Guillaume Raffy
4932427663
display sequence will now allow the loading of sequences with missing frames
...
Sequences with missing frames are not uncommon in the raw images that were collected at soleil. I beleive that these missing frames are caused by the sequence captures that are stopped, resting in missing frames at the end compared to what was planned....
fixes #10
2022-01-26 22:25:42 +01:00
Guillaume Raffy
2acff0f175
display sequence now presents the list of sequences in a sorted way
2022-01-26 18:47:33 +01:00
Guillaume Raffy
6882b4af35
display sequence now gives a title to the images it opens.
...
This make it easier to select images in combo boxes
2022-01-26 18:11:17 +01:00
Guillaume Raffy
d5f948d304
the channel chooser of `Display Sequence` plugin is now properly populated at startup
...
fixes #9
2022-01-25 17:11:27 +01:00
Guillaume Raffy
5b107236c9
Handle the case where the user selects a Pos<n> directory as raw image root
...
- although a Pos<n> directory as raw image root is disputable, before this fix, an assert failed which was not very nice...
2022-01-25 16:16:31 +01:00
Guillaume Raffy
ebcfb1747f
raw images root path now supports directory paths that contain non ascii characters
2022-01-25 15:40:53 +01:00
Guillaume Raffy
dbc22ea3b1
Display Sequence now displays an informative messagebox inseatd of crashing when the list of sequence is empty
...
fixes #7
2022-01-25 12:33:09 +01:00
Guillaume Raffy
f686d89204
imagej's headless regression no longer causes tests to fail (as these failures only happen in headless mode, see issue #6 )
...
also added a logging mechanism to reduce stdout pollution (printing to stdout doesn't play nicely with python's unittest mechanism)
2022-01-25 07:44:23 +01:00
e397e3aa0f
added a preprocess sequence plugin
...
This was requested by Claire Bourlieu to ease the preprocessing. This preprocessing could easily be done manuelly with Fiji but a bit tedious...
2020-11-04 19:37:14 +01:00
ad18e2e451
more work on graffy/lipase#3 : added a plugin to detect globules based on circular symmetry.
...
- the detection is not great at the moment (15 globules detected amongst the 50), because:
1. the parameters are probably not optimal
2. the mask used is incomplete
3. some particules are very difficult to detect anyway
- added documentation
- still need some more work:
1 output the radius of detected particles
2. analyse why detection is not optimal
3. handle weights w_r and w_a
4. filter out radial profiles that are not expected
5. improve the computation of the peakness s_p
v1.02
2020-04-17 19:30:48 +02:00
d382139a0d
fixed bug introduced today that caused the package file to not contain jars/Lib/fr.univ-rennes1.ipr.lipase.lib.jar
2020-04-10 17:21:12 +02:00
595fc09571
moved the build files outside the repository
...
In order to prevent pollution of repository with temporary files, the build files can now be where the user wants via BUILD_ROOT_PATH makefile variable.
2020-04-10 15:14:33 +02:00
13eb92c76e
allows the user to choose the location of the tests output data
...
This prevents pollution of git repository with temporary files and is done via a makefile variable TESTS_OUTPUT_DATA_PATH.
2020-04-10 13:26:05 +02:00
e8b1e331fe
added a function that creates an image containing a circle
...
this function will be used for to complete #3
2020-04-02 15:52:43 +02:00
e3ab3b6140
v1.01 : added the "Ipr/Lipase/Compute Globules Area" plugin
...
fixes #2
2020-03-27 16:49:21 +01:00
57c594cf4d
added documentation
2020-03-18 16:26:32 +01:00
68e2c82eae
improved documentation:
...
- fixed markdown issues
- added minutes for today's meeting
- now make clean also cleans the documentation temporary files
2020-02-14 18:27:30 +01:00
f96b4a8ff6
fixed bug that caused make install to not updating the package when plugiins change
2019-10-08 17:52:30 +02:00
1919e67e8c
fixed bug that caused make install to fail on an existing install
2019-10-08 16:41:30 +02:00
38b5d2c6fb
fixed bug in makefile that caused the lipase package to have absolute paths instead of relative paths
2019-10-07 12:05:25 +02:00
8c3a5b0d72
lipase is now released as a package on an owncloud directory
...
This will ease the deployment to users.
2019-10-04 18:48:35 +02:00
1c44113747
added missing install of ij opencv plugin
2019-10-04 12:11:15 +02:00
ad07463c64
fixes to continuous integration
...
1. I forgot to specify fiji and raw data locations in jenkinsfile
2. the absence of fiji wasn't detected by the test
2019-10-04 11:47:34 +02:00
34fc0aca26
Replaced bash scripts with makefile.
...
The resulting system is clearer and more generic (easier to change location of fiji or root images, as it is now located in one single place : the makefile). Some actions such as the installation of fiji are left as scripts outside the makefile.
2019-10-04 11:36:53 +02:00
Guillaume Raffy
5166363522
added basic jenkins file to automate the build of hello
2019-03-07 10:56:01 +01:00
Guillaume Raffy
6e903069ec
added dummy program to test jenkins
2019-03-07 10:32:23 +01:00
Guillaume Raffy
Guillaume Raffy