tlambert03/nd2 issues and pull requests

#109 - ci(dependabot): bump pypa/cibuildwheel from 2.11.1 to 2.11.2

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago
Labels: dependencies

#108 - feat: Add `ND2File.binary_data` property - extract binary layers from file

Pull Request - State: closed - Opened by tlambert03 almost 2 years ago
Labels: enhancement

#107 - feat: Extract recorded data

Pull Request - State: closed - Opened by tlambert03 almost 2 years ago
Labels: enhancement

#106 - feat: support python 3.11

Pull Request - State: closed - Opened by tlambert03 almost 2 years ago
Labels: enhancement

#105 - cannot find metadata

Issue - State: closed - Opened by DanBushey almost 2 years ago - 3 comments

#104 - ci(dependabot): bump pypa/cibuildwheel from 2.10.2 to 2.11.1

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 1 comment
Labels: dependencies

#103 - test data not found

Issue - State: closed - Opened by joshua-gould almost 2 years ago - 2 comments

#102 - feat: add roi parsing

Pull Request - State: closed - Opened by tlambert03 almost 2 years ago
Labels: enhancement

#101 - feat: offer full unstructured data

Pull Request - State: closed - Opened by tlambert03 almost 2 years ago
Labels: enhancement

#100 - ci: [pre-commit.ci] autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] almost 2 years ago
Labels: hide

#99 - [test-bot] pip install --pre is failing

Issue - State: closed - Opened by github-actions[bot] about 2 years ago
Labels: bug

#98 - ci(dependabot): bump pypa/cibuildwheel from 2.10.1 to 2.10.2

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#97 - ci(dependabot): bump pypa/cibuildwheel from 2.9.0 to 2.10.1

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#96 - fix: fix rounding error in numpy pre-release

Pull Request - State: closed - Opened by tlambert03 about 2 years ago
Labels: bug

#95 - [test-bot] pip install --pre is failing

Issue - State: closed - Opened by github-actions[bot] about 2 years ago
Labels: bug

#94 - fix: fix image width with sdk reader

Pull Request - State: closed - Opened by tlambert03 about 2 years ago
Labels: bug

#93 - Add `unstructured_metadata` method, fix missing position names in experiment.

Pull Request - State: closed - Opened by tlambert03 about 2 years ago
Labels: enhancement

#92 - fix: better fix for images with non-normal strides

Pull Request - State: closed - Opened by tlambert03 about 2 years ago
Labels: bug

#91 - error while loading nd2 image

Issue - State: closed - Opened by jboulanger about 2 years ago - 9 comments

#90 - fix: Fix images where widthPx x Bytes is not the same as expected width Bytes

Pull Request - State: closed - Opened by tlambert03 about 2 years ago
Labels: bug

#89 - ci: [pre-commit.ci] autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 2 years ago
Labels: hide

#88 - Some datasets appear skewed in Ubuntu

Issue - State: closed - Opened by aaristov about 2 years ago - 3 comments

#87 - feat: Add native macosx-arm64 (M1) support

Pull Request - State: closed - Opened by tlambert03 about 2 years ago
Labels: enhancement

#86 - [test-bot] pip install --pre is failing

Issue - State: closed - Opened by github-actions[bot] about 2 years ago
Labels: bug

#85 - Implement sub-frame read/chunking

Issue - State: open - Opened by tlambert03 about 2 years ago
Labels: enhancement, help wanted

#84 - ci(dependabot): bump pypa/cibuildwheel from 2.8.1 to 2.9.0

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#83 - ValueError for the big 2d image in the get_frame method

Issue - State: closed - Opened by GinYoshida about 2 years ago - 3 comments

#82 - ci: [pre-commit.ci] autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 2 years ago
Labels: hide

#81 - ci(dependabot): bump pypa/cibuildwheel from 2.8.0 to 2.8.1

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#80 - ci(dependabot): bump pypa/cibuildwheel from 2.7.0 to 2.8.0

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#79 - fix: Typo in legacy requirements

Pull Request - State: closed - Opened by ghost about 2 years ago - 1 comment
Labels: bug

#78 - Position names are 'None'

Issue - State: closed - Opened by gatoniel about 2 years ago - 9 comments

#77 - ci: [pre-commit.ci] autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 2 years ago
Labels: hide

#76 - nd2[legacy] dependency

Issue - State: closed - Opened by ghost over 2 years ago - 4 comments

#75 - Feature: add benchmarks

Issue - State: closed - Opened by tlambert03 over 2 years ago - 1 comment

#74 - feat: add `read_using_sdk` parameter, default to True for compressed files

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: enhancement

#73 - [test-bot] pip install --pre is failing

Issue - State: closed - Opened by github-actions[bot] over 2 years ago
Labels: bug

#72 - ND2 files saved with lossless compression do not open correctly.

Issue - State: closed - Opened by kthorn over 2 years ago - 4 comments

#71 - only metadata

Issue - State: closed - Opened by Heerpa over 2 years ago - 6 comments

#70 - read speed

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

#69 - ci(dependabot): bump pypa/cibuildwheel from 2.6.1 to 2.7.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies

#68 - ci(dependabot): bump pypa/cibuildwheel from 2.6.0 to 2.6.1

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies

#67 - ci(dependabot): bump actions/setup-python from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies

#66 - docs: update readme

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: documentation

#65 - fix: remove print statement

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: bug

#64 - fix: fix pre-test by using PyArray_SetBaseObject directly

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: bug

#63 - ci: use flake8-pyprojecttoml

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: tests

#62 - [test-bot] pip install --pre is failing

Issue - State: closed - Opened by github-actions[bot] over 2 years ago
Labels: bug

#61 - ci: update prefix on dependabot commit message

Pull Request - State: closed - Opened by tlambert03 over 2 years ago

#60 - ci(dependabot): Bump codecov/codecov-action from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#59 - ci: create dependabot.yml

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: tests

#58 - ci: General repo update, move to pyproject.toml

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: refactor

#57 - build: remove extra numpy from install_requires

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: dependencies

#56 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] over 2 years ago

#55 - fix numpy 1.22.4 bug

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: bug

#54 - Fix frame offsets when validate_frames != True, add `validate_frames` param to `imread`

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: bug

#53 - Shared library problems

Issue - State: closed - Opened by shenker over 2 years ago - 7 comments

#52 - update pre-commit

Pull Request - State: closed - Opened by tlambert03 over 2 years ago
Labels: hide

#51 - Refactor fixup

Pull Request - State: closed - Opened by shenker over 2 years ago - 3 comments
Labels: bug

#50 - Slow creation of ND2File object from large ND2 files

Issue - State: closed - Opened by KaSaBe over 2 years ago - 9 comments

#49 - Pip Installation fails - Double requirement given: numpy

Issue - State: closed - Opened by SachidanandAlle over 2 years ago - 7 comments

#48 - Potential secutiry vulnerabilities in the shared libraries which nd2 depends on. Can you help upgrade to patch versions?

Issue - State: closed - Opened by MikeWazoWski123 over 2 years ago - 1 comment

#47 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] over 2 years ago - 1 comment

#46 - Fix numpy pinning in wheels

Pull Request - State: closed - Opened by tlambert03 over 2 years ago - 1 comment
Labels: bug

#45 - Incompatibility with numpy<=1.21

Issue - State: closed - Opened by zjniu over 2 years ago - 4 comments

#44 - Add utility to try to rescue frames from a corrupted nd2 file

Pull Request - State: closed - Opened by tlambert03 over 2 years ago - 2 comments
Labels: enhancement

#43 - update SDK license

Pull Request - State: closed - Opened by tlambert03 over 2 years ago

#42 - add gh release action

Pull Request - State: closed - Opened by tlambert03 over 2 years ago

#41 - make 2 utils public

Pull Request - State: closed - Opened by tlambert03 over 2 years ago - 1 comment

#40 - Use resource-backed-dask-array, copy dask chunks by default

Pull Request - State: closed - Opened by tlambert03 over 2 years ago - 7 comments

#39 - Error loading nd2 from N-SIM

Issue - State: closed - Opened by dpshepherd over 2 years ago - 8 comments

#38 - nd2 not working on M1 architecture

Issue - State: closed - Opened by zjniu over 2 years ago - 10 comments

#37 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] over 2 years ago - 1 comment

#36 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] almost 3 years ago - 1 comment

#35 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] almost 3 years ago - 1 comment

#24 - Linux library paths for libnd2readsdk-shared.so not set correctly on install

Issue - State: closed - Opened by VolkerH almost 3 years ago - 8 comments

#19 - issues with dask arrays returned by nd2: depend on ND2File being open, can't be pickled

Issue - State: closed - Opened by VolkerH almost 3 years ago - 17 comments

#17 - Memory usage

Issue - State: open - Opened by fjorka almost 3 years ago - 6 comments
Labels: bug

#16 - ImportError: libnd2readsdk-shared.so: cannot open shared object file (CentOS)

Issue - State: closed - Opened by gioelelm almost 3 years ago - 5 comments
Labels: bug

#15 - add output to OME metadata using ome-types

Issue - State: closed - Opened by tlambert03 almost 3 years ago - 1 comment
Labels: enhancement

#14 - Add better time-stamp extraction

Issue - State: closed - Opened by tlambert03 almost 3 years ago - 1 comment
Labels: enhancement

#1 - support open file handles

Issue - State: closed - Opened by tlambert03 about 3 years ago
Labels: enhancement

GitHub / tlambert03/nd2 issues and pull requests