Skip to content

Upgrade requirements #104

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
pillswor wants to merge 5 commits into
base: master
Choose a base branch
from
Open

Upgrade requirements #104

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
5 commits
Select commit Hold shift + click to select a range
0ef63ac
Upgrade requirements
pillswor May 13, 2026
3b76ab2
oopsie file placement correction
pillswor May 14, 2026
16d88ca
Delete filfinderPPP.py
pillswor May 14, 2026
7cfad92
Update fil_finder/filfinderPPP.py
pillswor May 14, 2026
e2314bd
Update setup.cfg
pillswor May 14, 2026
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
7 changes: 4 additions & 3 deletions fil_finder/filfinderPPP.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -106,7 +106,7 @@ def create_mask(self, adapt_thresh=9, glob_thresh=0.0,
recomputing the mask.

Attributes
----------
-------
mask : numpy.ndarray
The mask of the filaments.

Expand Down Expand Up @@ -155,8 +155,9 @@ def create_mask(self, adapt_thresh=9, glob_thresh=0.0,
close = mo.closing(dilate)

# Don't allow small holes: these lead to "shell"-shaped skeleton features
mo.remove_small_objects(close, min_size=min_object_size, connectivity=1, in_place=True)
mo.remove_small_holes(close, area_threshold=max_hole_size, connectivity=1, in_place=True)
close = mo.remove_small_objects(close, min_size=min_object_size, connectivity=1)
mo.remove_small_holes(close, area_threshold=max_hole_size, connectivity=1)


self.mask = close

Expand Down
6 changes: 3 additions & 3 deletions setup.cfg
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -22,9 +22,9 @@ install_requires =
networkx
scipy
matplotlib
scikit-image
scikit-image>=0.20.0
h5py
skan
skan>=0.11.0
numba
pandas

Expand All @@ -47,7 +47,7 @@ testpaths = "fil_finder" "docs"
astropy_header = true
doctest_plus = enabled
text_file_format = rst
addopts = -p no:warnings
addopts = -p no:warnings

[coverage:run]
omit =
Expand Down
Loading