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fix to allow reading of ND2-files with missing frames, due to e.g. skipping z-positions in one channel of a multichannel image; based on most recent commit of master
zolfa-add_slices_loading
unknown
5 years ago
parent
faa495ecdb
commit
1fed0c1fb1
1 changed files
with
7 additions
and
1 deletions
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+7
-1
nd2reader/parser.py
+ 7
- 1
nd2reader/parser.py
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@ -283,7 +283,13 @@ class Parser(object):
if
np
.
any
(
image_data
)
:
return
timestamp
,
Frame
(
image_data
,
metadata
=
self
.
_get_frame_metadata
(
)
)
raise
NoImageError
# If a blank "gap" image is encountered, generate an empty frame (black image) of corresponding height and width to avoid
# errors with ND2-files with missing frames.
else
:
empty_frame
=
np
.
zeros
(
[
height
,
width
]
)
return
timestamp
,
Frame
(
empty_frame
,
metadata
=
self
.
_get_frame_metadata
(
)
)
# raise NoImageError # <-- delete?
def
_get_frame_metadata
(
self
)
:
"""
Get the metadata for one frame
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