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Harouna-Mayer, Sani
SHM_2024_Cu3PdN
Commits
34265f8e
Commit
34265f8e
authored
9 months ago
by
Harouna-Mayer, Sani
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34265f8e
import
os
from
glob
import
glob
import
numpy
as
np
import
subprocess
import
matplotlib.pyplot
as
plt
from
scipy.optimize
import
curve_fit
,
minimize_scalar
def
find_idx
(
arr
,
a
):
return
(
np
.
abs
(
np
.
array
(
arr
)
-
a
)).
argmin
()
def
save_xy
(
fname
,
x
,
y
,
header
=
''
):
np
.
savetxt
(
fname
,
np
.
vstack
((
x
,
y
)).
T
,
header
=
header
,
comments
=
'
#
'
)
return
def
load_xy
(
fname
,
skiprows
=
0
):
data
=
np
.
loadtxt
(
fname
,
skiprows
=
skiprows
).
T
x
=
data
[
0
]
y
=
data
[
1
]
return
x
,
y
def
q2tt
(
q
,
energy
):
"""
q: array or float, [A-1]; energy: [keV]
"""
wl
=
12.39842
/
energy
tt
=
2
*
180
/
np
.
pi
*
np
.
arcsin
(
q
*
wl
/
4
/
np
.
pi
)
return
tt
def
tt2q
(
tt
,
energy
):
"""
q: array or float, [A-1]; energy: [keV]
"""
wl
=
12.39842
/
energy
q
=
4
*
np
.
pi
/
wl
*
np
.
sin
(
tt
/
2
*
np
.
pi
/
180
)
return
q
def
convertpattern_q2tt
(
fname
,
energy
,
skiprows
=
0
,
dtype_out
=
"
xy
"
):
x
,
y
=
load_xy
(
fname
,
skiprows
=
skiprows
)
x
=
q2tt
(
x
,
energy
=
energy
)
dtype
=
fname
.
split
(
"
.
"
)[
-
1
]
fname_out
=
fname
[:
-
(
len
(
dtype
)
+
1
)]
+
"
_in_tt.
"
+
dtype_out
save_xy
(
fname_out
,
x
,
y
,
header
=
"
converted from q to two theta, energy = {} keV
\n
two theta intensity
"
.
format
(
energy
))
return
def
convertpattern_tt2q
(
fname
,
energy
,
skiprows
=
0
,
dtype_out
=
"
xy
"
):
x
,
y
=
load_xy
(
fname
,
skiprows
=
skiprows
)
x
=
tt2q
(
x
,
energy
=
energy
)
dtype
=
fname
.
split
(
"
.
"
)[
-
1
]
fname_out
=
fname
[:
-
(
len
(
dtype
)
+
1
)]
+
"
_in_q.
"
+
dtype_out
save_xy
(
fname_out
,
x
,
y
,
header
=
"
converted from two theta to q, energy = {} keV
\n
two theta intensity
"
.
format
(
energy
))
return
def
avg
(
path2data
,
dtype
=
"
.dat
"
,
fname_timetemp
=
""
,
temp0
=
30
,
avg_num
=
60
,
overwrite
=
False
):
fnames
=
glob
(
os
.
path
.
join
(
path2data
,
'
*
'
+
dtype
))
fnames
.
sort
()
path2avg
=
os
.
path
.
join
(
os
.
path
.
dirname
(
os
.
path
.
dirname
(
path2data
)),
"
avg{}_iqs
"
.
format
(
avg_num
),
os
.
path
.
basename
(
path2data
))
if
not
os
.
path
.
isdir
(
path2avg
):
os
.
makedirs
(
path2avg
)
timetempdir
=
"
time_vs_temp
"
if
not
fname_timetemp
:
fname_timetemp
=
os
.
path
.
join
(
os
.
path
.
dirname
(
path2data
),
timetempdir
,
"
timetemps_
"
+
os
.
path
.
basename
(
path2data
)
+
"
.txt
"
)
times
,
temps
=
load_xy
(
fname_timetemp
)
idx0
=
find_idx
(
temps
,
temp0
)
idxend
=
-
((
len
(
fnames
)
-
idx0
)
%
avg_num
)
print
(
"
average {} from file idx {} to {}
"
.
format
(
os
.
path
.
basename
(
path2avg
),
idx0
,
idxend
))
temps_crop
=
temps
[
idx0
:
idxend
:
avg_num
]
fnames_crop
=
fnames
[
idx0
:
idxend
]
# cut before idx0 and every pattern which doesnt have enough for time resolution
for
temp
,
fnames_to_avg
in
zip
(
temps_crop
,
np
.
reshape
(
fnames_crop
,
(
int
(
len
(
fnames_crop
)
/
avg_num
),
avg_num
))):
fname_avg
=
os
.
path
.
join
(
path2avg
,
os
.
path
.
basename
(
fnames_to_avg
[
0
][:
-
len
(
dtype
)])
+
"
_avg_
"
+
str
(
avg_num
)
+
dtype
)
if
os
.
path
.
isfile
(
fname_avg
)
and
not
overwrite
:
print
(
"
skippidiskippy
"
)
continue
else
:
y_avgs
=
[]
for
fname
in
fnames_to_avg
:
x
,
y
=
load_xy
(
fname
)
y_avgs
.
append
(
y
)
y_avg
=
np
.
mean
(
y_avgs
,
axis
=
0
)
header
=
'
averaged {} files
\n
'
.
format
(
avg_num
)
header
+=
'
from path: {}
\n
to {}
\n
'
.
format
(
path2data
,
path2avg
)
header
+=
'
temperature (°C): {}
\n
'
.
format
(
temp
)
header
+=
'
q (A^-1) I (a.u.)
'
save_xy
(
fname_avg
,
x
,
y_avg
,
header
=
header
)
# print(fname_avg)
return
def
avg_all_in_dir
(
parentdir
,
overwrite
=
False
):
subdirs
=
[
os
.
path
.
join
(
parentdir
,
subdir
)
for
subdir
in
os
.
listdir
(
parentdir
)
\
if
os
.
path
.
isdir
(
os
.
path
.
join
(
parentdir
,
subdir
))]
timetempdir
=
"
time_vs_temp
"
skipsubdirs
=
[
os
.
path
.
join
(
parentdir
,
timetempdir
)]
for
skipsubdir
in
skipsubdirs
:
subdirs
.
remove
(
skipsubdir
)
for
dir
in
subdirs
:
avg
(
dir
,
overwrite
=
overwrite
)
return
def
bkg_sub
(
path2data
,
path2bkg
,
path2sub
=
""
,
x_range
=
[
1.05
,
1.35
],
dtype
=
"
.dat
"
,
fancyapproach
=
False
,
bkgscale
=
1.0
):
if
not
path2sub
:
path2sub
=
os
.
path
.
join
(
os
.
path
.
dirname
(
os
.
path
.
dirname
(
path2data
)),
"
bkgsub_iqs
"
,
os
.
path
.
basename
(
path2data
))
if
not
os
.
path
.
isdir
(
path2sub
):
os
.
makedirs
(
path2sub
)
fnames
=
glob
(
os
.
path
.
join
(
path2data
,
'
*
'
+
dtype
))
fnames
.
sort
()
fnames_bkg
=
glob
(
os
.
path
.
join
(
path2bkg
,
'
*
'
+
dtype
))
fnames_bkg
.
sort
()
for
i
in
range
(
len
(
fnames
)
-
len
(
fnames_bkg
)):
fnames_bkg
.
append
(
fnames_bkg
[
-
1
])
x0
,
y0
=
load_xy
(
fnames
[
0
])
idx_range
=
[
find_idx
(
x0
,
xi
)
for
xi
in
x_range
]
scale_approach_value
=
0.00001
from
scipy.optimize
import
minimize_scalar
def
initial_scale
(
y1
,
y2
):
def
func
(
s
):
return
np
.
mean
(
abs
(
y1
-
s
*
y2
))
res
=
minimize_scalar
(
func
)
return
res
[
'
x
'
]
for
fname
,
fname_bkg
in
zip
(
fnames
,
fnames_bkg
):
x
,
y
=
load_xy
(
fname
)
x_bkg
,
y_bkg
=
load_xy
(
fname_bkg
)
with
open
(
fname
,
'
r
'
)
as
f
:
temp
=
float
(
f
.
readlines
()[
3
].
split
()[
-
1
])
if
fancyapproach
:
# here fancy subtracton by finding scale so in the givin area background goes as close to zero as possible without beeing negative
s
=
initial_scale
(
y
[
idx_range
[
0
]:
idx_range
[
1
]],
y_bkg
[
idx_range
[
0
]:
idx_range
[
1
]])
# s = round(s, len(str(scale_approach_value).split('.')[1]))
# s = round(s, abs(int(np.log10(scale_approach_value))))
y_sub
=
y
-
s
*
y_bkg
if
np
.
any
(
y_sub
[
idx_range
[
0
]:
idx_range
[
1
]]
<=
0.0
):
while
np
.
any
(
y_sub
[
idx_range
[
0
]:
idx_range
[
1
]]
<=
0.0
):
s
-=
scale_approach_value
y_sub
=
y
-
s
*
y_bkg
else
:
while
np
.
all
(
y_sub
[
idx_range
[
0
]:
idx_range
[
1
]]
>
0.0
):
s
+=
scale_approach_value
y_sub
=
y
-
s
*
y_bkg
s
-=
scale_approach_value
header
=
'
background subtraction by minimizing background subtracted file but not going below 0 between
\n
'
header
+=
'
q > {} and q < {} A^-1
\n
'
.
format
(
*
x_range
)
header
+=
'
scale: {} ±{}
\n
'
.
format
(
s
,
scale_approach_value
)
header
+=
'
temperature (°C): {}
\n
'
.
format
(
temp
)
header
+=
'
unsubtracted file: {}
\n
'
.
format
(
fname
)
header
+=
'
background file: {}
\n
'
.
format
(
fname_bkg
)
header
+=
'
q (A^-1) I (a.u.)
'
else
:
# for fixed bkg scale
s
=
bkgscale
y_sub
=
y
-
s
*
y_bkg
header
=
'
normal background subtraction
\n
'
header
+=
'
\n
'
.
format
(
*
x_range
)
header
+=
'
scale: {}
\n
'
.
format
(
s
)
header
+=
'
temperature (°C): {}
\n
'
.
format
(
temp
)
header
+=
'
unsubtracted file: {}
\n
'
.
format
(
fname
)
header
+=
'
background file: {}
\n
'
.
format
(
fname_bkg
)
header
+=
'
q (A^-1) I (a.u.)
'
fname_sub
=
os
.
path
.
join
(
path2sub
,
os
.
path
.
basename
(
fname
[:
-
len
(
dtype
)])
+
"
_bkgsub
"
+
dtype
)
save_xy
(
fname_sub
,
x
,
y_sub
,
header
=
header
)
return
def
make_pdf
(
fname_iq
,
fname_gr
,
composition
,
qmin
,
qmax
,
qmax_inst
,
rpoly
,
rmax
=
30.0
):
command
=
[
'
pdfgetx3
'
,
str
(
fname_iq
),
'
--force=True
'
,
'
--format=QA
'
,
'
--mode=xray
'
,
'
--composition=
'
+
str
(
composition
),
'
--qmin=
'
+
str
(
qmin
),
'
--qmax=
'
+
str
(
qmax
),
'
--qmaxinst=
'
+
str
(
qmax_inst
),
'
--rpoly=
'
+
str
(
rpoly
),
'
--rmax=
'
+
str
(
rmax
),
'
-t=gr
'
,
'
-o=
'
+
str
(
fname_gr
),
]
subprocess
.
run
(
command
)
return
def
make_pdf_all_in_dir
(
path2data
,
path2pdf
=
""
,
dtype
=
"
.dat
"
,
composition
=
"
Cu3PdN
"
,
qmin
=
0.7
,
qmax
=
10.3
,
qmax_inst
=
24.0
,
rpoly
=
0.9
,
rmax
=
30.0
):
print
(
path2data
)
if
not
path2pdf
:
path2pdf
=
os
.
path
.
join
(
os
.
path
.
dirname
(
os
.
path
.
dirname
(
path2data
)),
"
pdfs
"
,
os
.
path
.
basename
(
path2data
))
if
not
os
.
path
.
isdir
(
path2pdf
):
os
.
makedirs
(
path2pdf
)
fnames
=
glob
(
os
.
path
.
join
(
path2data
,
'
*
'
+
dtype
))
fnames
.
sort
()
for
fname_iq
in
fnames
:
fname_gr
=
os
.
path
.
join
(
path2pdf
,
os
.
path
.
basename
(
fname_iq
)[:
-
len
(
dtype
)]
+
"
.gr
"
)
make_pdf
(
fname_iq
,
fname_gr
,
composition
=
composition
,
qmin
=
qmin
,
qmax
=
qmax
,
qmax_inst
=
qmax_inst
,
rpoly
=
rpoly
,
rmax
=
rmax
)
# print(os.path.basename(fname_gr))
print
(
path2pdf
)
return
def
bkg_sub_n_makepdf_fitglasspeak
(
fname_data
,
fname_bkg
,
fname_bkgsub
,
fname_gr
):
# fname_bkg = "/Users/admin/data/23_bt_2304_accell/avg60_iqs/bkg_bnh2_140_sdd600/bkg_bnh2_140_sdd600-01848_avg_60.dat"
# fname_data = "/Users/admin/data/23_bt_2304_accell/avg60_iqs/cupdn_140_3_sdd600/cupdn_140_3_sdd600-03734_avg_60.dat"
# fname_bkgsub = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/cupdn_140_3_sdd600_glassfit/cupdn_140_3_sdd600-06914_avg_60.dat"
# fname_gr = "/Users/admin/data/23_bt_2304_accell/pdfs/cupdn_140_3_sdd600_glassfit/cupdn_140_3_sdd600-06914_avg_60.gr"
if
not
os
.
path
.
isdir
(
os
.
path
.
dirname
(
fname_bkgsub
)):
os
.
makedirs
(
os
.
path
.
dirname
(
fname_bkgsub
))
if
not
os
.
path
.
isdir
(
os
.
path
.
dirname
(
fname_gr
)):
os
.
makedirs
(
os
.
path
.
dirname
(
fname_gr
))
q
,
i_bkg
=
load_xy
(
fname_bkg
)
q
,
i_data
=
load_xy
(
fname_data
)
r_min
=
1.2
r_max
=
1.8
s_arr
=
[]
a_arr
=
[]
x0_arr
=
[]
fwhm_arr
=
[]
m_arr
=
[]
y0_arr
=
[]
def
scale
():
def
gaussian
(
x
,
x0
,
a
,
fwhm
,
m
,
y0
):
return
a
*
np
.
exp
(
-
(
x
-
x0
)
**
2
/
2
/
(
fwhm
/
2.35482
)
**
2
)
+
m
*
x
+
y0
def
func
(
s
):
save_xy
(
fname_bkgsub
,
q
,
i_data
-
i_bkg
*
s
)
# make_pdf(fname_bkgsub, fname_gr, "Cu3PdN", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
make_pdf
(
fname_bkgsub
,
fname_gr
,
"
Cu3PdN
"
,
qmin
=
0.4
,
qmax
=
10.3
,
qmax_inst
=
17.5
,
rpoly
=
0.9
)
r
,
g
=
load_xy
(
fname_gr
,
skiprows
=
23
)
idx_min
=
find_idx
(
r
,
r_min
)
idx_max
=
find_idx
(
r
,
r_max
)
initial_guess
=
[
1.6
,
0.1
,
0.5
,
0.1
,
-
3.0
]
nobound
=
(
-
np
.
inf
,
np
.
inf
)
restraints
=
np
.
array
([(
1.5
,
1.7
),
(
0.0
,
np
.
inf
),
(
0.3
,
0.8
),
(
-
1
,
1
),
nobound
]).
T
popt
,
pcov
=
curve_fit
(
gaussian
,
r
[
idx_min
:
idx_max
+
1
],
g
[
idx_min
:
idx_max
+
1
],
p0
=
initial_guess
,
bounds
=
restraints
)
a
=
popt
[
1
]
a_err
=
np
.
sqrt
(
pcov
[
1
,
1
])
s_arr
.
append
(
s
)
x0_arr
.
append
(
popt
[
0
])
a_arr
.
append
(
popt
[
1
])
fwhm_arr
.
append
(
popt
[
2
])
m_arr
.
append
(
popt
[
3
])
y0_arr
.
append
(
popt
[
4
])
return
a
res
=
minimize_scalar
(
func
)
return
res
[
'
x
'
]
s
=
scale
()
# print(s)
with
open
(
fname_data
,
'
r
'
)
as
f
:
temp
=
float
(
f
.
readlines
()[
3
].
split
()[
-
1
])
header
=
'
glassfit background subtraction
\n
'
header
+=
'
scale: {}
\n
'
.
format
(
s
)
header
+=
'
temperature (°C): {}
\n
'
.
format
(
temp
)
header
+=
'
unsubtracted file: {}
\n
'
.
format
(
fname_data
)
header
+=
'
background file: {}
\n
'
.
format
(
fname_bkg
)
header
+=
'
q (A^-1) I (a.u.)
'
save_xy
(
fname_bkgsub
,
q
,
i_data
-
i_bkg
*
s
)
# make_pdf(fname_bkgsub, fname_gr, "Cu3PdN", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
make_pdf
(
fname_bkgsub
,
fname_gr
,
"
Cu3PdN
"
,
qmin
=
0.4
,
qmax
=
10.3
,
qmax_inst
=
17.5
,
rpoly
=
0.9
)
# r, g = load_xy(fname_gr, skiprows=23)
#
# fit_dict = {
# "s": {"values": s_arr},
# "a": {"values": a_arr},
# "x0": {"values": x0_arr},
# "fwhm": {"values": fwhm_arr},
# "m": {"values": m_arr},
# "y0": {"values": y0_arr},
# }
#
# def key_ax(ax, key):
# ax.plot(fit_dict[key]["values"], label=key)
# ax.set_xlabel("iteration")
# ax.set_ylabel(key)
# return ax
#
# keys = ["s", "a", "x0", "fwhm", "m", "y0"]
# figsize = (6, 2 * len(keys))
# fig, axs = plt.subplots(len(keys), 1, sharex=True, sharey=False, gridspec_kw={'hspace': 0}, figsize=figsize)
# lines = []
# labels = []
# for i, keys in enumerate(keys):
# axs[i] = key_ax(axs[i], keys)
# axs[i].legend(frameon=False)
# # lines_i, labels_i = axs[i].get_legend_handles_labels()
# # [lines.append(line) for line in lines_i if line not in lines]
# # [labels.append(label) for label in labels_i if label not in labels]
# # axs[0].legend(lines, labels, loc='best', frameon=False)
# fig.align_ylabels()
# plt.show()
#
# plt.plot(r, g)
# plt.xlim(0, 7.5)
# plt.title(s)
# plt.show()
return
s
def
bkg_sub_n_makepdf_all_in_dir_glassfit
(
path2data
,
path2bkg
,
path2sub
=
""
,
path2pdf
=
""
,
dtype
=
"
.dat
"
):
if
not
path2sub
:
path2sub
=
os
.
path
.
join
(
os
.
path
.
dirname
(
os
.
path
.
dirname
(
path2data
)),
"
bkgsub_iqs
"
,
os
.
path
.
basename
(
path2data
)
+
"
_glassfit
"
)
if
not
os
.
path
.
isdir
(
path2sub
):
os
.
makedirs
(
path2sub
)
if
not
path2pdf
:
path2pdf
=
os
.
path
.
join
(
os
.
path
.
dirname
(
os
.
path
.
dirname
(
path2data
)),
"
pdfs
"
,
os
.
path
.
basename
(
path2data
)
+
"
_glassfit
"
)
if
not
os
.
path
.
isdir
(
path2pdf
):
os
.
makedirs
(
path2pdf
)
fnames
=
glob
(
os
.
path
.
join
(
path2data
,
'
*
'
+
dtype
))
fnames
.
sort
()
fnames_bkg
=
glob
(
os
.
path
.
join
(
path2bkg
,
'
*
'
+
dtype
))
fnames_bkg
.
sort
()
for
i
in
range
(
len
(
fnames
)
-
len
(
fnames_bkg
)):
fnames_bkg
.
append
(
fnames_bkg
[
-
1
])
s_arr
=
[]
for
fname
,
fname_bkg
in
zip
(
fnames
,
fnames_bkg
):
print
(
fname
)
fname_bkgsub
=
os
.
path
.
join
(
path2sub
,
os
.
path
.
basename
(
fname
[:
-
len
(
dtype
)])
+
"
_bkgsub
"
+
dtype
)
fname_gr
=
os
.
path
.
join
(
path2pdf
,
os
.
path
.
basename
(
fname
[:
-
len
(
dtype
)])
+
"
.gr
"
)
s
=
bkg_sub_n_makepdf_fitglasspeak
(
fname
,
fname_bkg
,
fname_bkgsub
,
fname_gr
)
s_arr
.
append
(
s
)
plt
.
plot
(
s_arr
)
plt
.
ylabel
(
"
scale
"
)
plt
.
xlabel
(
"
time (min)
"
)
plt
.
show
()
def
bkg_sub_n_makepdf_bymaxint
(
fname_data
,
fname_bkg
,
fname_bkgsub
,
fname_gr
):
if
not
os
.
path
.
isdir
(
os
.
path
.
dirname
(
fname_bkgsub
)):
os
.
makedirs
(
os
.
path
.
dirname
(
fname_bkgsub
))
if
not
os
.
path
.
isdir
(
os
.
path
.
dirname
(
fname_gr
)):
os
.
makedirs
(
os
.
path
.
dirname
(
fname_gr
))
q
,
i_bkg
=
load_xy
(
fname_bkg
)
q
,
i_data
=
load_xy
(
fname_data
)
r_min
=
1.9
r_max
=
4.0
def
scale
():
def
func
(
s
):
save_xy
(
fname_bkgsub
,
q
,
i_data
-
i_bkg
*
s
)
# make_pdf(fname_bkgsub, fname_gr, "Cu3PdN", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
make_pdf
(
fname_bkgsub
,
fname_gr
,
"
Cu3PdN
"
,
qmin
=
0.4
,
qmax
=
10.3
,
qmax_inst
=
17.5
,
rpoly
=
0.9
)
r
,
g
=
load_xy
(
fname_gr
,
skiprows
=
23
)
idx_min
=
find_idx
(
r
,
r_min
)
idx_max
=
find_idx
(
r
,
r_max
)
return
-
np
.
max
(
g
[
idx_min
:
idx_max
])
res
=
minimize_scalar
(
func
)
return
res
[
'
x
'
]
s
=
scale
()
print
(
s
)
with
open
(
fname_data
,
'
r
'
)
as
f
:
temp
=
float
(
f
.
readlines
()[
3
].
split
()[
-
1
])
header
=
'
max pdf intensity (between {} adn {} A^-1) background subtraction
\n
'
.
format
(
r_min
,
r_max
)
header
+=
'
scale: {}
\n
'
.
format
(
s
)
header
+=
'
temperature (°C): {}
\n
'
.
format
(
temp
)
header
+=
'
unsubtracted file: {}
\n
'
.
format
(
fname_data
)
header
+=
'
background file: {}
\n
'
.
format
(
fname_bkg
)
header
+=
'
q (A^-1) I (a.u.)
'
save_xy
(
fname_bkgsub
,
q
,
i_data
-
i_bkg
*
s
)
make_pdf
(
fname_bkgsub
,
fname_gr
,
"
Cu3PdN
"
,
qmin
=
0.4
,
qmax
=
10.3
,
qmax_inst
=
17.5
,
rpoly
=
0.9
)
return
s
def
bkg_sub_n_makepdf_all_in_dir_baymaxint
(
path2data
,
path2bkg
,
path2sub
=
""
,
path2pdf
=
""
,
dtype
=
"
.dat
"
):
if
not
path2sub
:
path2sub
=
os
.
path
.
join
(
os
.
path
.
dirname
(
os
.
path
.
dirname
(
path2data
)),
"
bkgsub_iqs
"
,
os
.
path
.
basename
(
path2data
)
+
"
_bymaxint
"
)
if
not
os
.
path
.
isdir
(
path2sub
):
os
.
makedirs
(
path2sub
)
if
not
path2pdf
:
path2pdf
=
os
.
path
.
join
(
os
.
path
.
dirname
(
os
.
path
.
dirname
(
path2data
)),
"
pdfs
"
,
os
.
path
.
basename
(
path2data
)
+
"
_bymaxint
"
)
if
not
os
.
path
.
isdir
(
path2pdf
):
os
.
makedirs
(
path2pdf
)
fnames
=
glob
(
os
.
path
.
join
(
path2data
,
'
*
'
+
dtype
))
fnames
.
sort
()
fnames_bkg
=
glob
(
os
.
path
.
join
(
path2bkg
,
'
*
'
+
dtype
))
fnames_bkg
.
sort
()
for
i
in
range
(
len
(
fnames
)
-
len
(
fnames_bkg
)):
fnames_bkg
.
append
(
fnames_bkg
[
-
1
])
s_arr
=
[]
for
fname
,
fname_bkg
in
zip
(
fnames
,
fnames_bkg
):
print
(
fname
)
fname_bkgsub
=
os
.
path
.
join
(
path2sub
,
os
.
path
.
basename
(
fname
[:
-
len
(
dtype
)])
+
"
_bkgsub
"
+
dtype
)
fname_gr
=
os
.
path
.
join
(
path2pdf
,
os
.
path
.
basename
(
fname
[:
-
len
(
dtype
)])
+
"
.gr
"
)
s
=
bkg_sub_n_makepdf_bymaxint
(
fname
,
fname_bkg
,
fname_bkgsub
,
fname_gr
)
s_arr
.
append
(
s
)
plt
.
plot
(
s_arr
)
plt
.
ylabel
(
"
scale
"
)
plt
.
xlabel
(
"
time (min)
"
)
plt
.
show
()
path2data
=
"
/Users/admin/Wolke/data/23_bt_2304_accell/avg60_iqs/cupdn_140_3_sdd600
"
path2bkg
=
"
/Users/admin/Wolke/data/23_bt_2304_accell/avg60_iqs/bkg_bnh2_140_sdd600
"
path2sub
=
"
/Users/admin/Wolke/data/23_bt_2304_accell/bkgsub_iqs/cupdn_140_3_sdd600_bymaxint
"
path2pdf
=
"
/Users/admin/Wolke/data/23_bt_2304_accell/pdfs/cupdn_140_3_sdd600_bymaxint
"
bkg_sub_n_makepdf_all_in_dir_baymaxint
(
path2data
,
path2bkg
)
def
avg_specific
(
path2data
,
dtype
=
"
.dat
"
,
avg_startnum
=
0
,
avg_endnum
=
120
):
fnames
=
glob
(
os
.
path
.
join
(
path2data
,
'
*
'
+
dtype
))
fnames
.
sort
()
path2avg
=
"
/Users/admin/data/23_bt_2304_accell/abcheckauis/starting_point_wobkgsub/iqs
"
avg_num
=
avg_endnum
-
avg_startnum
fnames_to_avg
=
fnames
[
avg_startnum
:
avg_endnum
]
fname_avg
=
os
.
path
.
join
(
path2avg
,
os
.
path
.
basename
(
fnames_to_avg
[
0
][:
-
len
(
dtype
)])
+
"
_avg_
"
+
str
(
avg_num
)
+
dtype
)
y_avgs
=
[]
for
fname
in
fnames_to_avg
:
x
,
y
=
load_xy
(
fname
)
y_avgs
.
append
(
y
)
y_avg
=
np
.
mean
(
y_avgs
,
axis
=
0
)
header
=
'
averaged {} files
\n
'
.
format
(
avg_num
)
header
+=
'
from path: {}
\n
to {}
\n
'
.
format
(
path2data
,
path2avg
)
header
+=
'
q (A^-1) I (a.u.)
'
save_xy
(
fname_avg
,
x
,
y_avg
,
header
=
header
)
# datadirdir = "/Users/admin/data/23_bt_2304_accell/raw_iqs/"
# dir = "sh_pdn_180_1"
# path2data = os.path.join(datadirdir, dir)
# avg_specific(path2data)
# path2data = "/Users/admin/data/23_bt_2304_accell/raw_iqs/bkg_bnh2_160_1"
# avg(path2data, overwrite=True)
# path2bkg = "/Users/admin/data/23_bt_2304_accell/raw_iqs/cufen_160_1"
# avg(path2bkg, overwrite=True)
# bkg_sub_n_makepdf_all_in_dir_glassfit("/Users/admin/data/23_bt_2304_accell/avg60_iqs/cufen_160_1", "/Users/admin/data/23_bt_2304_accell/avg60_iqs/bkg_bnh2_160_1")
print
(
'
kukuk
'
)
# path2bkg = "/Users/admin/data/23_bt_2304_accell/raw_iqs/lk_bg_fe3s4_180_1"
# avg(path2bkg, overwrite=True)
# path2data = "/Users/admin/data/23_bt_2304_accell/raw_iqs/lk_fe3s4_180_1"
# avg(path2data, overwrite=True)
# bkg_sub_n_makepdf_all_in_dir_glassfit("/Users/admin/data/23_bt_2304_accell/avg60_iqs/lk_fe3s4_180_1", "/Users/admin/data/23_bt_2304_accell/avg60_iqs/lk_bg_fe3s4_180_1")
# path2bkg = "/Users/admin/data/23_bt_2304_accell/raw_iqs/lk_bg_fe3s4_100_1"
# avg(path2bkg, overwrite=True)
# path2data = "/Users/admin/data/23_bt_2304_accell/raw_iqs/lk_fe3s4_100_1"
# avg(path2data, overwrite=True)
# bkg_sub_n_makepdf_all_in_dir_glassfit("/Users/admin/data/23_bt_2304_accell/avg60_iqs/lk_fe3s4_100_1", "/Users/admin/data/23_bt_2304_accell/avg60_iqs/lk_bg_fe3s4_100_1")
# path2bkg = "/Users/admin/data/23_bt_2304_accell/avg60_iqs/bkg_bnh2_140_sdd600"
# path2data = "/Users/admin/data/23_bt_2304_accell/avg60_iqs/cupdn_140_3_sdd600"
# bkg_sub(path2data, path2bkg, fancyapproach=False, bkgscale=1.0)
# path2data = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/cupdn_140_3_sdd600"
# make_pdf_all_in_dir(path2data, composition="Cu3PdN", qmin=0.4, qmax=10.3, qmax_inst=17.5, rpoly=0.9)
# path2data = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/cu3n_140_1"
# make_pdf_all_in_dir(path2data, composition="Cu3N", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
# path2data = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/cu3n_140_2"
# make_pdf_all_in_dir(path2data, composition="Cu3N", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
# path2data = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/cupdn_140_1"
# make_pdf_all_in_dir(path2data, composition="Cu3PdN", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
# path2data = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/cupdn_140_2"
# make_pdf_all_in_dir(path2data, composition="Cu3PdN", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
# path2data = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/sh_pdn_140_2"
# make_pdf_all_in_dir(path2data, composition="Pd", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
# make_pdf("/Users/admin/data/23_bt_2304_accell/calibauis/lab6_ac_cell_385-00067.dat",
# "/Users/admin/data/23_bt_2304_accell/calibauis/lab6_ac_cell_385-00067.dat",
# composition="LaB6", qmin=0.7, qmax=10.3, qmax_inst=24.0, rpoly=0.9)
# path2data = "/Users/admin/data/23_bt_2304_accell/bkgsub_iqs/cupdn_140_3_sdd600"
# path2pdf = "/Users/admin/data/23_bt_2304_accell/pdfs/cupdn_140_3_sdd600_qmax16p3"
# make_pdf_all_in_dir(path2data, composition="Cu3PdN", qmin=0.7, qmax=16.3, qmax_inst=18.3, rpoly=0.9)
#
# make_pdf("/Users/admin/data/23_bt_2304_accell/calibauis/lab6_ac_cell_385-00067.dat",
# "/Users/admin/data/23_bt_2304_accell/calibauis/lab6_ac_cell_385-00067_qmax16p3.gr",
# composition="LaB6", qmin=0.7, qmax=16.3, qmax_inst=18.3, rpoly=0.9)
print
(
'
hi
'
)
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