Ecosyste.ms: Issues

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GitHub / datajoint/element-interface issues and pull requests

#122 - chore: add new GitHub Action callers

Pull Request - State: closed - Opened by MilagrosMarin about 2 months ago

#120 - Update docs, GHA, version, CHANGELOG

Pull Request - State: closed - Opened by kushalbakshi 4 months ago - 1 comment

#119 - feat(run_caiman): use `output_dir` for `CAIMAN_TEMP`

Pull Request - State: closed - Opened by ttngu207 4 months ago

#117 - feat: set `gb_per_file` and write multiple bigtiff

Pull Request - State: closed - Opened by ttngu207 4 months ago

#116 - feat: add `use_cuda` for caiman

Pull Request - State: closed - Opened by ttngu207 5 months ago

#114 - update: deprecate "caiman_compatible" argument

Pull Request - State: closed - Opened by ttngu207 5 months ago

#113 - Update CaImAn utilities for compatibility with latest CaImAn

Pull Request - State: closed - Opened by kushalbakshi 6 months ago

#112 - Update multiprocessing arguments to latest versions

Pull Request - State: closed - Opened by kushalbakshi 6 months ago

#111 - Dev memoized results

Pull Request - State: closed - Opened by ttngu207 6 months ago - 1 comment

#108 - feat: handle PrairieView new multi-page tif format

Pull Request - State: closed - Opened by ttngu207 6 months ago

#107 - Check for bruker-generated multi_tiff

Pull Request - State: closed - Opened by kushalbakshi 7 months ago

#106 - Add codespell: workflow + config and have it fix some typos

Pull Request - State: open - Opened by yarikoptic 9 months ago

#105 - Add `Exception` to `raise` statements

Pull Request - State: closed - Opened by kushalbakshi 9 months ago

#103 - Add meaningful exception error in `write_single_bigtiff()`

Pull Request - State: closed - Opened by kushalbakshi 9 months ago

#102 - Dev memoized results

Pull Request - State: closed - Opened by ttngu207 9 months ago

#99 - Add multi-plane caiman image processing

Pull Request - State: closed - Opened by kushalbakshi 10 months ago

#98 - fix(prairie_view_loader): fix file search for single-plane dataset

Pull Request - State: closed - Opened by ttngu207 10 months ago

#97 - Fix file name extraction from PrairieView metadata

Pull Request - State: closed - Opened by kushalbakshi 10 months ago - 1 comment

#96 - Add multi-plane capability to caiman utilities

Pull Request - State: closed - Opened by kushalbakshi 12 months ago

#95 - revert: :memo: revert docs dark mode cell text color

Pull Request - State: closed - Opened by A-Baji about 1 year ago
Labels: bug, documentation

#94 - Set `indices=None` in `fit_file()` + comments for clarity

Pull Request - State: closed - Opened by kushalbakshi about 1 year ago

#93 - Fixes to run caiman and ingest data

Pull Request - State: closed - Opened by kushalbakshi about 1 year ago

#92 - Update params -> parameters

Pull Request - State: closed - Opened by kushalbakshi about 1 year ago

#91 - Fix typo indicies -> indices

Pull Request - State: closed - Opened by kushalbakshi about 1 year ago

#90 - passing `indices` as argument to `fit_file`

Pull Request - State: closed - Opened by ttngu207 about 1 year ago

#89 - Check for z_fields in 2nd cycle `.xml` file

Pull Request - State: closed - Opened by kushalbakshi about 1 year ago

#88 - Multi plane caiman

Pull Request - State: closed - Opened by ttngu207 about 1 year ago

#87 - Bugfix, improvements to DANDI upload functionality

Pull Request - State: closed - Opened by ttngu207 over 1 year ago - 1 comment

#86 - Refinements to Prairie View metadata loader

Pull Request - State: closed - Opened by kushalbakshi over 1 year ago - 1 comment

#85 - Fix typo in changelog

Pull Request - State: closed - Opened by kabilar over 1 year ago

#84 - Fix docs

Pull Request - State: closed - Opened by kabilar over 1 year ago - 1 comment

#83 - Fix DANDI Upload URL

Pull Request - State: closed - Opened by kushalbakshi over 1 year ago - 1 comment

#82 - Fix dark mode and CI/CD issues

Pull Request - State: closed - Opened by kushalbakshi over 1 year ago

#81 - Fix docs tutorials in dark mode

Pull Request - State: closed - Opened by kushalbakshi over 1 year ago

#80 - Tutorial notebook renders incorrectly in dark mode

Issue - State: closed - Opened by kushalbakshi over 1 year ago - 1 comment

#79 - Clean up variable names in `prairieviewreader.py`

Issue - State: closed - Opened by kushalbakshi over 1 year ago - 1 comment
Labels: enhancement

#78 - Fix multiple z device ingestion in `prairieviewreader.py`

Pull Request - State: closed - Opened by kushalbakshi over 1 year ago
Labels: bug

#77 - Multiple z devices (PrairieView metadata reader)

Issue - State: closed - Opened by juremaj almost 2 years ago - 6 comments
Labels: enhancement

#76 - Add Intan loader

Pull Request - State: open - Opened by tdincer almost 2 years ago - 5 comments

#75 - refactor: :art: streamline the code

Pull Request - State: closed - Opened by JaerongA almost 2 years ago - 6 comments

#74 - Formatting

Pull Request - State: closed - Opened by CBroz1 almost 2 years ago - 2 comments

#73 - Intan loader

Pull Request - State: closed - Opened by tdincer almost 2 years ago - 6 comments

#72 - Update setup.py

Pull Request - State: closed - Opened by tdincer almost 2 years ago

#71 - Add pre-commit & utilities for pytests

Pull Request - State: closed - Opened by CBroz1 almost 2 years ago - 1 comment

#70 - Publish `element-interface` docs

Issue - State: closed - Opened by kabilar almost 2 years ago - 1 comment
Labels: enhancement

#69 - PrairieViewReader updated for fixed Zaxis scans

Pull Request - State: closed - Opened by kushalbakshi almost 2 years ago - 4 comments

#68 - add docker-compose for docs

Pull Request - State: closed - Opened by tdincer almost 2 years ago

#67 - Add recording start time to Bruker metadata

Pull Request - State: closed - Opened by kushalbakshi almost 2 years ago

#66 - Expand ingest_csv func to allow 1:many csv:tables

Pull Request - State: closed - Opened by CBroz1 almost 2 years ago - 1 comment

#65 - Loader and Trigger for EXTRACT

Pull Request - State: closed - Opened by tdincer almost 2 years ago - 1 comment

#64 - Update logo/styling

Pull Request - State: closed - Opened by CBroz1 about 2 years ago

#63 - remove numpy version pin

Pull Request - State: closed - Opened by ttngu207 about 2 years ago

#62 - Adds docs

Pull Request - State: closed - Opened by CBroz1 about 2 years ago

#61 - Update CICD for PyPI release

Pull Request - State: closed - Opened by CBroz1 about 2 years ago - 8 comments

#60 - Minor changelog edits

Pull Request - State: closed - Opened by CBroz1 about 2 years ago

#59 - Import pytest fixtures from across workflow repos to reduce ci/cd codebase

Issue - State: open - Opened by CBroz1 over 2 years ago - 1 comment
Labels: CI/CD

#58 - `black` formatting across elements

Issue - State: closed - Opened by CBroz1 over 2 years ago - 3 comments

#57 - Timezone handling across elements

Issue - State: open - Opened by kabilar about 2 years ago

#56 - Timezone handling across elements

Issue - State: closed - Opened by CBroz1 over 2 years ago - 1 comment
Labels: enhancement

#55 - Add light datasets for demos and tests to djarchive

Issue - State: open - Opened by kabilar over 2 years ago - 1 comment
Labels: documentation, CI/CD

#54 - Update pytests for new light datasets

Issue - State: open - Opened by kabilar over 2 years ago
Labels: CI/CD

#53 - Add Element Visual Stimulus description page

Issue - State: closed - Opened by kabilar over 2 years ago - 1 comment
Labels: documentation

#52 - .env in /docker for workflow repos

Issue - State: closed - Opened by JaerongA over 2 years ago - 1 comment
Labels: documentation

#51 - Timezone handling across elements

Issue - State: closed - Opened by CBroz1 over 2 years ago - 1 comment
Labels: enhancement

#50 - Install.md: Additional `graphviz` installation steps for `dj.Diagram()`

Issue - State: closed - Opened by CBroz1 about 3 years ago - 2 comments
Labels: documentation

#49 - Install external packages

Issue - State: open - Opened by kabilar over 2 years ago - 1 comment

#48 - `black` formatting across elements

Issue - State: closed - Opened by CBroz1 over 2 years ago - 1 comment

#47 - Update Elements and Workflows once `element-interface` is published on PyPI

Issue - State: closed - Opened by kabilar over 2 years ago - 1 comment
Labels: enhancement

#46 - Timezone handling across elements

Issue - State: closed - Opened by CBroz1 over 2 years ago - 1 comment
Labels: enhancement

#45 - Publish initial release of Elements on PyPI

Issue - State: closed - Opened by kabilar over 2 years ago - 2 comments
Labels: CI/CD

#44 - PrairieView Reader Added

Pull Request - State: closed - Opened by kushalbakshi about 2 years ago - 8 comments

#43 - Add `insert1_skip_full_duplicates` and remove `recursive_search`

Pull Request - State: closed - Opened by CBroz1 over 2 years ago - 2 comments
Labels: enhancement

#42 - Generalized paramset insert?

Issue - State: open - Opened by CBroz1 over 2 years ago - 12 comments
Labels: enhancement

#41 - Update `suite2p_trigger` documentation

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

#40 - Rename file

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

#39 - Remove `extras_require` feature and preparation for first release

Pull Request - State: closed - Opened by kabilar over 2 years ago - 1 comment
Labels: enhancement

#38 - Add my dev functions to `interface`?

Pull Request - State: closed - Opened by CBroz1 over 2 years ago - 1 comment

#37 - blackify

Pull Request - State: closed - Opened by CBroz1 over 2 years ago - 1 comment

#36 - Revise `utils.ingest_csv_to_table` to permit embedded lists

Issue - State: closed - Opened by CBroz1 over 2 years ago - 2 comments

#35 - Minor bug fix

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

#34 - DANDI upload currently has metadata validation error in url if uploaded to staging

Issue - State: open - Opened by CBroz1 over 2 years ago - 1 comment
Labels: bug, good first issue

#33 - Minor fixes dandi upload; Refactor README

Pull Request - State: closed - Opened by CBroz1 over 2 years ago - 2 comments

#32 - Add parameters to ingest_csv func

Pull Request - State: closed - Opened by CBroz1 over 2 years ago

#31 - Add `ingest_csv_to_table` and `recursive_search` functions

Pull Request - State: closed - Opened by kabilar over 2 years ago - 9 comments

#30 - Incorrect identification of the processing datetime

Issue - State: open - Opened by tdincer over 2 years ago

#29 - Add dandi in `extras_require`

Issue - State: closed - Opened by CBroz1 over 2 years ago

#28 - `find_full_path` deliminator handling

Issue - State: closed - Opened by CBroz1 over 2 years ago - 2 comments

#27 - Revisit numpy version lock

Issue - State: closed - Opened by CBroz1 over 2 years ago - 15 comments
Labels: bug

#26 - Add `extras_require` for dandi

Issue - State: closed - Opened by CBroz1 over 2 years ago

#25 - suite2p source change

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

#24 - cellpose for suite2p

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

#23 - add upload_to_dandi

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