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MergedIVs.py
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Created
Tue, Sep 10, 12:17
Size
3 KB
Mime Type
text/x-python
Expires
Thu, Sep 12, 12:17 (2 d)
Engine
blob
Format
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Handle
20633384
Attached To
rNPTOOLS Nanopore Tools
MergedIVs.py
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import
numpy
as
np
import
scipy
import
scipy.signal
as
sig
import
UsefulFunctions
as
uf
import
pyqtgraph
as
pg
import
os
import
matplotlib.pyplot
as
plt
from
matplotlib.backends.backend_pdf
import
PdfPages
from
tkinter
import
Tk
from
tkinter.filedialog
import
askopenfilenames
from
matplotlib.font_manager
import
FontProperties
fontP
=
FontProperties
()
fontP
.
set_size
(
'small'
)
props
=
dict
(
boxstyle
=
'round'
,
facecolor
=
'wheat'
,
alpha
=
0.5
)
Tk
()
.
withdraw
()
os
.
system
(
'''/usr/bin/osascript -e 'tell app "Finder" to set frontmost of process "python" to true' '''
)
#filenames = ['/Volumes/backup/2017/Michael/Axopatch/20170512/10mMKClInFlowCellORingPore1mm.dat']
filenames
=
[
'/Volumes/Michael/Axopatch_DR/20171025/03A_GroundOnTrans_OvernightAfterChimeraMeasurements_IV.dat'
,
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH7_GroundToTrans_IV_2.dat'
,
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH115_GroundToTrans_IV_2.dat'
,
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH7_GroundToTrans_500mV_IV_6.dat'
,
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH341_GroundToTrans_500mV_IV_3.dat'
,
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH7_GroundToTrans_500mV_IV_7.dat'
]
labels
=
[
'1) After Poly-D-Lysine, pH7'
,
'2) 1M KCl, pH 7'
,
'3) 1M KCl, pH 11'
,
'4) 1M KCl, pH 7'
,
'5) 1M KCl, pH 3'
'6) 1M KCl, pH 7'
]
expname
=
'All'
filenames
=
askopenfilenames
()
# show an "Open" dialog box and return the path to the selected file
figIV
=
plt
.
figure
(
2
)
ax1IV
=
figIV
.
add_subplot
(
111
)
for
filename
in
filenames
:
print
(
filename
)
#Make Dir to save images
output
=
uf
.
OpenFile
(
filename
)
directory
=
(
str
(
os
.
path
.
split
(
filename
)[
0
])
+
os
.
sep
+
expname
+
'_SavedImages'
)
if
not
os
.
path
.
exists
(
directory
):
os
.
makedirs
(
directory
)
AllData
=
uf
.
MakeIVData
(
output
,
delay
=
2
)
if
AllData
==
0
:
print
(
'!!!! No Sweep in: '
+
filename
)
continue
#Plot Considered Part
#figExtracteParts = plt.figure(1)
#ax1 = figExtracteParts.add_subplot(211)
#ax2 = figExtracteParts.add_subplot(212, sharex=ax1)
#(ax1, ax2) = uf.PlotExtractedPart(output, AllData, current = 'i1', unit=1e9, axis = ax1, axis2=ax2)
#plt.show()
#figExtracteParts.savefig(directory + os.sep + 'PlotExtracted_' + str(os.path.split(filename)[1])[:-4] + '.eps')
#figExtracteParts.savefig(directory + os.sep + 'PlotExtracted_' + str(os.path.split(filename)[1])[:-4] + '.png', dpi=150)
# Plot IV
if
output
[
'graphene'
]:
figIV2
=
plt
.
figure
(
3
)
ax2IV
=
figIV2
.
add_subplot
(
111
)
ax2IV
=
uf
.
PlotIV
(
output
,
AllData
,
current
=
'i2'
,
unit
=
1e9
,
axis
=
ax2IV
,
WithFit
=
1
)
figIV2
.
tight_layout
()
figIV2
.
savefig
(
directory
+
os
.
sep
+
str
(
os
.
path
.
split
(
filename
)[
1
])
+
'_IV_i2.png'
,
dpi
=
150
)
figIV2
.
savefig
(
directory
+
os
.
sep
+
str
(
os
.
path
.
split
(
filename
)[
1
])
+
'_IV_i2.eps'
)
figIV2
.
clear
()
ax1IV
=
uf
.
PlotIV
(
output
,
AllData
,
current
=
'i1'
,
unit
=
1e9
,
axis
=
ax1IV
,
WithFit
=
0
)
figIV
.
tight_layout
()
#Save Figures
ax1IV
.
legend
()
ax1IV
.
figIV
.
savefig
(
directory
+
os
.
sep
+
str
(
os
.
path
.
split
(
filename
)[
1
])
+
'Merged_IV_i1.png'
,
dpi
=
300
)
figIV
.
savefig
(
directory
+
os
.
sep
+
str
(
os
.
path
.
split
(
filename
)[
1
])
+
'Merged_IV_i1.eps'
)
figIV
.
clear
()
# print(AllData['i2']['YorkFitValues']['Yintercept'])
#plt.show()
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