self.Lbl_Accounts_File.configure(borderwidth="0")
self.Lbl_Accounts_File.configure(disabledforeground="#a3a3a3")
self.Lbl_Accounts_File.configure(font="-family {Calibri} -size 10")
self.Lbl_Accounts_File.configure(foreground="#000000")
self.Lbl_Accounts_File.configure(highlightbackground="#d9d9d9")
self.Lbl_Accounts_File.configure(highlightcolor="black")
self.Lbl_Accounts_File.configure(relief="ridge")
self.Lbl_Accounts_File.configure(text='None')
self.Btn_Accounts = tk.Button(self.Frm_UpLeft)
self.Btn_Accounts.place(relx=0.716, rely=0.14, height=25, width=70)
self.Btn_Accounts.configure(activebackground="#ececec")
self.Btn_Accounts.configure(activeforeground="#000000")
self.Btn_Accounts.configure(anchor='n')
self.Btn_Accounts.configure(background="#3f3f3f")
self.Btn_Accounts.configure(disabledforeground="#a3a3a3")
self.Btn_Accounts.configure(
font="-family {Calibri} -size 10 -weight bold -underline 1")
self.Btn_Accounts.configure(foreground="#ffffff")
self.Btn_Accounts.configure(highlightbackground="#d9d9d9")
self.Btn_Accounts.configure(highlightcolor="black")
self.Btn_Accounts.configure(pady="0")
self.Btn_Accounts.configure(relief="groove")
self.Btn_Accounts.configure(text='''Browse''')
self.Btn_Accounts.configure(
command=partial(self.browseFiles, 'accounts'))
self.Lbl_Proxies = tk.Label(self.Frm_UpLeft)
self.Lbl_Proxies.place(relx=0.06, rely=0.4, height=29, width=90)
self.Lbl_Proxies.configure(activebackground="#ffffff")
self.Lbl_Proxies.configure(activeforeground="black")
self.Lbl_Proxies.configure(anchor='n')
self.Lbl_Proxies.configure(background="#3f3f3f")
self.Lbl_Proxies.configure(disabledforeground="#a3a3a3")
self.Lbl_Proxies.configure(
font="-family {Calibri} -size 12 -weight bold")
self.Lbl_Proxies.configure(foreground="#ffffff")
self.Lbl_Proxies.configure(highlightbackground="#d9d9d9")
self.Lbl_Proxies.configure(highlightcolor="black")
self.Lbl_Proxies.configure(relief="ridge")
self.Lbl_Proxies.configure(text='''Proxies:''')
self.Lbl_Proxies_File = tk.Label(self.Frm_UpLeft)
self.Lbl_Proxies_File.place(relx=0.328,
rely=0.407,
height=25,
width=120)
self.Lbl_Proxies_File.configure(activebackground="#f9f9f9")
self.Lbl_Proxies_File.configure(activeforeground="black")
self.Lbl_Proxies_File.configure(background="#e6e6e6")
self.Lbl_Proxies_File.configure(borderwidth="0")
self.Lbl_Proxies_File.configure(disabledforeground="#a3a3a3")
self.Lbl_Proxies_File.configure(font="-family {Calibri} -size 10")
self.Lbl_Proxies_File.configure(foreground="#000000")
self.Lbl_Proxies_File.configure(highlightbackground="#d9d9d9")
self.Lbl_Proxies_File.configure(highlightcolor="black")
self.Lbl_Proxies_File.configure(relief="ridge")
self.Lbl_Proxies_File.configure(text='None')
self.Btn_Proxies = tk.Button(self.Frm_UpLeft)
self.Btn_Proxies.place(relx=0.716, rely=0.4, height=25, width=70)
self.Btn_Proxies.configure(activebackground="#ececec")
self.Btn_Proxies.configure(activeforeground="#000000")
self.Btn_Proxies.configure(anchor='n')
self.Btn_Proxies.configure(background="#3f3f3f")
self.Btn_Proxies.configure(disabledforeground="#a3a3a3")
self.Btn_Proxies.configure(
font="-family {Calibri} -size 10 -weight bold -underline 1")
self.Btn_Proxies.configure(foreground="#ffffff")
self.Btn_Proxies.configure(highlightbackground="#d9d9d9")
self.Btn_Proxies.configure(highlightcolor="black")
self.Btn_Proxies.configure(pady="0")
self.Btn_Proxies.configure(relief="groove")
self.Btn_Proxies.configure(text='''Browse''')
self.Btn_Proxies.configure(
command=partial(self.browseFiles, 'proxies'))
self.Lbl_Tracks = tk.Label(self.Frm_UpLeft)
self.Lbl_Tracks.place(relx=0.06, rely=0.667, height=29, width=90)
self.Lbl_Tracks.configure(activebackground="#ffffff")
self.Lbl_Tracks.configure(activeforeground="black")
self.Lbl_Tracks.configure(anchor='n')
self.Lbl_Tracks.configure(background="#3f3f3f")
self.Lbl_Tracks.configure(disabledforeground="#a3a3a3")
self.Lbl_Tracks.configure(
font="-family {Calibri} -size 12 -weight bold")
self.Lbl_Tracks.configure(foreground="#ffffff")
self.Lbl_Tracks.configure(highlightbackground="#d9d9d9")
self.Lbl_Tracks.configure(highlightcolor="black")
self.Lbl_Tracks.configure(relief="ridge")
self.Lbl_Tracks.configure(text='''Tracks:''')
self.Lbl_Tracks_File = tk.Label(self.Frm_UpLeft)
self.Lbl_Tracks_File.place(relx=0.328,
rely=0.673,
height=25,
width=120)
self.Lbl_Tracks_File.configure(activebackground="#f9f9f9")
self.Lbl_Tracks_File.configure(activeforeground="black")
self.Lbl_Tracks_File.configure(background="#e6e6e6")
self.Lbl_Tracks_File.configure(borderwidth="0")
self.Lbl_Tracks_File.configure(disabledforeground="#a3a3a3")
self.Lbl_Tracks_File.configure(font="-family {Calibri} -size 10")
self.Lbl_Tracks_File.configure(foreground="#000000")
self.Lbl_Tracks_File.configure(highlightbackground="#d9d9d9")
self.Lbl_Tracks_File.configure(highlightcolor="black")
self.Lbl_Tracks_File.configure(relief="ridge")
self.Lbl_Tracks_File.configure(text='None')
self.Btn_Tracks = tk.Button(self.Frm_UpLeft)
self.Btn_Tracks.place(relx=0.716, rely=0.667, height=25, width=70)
self.Btn_Tracks.configure(activebackground="#ececec")
self.Btn_Tracks.configure(activeforeground="#000000")
self.Btn_Tracks.configure(anchor='n')
self.Btn_Tracks.configure(background="#3f3f3f")
self.Btn_Tracks.configure(disabledforeground="#a3a3a3")
self.Btn_Tracks.configure(
font="-family {Calibri} -size 10 -weight bold -underline 1")
self.Btn_Tracks.configure(foreground="#ffffff")
self.Btn_Tracks.configure(highlightbackground="#d9d9d9")
self.Btn_Tracks.configure(highlightcolor="black")
self.Btn_Tracks.configure(pady="0")
self.Btn_Tracks.configure(relief="groove")
self.Btn_Tracks.configure(text='''Browse''')
self.Btn_Tracks.configure(command=partial(self.browseFiles, 'tracks'))
self.Frm_DownRight = tk.Frame(self.Frm_Main)
self.Frm_DownRight.place(relx=0.33,
rely=0.364,
relheight=0.636,
relwidth=0.654)
self.Frm_DownRight.configure(relief='ridge')
self.Frm_DownRight.configure(borderwidth="2")
self.Frm_DownRight.configure(relief="ridge")
self.Frm_DownRight.configure(background="#1b1b1b")
self.Console_Output = scroll.ScrolledText(self.Frm_DownRight)
self.Console_Output.place(relx=0.022,
rely=0.032,
relheight=0.933,
relwidth=0.954)
self.Console_Output.configure(background="#5f5f5f")
self.Console_Output.configure(borderwidth="2")
self.Console_Output.configure(font="-family {Calibri} -size 11")
self.Console_Output.configure(foreground="black")
self.Console_Output.configure(highlightbackground="#d9d9d9")
self.Console_Output.configure(highlightcolor="black")
self.Console_Output.configure(insertbackground="black")
self.Console_Output.configure(padx="8")
self.Console_Output.configure(relief="ridge")
self.Console_Output.configure(selectbackground="black")
self.Console_Output.configure(selectforeground="white")
self.Console_Output.configure(wrap="none")
self.Frm_DownLeft = tk.Frame(self.Frm_Main)
self.Frm_DownLeft.place(relx=0.029,
rely=0.364,
relheight=0.636,
relwidth=0.28)
self.Frm_DownLeft.configure(relief='ridge')
self.Frm_DownLeft.configure(borderwidth="2")
self.Frm_DownLeft.configure(relief="ridge")
self.Frm_DownLeft.configure(background="#1b1b1b")
self.Frm_DownLeft.configure(highlightbackground="#d9d9d9")
self.Frm_DownLeft.configure(highlightcolor="black")
self.Lbl_Threads = tk.Label(self.Frm_DownLeft)
self.Lbl_Threads.place(relx=0.103, rely=0.063, height=29, width=150)
self.Lbl_Threads.configure(activebackground="#ffffff")
self.Lbl_Threads.configure(activeforeground="black")
self.Lbl_Threads.configure(anchor='nw')
self.Lbl_Threads.configure(background="#3f3f3f")
self.Lbl_Threads.configure(disabledforeground="#a3a3a3")
self.Lbl_Threads.configure(
font="-family {Calibri} -size 12 -weight bold")
self.Lbl_Threads.configure(foreground="#ffffff")
self.Lbl_Threads.configure(highlightbackground="#d9d9d9")
self.Lbl_Threads.configure(highlightcolor="black")
self.Lbl_Threads.configure(padx="5")
self.Lbl_Threads.configure(relief="ridge")
self.Lbl_Threads.configure(text='Threads: {}'.format(self.threads))
self.Lbl_Streams = tk.Label(self.Frm_DownLeft)
self.Lbl_Streams.place(relx=0.103, rely=0.19, height=29, width=150)
self.Lbl_Streams.configure(activebackground="#ffffff")
self.Lbl_Streams.configure(activeforeground="black")
self.Lbl_Streams.configure(anchor='nw')
self.Lbl_Streams.configure(background="#3f3f3f")
self.Lbl_Streams.configure(disabledforeground="#a3a3a3")
self.Lbl_Streams.configure(
font="-family {Calibri} -size 12 -weight bold")
self.Lbl_Streams.configure(foreground="#ffffff")
self.Lbl_Streams.configure(highlightbackground="#d9d9d9")
self.Lbl_Streams.configure(highlightcolor="black")
self.Lbl_Streams.configure(padx="5")
self.Lbl_Streams.configure(relief="ridge")
self.Lbl_Streams.configure(
text='Streams: {}'.format(self.save['streams']))
self.Lbl_Earnings = tk.Label(self.Frm_DownLeft)
self.Lbl_Earnings.place(relx=0.103, rely=0.317, height=29, width=150)
self.Lbl_Earnings.configure(activebackground="#ffffff")
self.Lbl_Earnings.configure(activeforeground="black")
self.Lbl_Earnings.configure(anchor='nw')
self.Lbl_Earnings.configure(background="#3f3f3f")
self.Lbl_Earnings.configure(disabledforeground="#a3a3a3")
self.Lbl_Earnings.configure(
font="-family {Calibri} -size 12 -weight bold")
self.Lbl_Earnings.configure(foreground="#ffffff")
self.Lbl_Earnings.configure(highlightbackground="#d9d9d9")
self.Lbl_Earnings.configure(highlightcolor="black")
self.Lbl_Earnings.configure(padx="5")
self.Lbl_Earnings.configure(relief="ridge")
self.Lbl_Earnings.configure(
text='Earnings: {:.2f}$'.format(self.save['earnings']))
self.Frm_UpRight = tk.Frame(self.Frm_Main)
self.Frm_UpRight.place(relx=0.532,
rely=0.04,
relheight=0.303,
relwidth=0.451)
self.Frm_UpRight.configure(relief='ridge')
self.Frm_UpRight.configure(borderwidth="3")
self.Frm_UpRight.configure(relief="ridge")
self.Frm_UpRight.configure(background="#1b1b1b")
self.Frm_UpRight.configure(highlightbackground="#d9d9d9")
self.Frm_UpRight.configure(highlightcolor="black")
self.Btn_Start = tk.Button(self.Frm_UpRight)
self.Btn_Start.place(relx=0.096, rely=0.2, height=44, width=107)
self.Btn_Start.configure(activebackground="#ececec")
self.Btn_Start.configure(activeforeground="#000000")
self.Btn_Start.configure(background="#114a0b")
self.Btn_Start.configure(disabledforeground="#a3a3a3")
self.Btn_Start.configure(
font="-family {Calibri} -size 18 -weight bold")
self.Btn_Start.configure(foreground="#000000")
self.Btn_Start.configure(highlightbackground="#d9d9d9")
self.Btn_Start.configure(highlightcolor="black")
self.Btn_Start.configure(pady="0")
self.Btn_Start.configure(relief="groove")
self.Btn_Start.configure(text='''START''')
self.Btn_Start.configure(command=self.start_command)
self.Btn_Stop = tk.Button(self.Frm_UpRight)
self.Btn_Stop.place(relx=0.548, rely=0.2, height=44, width=107)
self.Btn_Stop.configure(activebackground="#ececec")
self.Btn_Stop.configure(activeforeground="#000000")
self.Btn_Stop.configure(background="#6c0003")
self.Btn_Stop.configure(disabledforeground="#a3a3a3")
self.Btn_Stop.configure(font="-family {Calibri} -size 18 -weight bold")
self.Btn_Stop.configure(foreground="#000000")
self.Btn_Stop.configure(highlightbackground="#d9d9d9")
self.Btn_Stop.configure(highlightcolor="black")
self.Btn_Stop.configure(pady="0")
self.Btn_Stop.configure(relief="groove")
self.Btn_Stop.configure(text='''STOP''')
self.Btn_Stop.configure(command=self.stop_command)
self.Lbl_Status = tk.Label(self.Frm_UpRight)
self.Lbl_Status.place(relx=0.318, rely=0.6, height=30, width=114)
self.Lbl_Status.configure(background="#444444")
self.Lbl_Status.configure(disabledforeground="#a3a3a3")
self.Lbl_Status.configure(font="-family {Calibri} -size 13")
self.Lbl_Status.configure(foreground="#ffffff")
self.Lbl_Status.configure(text='OFF')
#!/usr/bin/env python
#
# Python code to generate Figure S5: Outward current fit to three cells.
#
from __future__ import print_function
import sys
import methods
import methods.outward as outward
import matplotlib.pyplot as pl
#
# Fit all outward current experiments (or used cached result)
#
force = '--force' in sys.argv
table, cells = outward.fit_all(force)
#
# Plot
#
for i, long_id in enumerate(outward.ORDER):
print('Plotting fit for cell ' + long_id)
result = outward.select(table, cells, i)
outward.plot_experiment(*result)
methods.save('all-outward-fits/' + long_id + '_exp')
outward.plot_simulation(*result)
methods.save('all-outward-fits/' + long_id + '_sim')
pl.close('all')
print('Figures saved to ' + methods.FIGURES + ' all-outward-fits')
print('Scaling factor: ' + str(scale))
#
# Create plot
#
pl.figure()
pl.xlabel('V [mV]')
pl.ylabel('Peak I$_{Na}$ [A/F]')
pl.ylim(-235, 9)
methods.fill(vsteps_mv, p25, p75, 'red')
pl.plot(vsteps_mv,
mean,
'o-',
label='Experiment (mean, n=' + str(ncells) + ')',
color='#B22400')
pl.plot(vsteps * 1e3, simulated, label='Simulation')
pl.plot(vsteps * 1e3, simulated * scale, label='Fitted simulation')
pl.legend(loc='lower center',
fontsize=9,
ncol=3,
columnspacing=1.3,
handlelength=1.5,
handletextpad=0.5)
pl.tight_layout()
# Store
methods.save('figure1a')
#pl.show()
print('Figure saved to ' + methods.FIGURES)
pl.xlabel('Time [ms]')
pl.ylabel('V (normalised)')
#pl.xlim(-50, 550)
pl.xlim(-50,20000)
pl.grid(True)
# Plot tailored model APs
n = len(sim_aps)
for ap in sim_aps:
try:
whereap = sim_time[ap>-0.04][0]
except:
whereap = 0
try:
tempidx = np.arange(len(ap))[ap>-0.04]
whereend = [tempidx[i+1] for i in range(len(tempidx)-1) if tempidx[i+1]-tempidx[i]>1000][1] - 1000
except:
whereend = -1000
pl.plot((sim_time-whereap)[:whereend], ap[:whereend], alpha=0.5, lw=2)
#pl.legend(loc='upper right')
#pl.show()
methods.save('unpaced')
for (i, drug) in enumerate(allDrugs):
try:
sheet = xlsx.parse(drug)
idx = np.array(sheet)[:, 0]
control = np.array(sheet)[:, 1]
applied = np.array(sheet)[:, 2]
except:
sheet = ods.sheets[drug]
idx = np.array([int(i[0].value) for i in sheet.rows()])
control = np.array([i[1].value for i in sheet.rows()])
applied = np.array([i[2].value for i in sheet.rows()])
plt.figure()
for (j, conc_id) in enumerate(CONC_ID):
conc_idx = np.arange(np.max(idx))[((idx >= conc_id[0]) &
(idx <= conc_id[1]))]
plt.xlabel(r"concentration")
plt.title(drug)
if plotchange:
plt.plot([j + 1] * len(conc_idx),
applied[conc_idx] - control[conc_idx], 'ro')
plt.ylabel(r"$\Delta$ cycle length [ms]")
plt.xlim([0.1, 4.9])
methods.save('cyclelength_Diff_%s' % drug)
else:
plt.plot([j + 1] * len(conc_idx), applied[conc_idx], 'kx')
plt.plot([0] * len(conc_idx), control[conc_idx], 'kx')
plt.ylabel(r"cycle length [ms]")
plt.xlim([-0.9, 4.9])
methods.save('cyclelength_%s' % drug)
#plt.show()
#
# Order cells by APD at -20mV
#
tmin = 100
vapd = -20
i = np.where(cells[0][0] > tmin)[0][0]
cells.sort(key = lambda cell: np.where(cell[1][i:] < vapd)[0][:1])
#
# Create colormap
#
cmap = matplotlib.cm.get_cmap('inferno')
norm = matplotlib.colors.Normalize(0, len(cells))
#
# Plot
#
pl.figure()
pl.ylim(-85, 40)
for k, (ts, vs) in enumerate(cells):
pl.plot(ts, vs, color=cmap(norm(k)), lw=0.5)
pl.xlabel('Time [ms]')
pl.ylabel('V [mV]')
pl.tight_layout()
methods.save('figure3b')
print('Figure saved to ' + methods.FIGURES)
#pl.show()
order = [np.where(v < vapd)[0][:1] for v in order]
order = [v[0] if v else 2000 for v in order]
order = np.argsort(np.argsort(order))
#
# Create colormap
#
cmap = matplotlib.cm.get_cmap('viridis')
norm = matplotlib.colors.Normalize(0, len(cells))
#
# Plot and save
#
pl.figure()
pl.xlabel('Time [ms]')
pl.ylabel('V [mV]')
pl.ylim(-85, 40)
for i, long_id in enumerate(outward.ORDER):
short_id = table['short_id'][i]
pl.plot(aps.time() * 1e3,
aps['membrane.V', i] * 1e3,
color=cmap(norm(order[i])),
label=short_id)
pl.tight_layout()
methods.save('figure3a')
print('Figure saved to ' + methods.FIGURES)
#pl.show()
#
from __future__ import print_function
import sys
import methods
import methods.outward as outward
#
# Fit all outward current experiments (or used cached result)
#
force = '--force' in sys.argv
table, cells = outward.fit_all(force)
#
# Find cell by name
#
cell = outward.find('b3')
#
# Fit to data
#
#
# Plot
#
result = outward.select(table, cells, cell)
outward.plot_experiment(*result)
methods.save('figure2a')
outward.plot_simulation(*result)
methods.save('figure2b')
print('Figures 2a and 2b saved to ' + methods.FIGURES)
