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GitHub / python-microscopy/python-microscopy issues and pull requests

#1413 - Enable Private Vulnerability Reporting in GitHub

Issue - State: closed - Opened by ZuhairORZaki over 2 years ago - 1 comment

#1412 - [SUPPORT] Accesing 'MainFrame' from Other PYME Functions

Issue - State: open - Opened by Yujin-Bao over 2 years ago - 2 comments

#1411 - Feature based fiducial linkage

Pull Request - State: closed - Opened by David-Baddeley over 2 years ago

#1410 - actually commit docs conf fixes

Pull Request - State: closed - Opened by David-Baddeley over 2 years ago

#1409 - [SUPPORT] issue of conflicts with pyme-depends and python>3.7 ?

Issue - State: closed - Opened by csoeller over 2 years ago - 3 comments

#1408 - Tentative fix for #1397

Pull Request - State: closed - Opened by David-Baddeley over 2 years ago - 1 comment

#1407 - Fix cropping metadata

Pull Request - State: closed - Opened by David-Baddeley over 2 years ago

#1405 - actually use ROI size parameter

Pull Request - State: closed - Opened by David-Baddeley over 2 years ago

#1402 - Enable opening of headerless ViSP files

Pull Request - State: closed - Opened by zacsimile over 2 years ago - 2 comments

#1400 - [ENHANCEMENT] Export ImageStack to series of images suitable for video-generation by ffmpeg

Issue - State: closed - Opened by barentine over 2 years ago - 2 comments
Labels: enhancement

#1398 - Mesh visualisation in notebooks

Pull Request - State: closed - Opened by David-Baddeley over 2 years ago - 3 comments

#1397 - [BUG] MDHandler error in SKFilter recipe module

Issue - State: closed - Opened by barentine over 2 years ago - 3 comments
Labels: bug

#1395 - Coherent Sapphire Interface

Pull Request - State: closed - Opened by abalaji0827 over 2 years ago

#1394 - test coundir import separate, expect fail on windows

Pull Request - State: closed - Opened by barentine over 2 years ago

#1393 - [BUG] countdir relative import fails

Issue - State: closed - Opened by barentine over 2 years ago
Labels: bug

#1392 - add picoquant taiko m1 support

Pull Request - State: open - Opened by barentine over 2 years ago - 2 comments

#1390 - powerControlable to mirror power_controllable in OBIS and MPBCW

Pull Request - State: closed - Opened by barentine over 2 years ago - 3 comments

#1389 - add support for obis controller echo

Pull Request - State: closed - Opened by barentine over 2 years ago

#1388 - Add threaded version of PIPython GCSPiezo and some GCSPiezo fixes

Pull Request - State: closed - Opened by barentine over 2 years ago

#1387 - watershed function[SUPPORT]

Issue - State: closed - Opened by Z-Qing almost 3 years ago - 3 comments

#1386 - [BUG] Save Snapshot error

Issue - State: closed - Opened by lukasfue almost 3 years ago - 2 comments
Labels: bug

#1385 - Some compatibility and deprecation fixes

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1383 - Orca/Fusion programmable output trigger improvements

Pull Request - State: closed - Opened by barentine almost 3 years ago

#1382 - Add PYMEAcquire intensity trace page / panel

Pull Request - State: closed - Opened by barentine almost 3 years ago - 1 comment

#1381 - [ENHANCEMENT] Ability to install plugins in the one-click install version of PYME.

Issue - State: closed - Opened by lukasfue almost 3 years ago - 3 comments
Labels: enhancement

#1380 - [SUPPORT] UnsatisfiableError when attempting to do a development install

Issue - State: closed - Opened by lukasfue almost 3 years ago - 4 comments

#1379 - render 3D image[SUPPORT]

Issue - State: open - Opened by Z-Qing almost 3 years ago - 2 comments

#1376 - Pad to avoid wrapping in PSF extraction

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1373 - [BUG] DBSCAN seems to be broken

Issue - State: closed - Opened by lukasfue almost 3 years ago - 14 comments
Labels: bug

#1372 - add cython-generated func_octree.c to .gitignore

Pull Request - State: closed - Opened by barentine almost 3 years ago

#1371 - [BUG] LMDisplay module loading from PYMEImage fails

Issue - State: closed - Opened by barentine almost 3 years ago
Labels: bug

#1370 - Pull fitfactory-specific default parameters in recipes.measurement.FitPoints

Pull Request - State: closed - Opened by barentine almost 3 years ago - 2 comments

#1369 - add pipython-based piezo class, note that e727 controller is supported

Pull Request - State: closed - Opened by barentine almost 3 years ago - 1 comment

#1368 - Add class to wrap multiaxis controllers to mimic single-axis piezo object

Pull Request - State: closed - Opened by barentine almost 3 years ago - 2 comments

#1367 - .pxd propagation

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1366 - .pxd propagation

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1365 - .pxd propagation

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1364 - hopefully fix ch_shrinkwrap compilation issues on win

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1363 - [Proposal] propagate or log recipe errors in PYMEImage

Issue - State: closed - Opened by barentine almost 3 years ago - 2 comments
Labels: bug

#1362 - Label astigmatic CRB curves during PSF extraction

Pull Request - State: closed - Opened by barentine almost 3 years ago - 1 comment

#1361 - [BUG] Numpy version compatibilty / pinning

Issue - State: open - Opened by David-Baddeley almost 3 years ago - 2 comments
Labels: bug

#1360 - [SUPPORT] What is PYMEImage 'X-Z' or 'Y-Z' slice supposed to do?

Issue - State: open - Opened by barentine almost 3 years ago - 2 comments

#1359 - allow FitFactories (custom localization routines) from plugins

Pull Request - State: closed - Opened by barentine almost 3 years ago - 5 comments

#1358 - auto threshold debuging

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1357 - open OBF and MSR files without java/bioformats

Pull Request - State: closed - Opened by barentine almost 3 years ago

#1355 - [PROPOSAL] update metadata from file functionality in PYMEImage (maybe PYMEVis too)

Issue - State: open - Opened by barentine almost 3 years ago - 1 comment
Labels: enhancement

#1354 - bugfixes

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1353 - [BUG] Recipe run failure kills pipeline, forces restart

Issue - State: open - Opened by zacsimile almost 3 years ago - 1 comment
Labels: bug

#1352 - supress debug printing of metadatahandler contents when recipes are executed

Pull Request - State: closed - Opened by csoeller almost 3 years ago - 4 comments

#1351 - fix typo in mergeClumps argument

Pull Request - State: closed - Opened by csoeller almost 3 years ago - 1 comment

#1350 - [BUG] # typo in updated MergeClump module

Issue - State: closed - Opened by csoeller almost 3 years ago - 1 comment
Labels: bug

#1349 - Automatic thresholding for dual marching cubes

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago - 1 comment

#1348 - FFBase.getROIAtPoint fixes (axialHalfROI arg and actually cropping background)

Pull Request - State: closed - Opened by barentine almost 3 years ago - 6 comments

#1347 - change relative DSView modules import to absolute

Pull Request - State: closed - Opened by barentine almost 3 years ago

#1346 - [PROPOSAL] use absolute imports in PYME scripts (e.g. dsviewer.py)

Issue - State: closed - Opened by barentine almost 3 years ago - 1 comment
Labels: enhancement

#1345 - try spooler test on azure again

Pull Request - State: closed - Opened by barentine almost 3 years ago - 1 comment

#1344 - reinstantiate point display overlay if we don't have a filter

Pull Request - State: closed - Opened by barentine almost 3 years ago - 2 comments

#1343 - [BUG] Testframe doesn't always draw found localizations

Issue - State: closed - Opened by barentine almost 3 years ago - 1 comment
Labels: bug

#1342 - A few outstanding issues

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1341 - Deprecation and biplane fixes

Pull Request - State: closed - Opened by David-Baddeley almost 3 years ago

#1340 - Topology functions + cleanup

Pull Request - State: closed - Opened by zacsimile almost 3 years ago

#1339 - add "discard trivial" switch to MergeClumps module

Pull Request - State: closed - Opened by csoeller almost 3 years ago - 1 comment

#1338 - recipe execution - remove indiscriminate print() statements

Pull Request - State: closed - Opened by csoeller almost 3 years ago

#1337 - listctrlMixins fix - used to use a now changed wxWindows API access

Pull Request - State: closed - Opened by csoeller about 3 years ago - 1 comment

#1336 - Recipe .run() refactoring

Pull Request - State: closed - Opened by David-Baddeley about 3 years ago - 1 comment

#1335 - Fix for .h5r without events

Pull Request - State: closed - Opened by David-Baddeley about 3 years ago

#1334 - Mesh tidying

Pull Request - State: closed - Opened by David-Baddeley about 3 years ago - 2 comments

#1333 - Bugfixes / surface generation

Pull Request - State: closed - Opened by David-Baddeley about 3 years ago

#1332 - DetectPoints2D expansion

Pull Request - State: closed - Opened by David-Baddeley about 3 years ago

#1331 - [ENHANCEMENT] make OS dark mode settings look better / be usable

Issue - State: open - Opened by barentine about 3 years ago - 21 comments
Labels: enhancement

#1330 - [BUG] Hitting enter in some parts of PYMEAcquire GUI starts a time series acquisition

Issue - State: closed - Opened by barentine about 3 years ago - 3 comments
Labels: bug

#1329 - stop spool in test_cluster_spooling

Pull Request - State: closed - Opened by barentine about 3 years ago - 1 comment

#1328 - [BUG] test_cluster_spooler.py waits for finished() method on HTTPSpoolerv2, which is incomplete

Issue - State: closed - Opened by barentine about 3 years ago - 1 comment
Labels: bug

#1327 - change scipy.random to numpy.random calls

Pull Request - State: closed - Opened by barentine about 3 years ago - 2 comments

#1326 - [PROPOSAL] remove scipy.random calls

Issue - State: closed - Opened by barentine about 3 years ago - 1 comment
Labels: enhancement

#1324 - Fix trait input detection

Pull Request - State: closed - Opened by David-Baddeley about 3 years ago

#1323 - Fix snapshot scaling for wx 4.1 on mac

Pull Request - State: closed - Opened by zacsimile about 3 years ago

#1322 - More meshing improvements

Pull Request - State: closed - Opened by David-Baddeley about 3 years ago

#1321 - [PROPOSAL] IDS Peak API version of ueye / ucam camera classes

Issue - State: closed - Opened by barentine over 3 years ago - 4 comments
Labels: enhancement

#1320 - meshing tweaks

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago

#1319 - [BUG] Error when open PYMEAcquire

Issue - State: closed - Opened by Yujin-Bao over 3 years ago - 4 comments
Labels: bug

#1318 - [BUG] Make sure current_version.json matches current version

Issue - State: open - Opened by David-Baddeley over 3 years ago
Labels: bug

#1317 - issue #1307

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago

#1316 - [ENHANCEMENT] Tooltips

Issue - State: open - Opened by David-Baddeley over 3 years ago - 2 comments
Labels: enhancement, good first issue

#1315 - Scaling tweaks (alt to #1314)

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago

#1314 - PYMEImage histogram bounds: use all pixels to calculate, add choice-box for method

Pull Request - State: closed - Opened by barentine over 3 years ago - 4 comments

#1313 - Task accounting

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago - 2 comments

#1312 - Rule tweaks

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago

#1311 - Unified selection and annotation

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago

#1310 - [SUPPORT]

Issue - State: closed - Opened by d-perez-1 over 3 years ago - 3 comments

#1309 - Fixed size strings when saving to hdf tables

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago - 6 comments

#1308 - Address comment on #1305

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago

#1307 - [BUG] --root option doesn't work for PYMEClusterOfOne

Issue - State: closed - Opened by zacsimile over 3 years ago - 2 comments
Labels: bug

#1305 - Saner workaround for #1292

Pull Request - State: closed - Opened by David-Baddeley over 3 years ago - 2 comments