Ecosyste.ms: Issues

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GitHub / AllenInstitute/ipfx issues and pull requests

#563 - 2.0.0 release

Pull Request - State: closed - Opened by sheriferson 3 months ago

#561 - Cannot build on Python 3.12

Issue - State: open - Opened by patrick-nicodemus 5 months ago
Labels: bug

#560 - [note] [dev] Removal of set_container_sources() method in IPFX 2.0.0

Issue - State: open - Opened by sheriferson about 1 year ago
Labels: note

#558 - pip install ipfx fails on macOS with M1 arm64 cpu (apple silicon)

Issue - State: closed - Opened by cudmore about 1 year ago - 1 comment
Labels: bug

#557 - can't install ipfx

Issue - State: closed - Opened by sayakaminegishi over 1 year ago - 3 comments
Labels: bug

#556 - fixes error messages in _get_series

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

#554 - bugfix / pause + burst detection

Pull Request - State: open - Opened by mzabolocki about 2 years ago

#553 - detect pauses update

Pull Request - State: closed - Opened by mzabolocki about 2 years ago - 1 comment

#552 - Release 1.0.7

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

#551 - Bugfix/chirp sampling ISSUE 546

Pull Request - State: closed - Opened by MatthewAitken about 2 years ago - 1 comment

#550 - Can't pip install (dependency conflicts with AllenSDK?)

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

#549 - Reconfigure spike time processing module creation to match NWB best practice

Issue - State: open - Opened by tmchartrand over 2 years ago
Labels: enhancement

#548 - Update asset metadata for older exported NWBs at DANDI

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

#547 - Update metadata embedding code for cell IDs etc

Issue - State: open - Opened by tmchartrand over 2 years ago
Labels: enhancement

#546 - Bypass bessel filter for Chirp sweeps sampled at 12.5K

Issue - State: open - Opened by ru57y34nn over 2 years ago - 5 comments
Labels: enhancement

#545 - remove pandas dependency freeze

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

#544 - script_utils.filter_results should not return None

Issue - State: open - Opened by gouwens over 2 years ago
Labels: bug

#543 - Discussion related to #542

Issue - State: open - Opened by t-b over 2 years ago - 4 comments
Labels: question

#542 - Stop IPFX from caching its NWB Schemas when writing/modifying NWB files

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

#541 - Cell attached spontaneous firing feature extraction

Issue - State: open - Opened by ru57y34nn about 3 years ago - 6 comments
Labels: enhancement

#540 - Merging master back into dev after release 1.0.5

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

#539 - Release 1.0.5

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

#538 - GH #537 - Decode nwb_version if byte object

Pull Request - State: closed - Opened by ru57y34nn about 3 years ago - 1 comment

#537 - IVSCC pipeline sweep extraction crashing with TypeError at get_nwb_version()

Issue - State: closed - Opened by ru57y34nn about 3 years ago - 2 comments
Labels: bug

#536 - Feature extraction code for analysis in Gouwens, Sorensen, et al. - Cell, 2020

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

#535 - Adapt pipeline processing for cells with multiple autobias target voltages

Issue - State: open - Opened by ru57y34nn over 3 years ago
Labels: enhancement

#534 - Gh 533/bugfix/pre and post stimulus target voltage

Pull Request - State: open - Opened by ru57y34nn over 3 years ago - 1 comment

#533 - Pre- and Post-stimulus baselines should be compared to target voltage

Issue - State: open - Opened by ru57y34nn over 3 years ago - 3 comments
Labels: enhancement

#532 - Merge master into dev

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

#531 - testing git-lfs

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

#530 - Bugfix/525 null duration

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

#529 - require stim offset to define epoch

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

#528 - Release 1.0.4 (#523)

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

#527 - fixes stimulus epoch check

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

#526 - require stim offset to define epoch

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

#525 - null stimulus duration in QC passed sweeps

Issue - State: closed - Opened by tmchartrand over 3 years ago - 7 comments
Labels: bug

#524 - Release 1.0.4 (#523)

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

#523 - Release 1.0.4

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

#522 - Fix duration rounding to address #521

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

#521 - issue with run_feature_vector_extraction

Issue - State: closed - Opened by hongruhu over 3 years ago - 13 comments

#520 - Address nan issue by selecting recording epoch as default

Pull Request - State: closed - Opened by tmchartrand over 3 years ago - 1 comment

#519 - Address nan issue by trimming sweeps

Pull Request - State: closed - Opened by tmchartrand over 3 years ago - 1 comment

#518 - Read epochs info from nwb2 files

Issue - State: open - Opened by sgratiy over 3 years ago - 3 comments
Labels: enhancement

#517 - Triage ipfx issues

Issue - State: closed - Opened by wbwakeman over 3 years ago - 1 comment

#516 - Failed and dropped sweeps are being used in Feature Extraction

Issue - State: closed - Opened by ru57y34nn almost 4 years ago - 9 comments
Labels: bug

#515 - IndexError: Cannot find ('EXTPCllATT',)

Issue - State: closed - Opened by sgratiy almost 4 years ago - 1 comment
Labels: bug

#514 - Gh-513/check in-bath electrode resistance before extracting baseline electrode current

Pull Request - State: closed - Opened by ru57y34nn almost 4 years ago - 1 comment

#513 - extract_electrde_0 should check pipette resistance before

Issue - State: closed - Opened by ru57y34nn almost 4 years ago - 2 comments
Labels: enhancement

#512 - nwb_to_pdf fails with MIES-generated NWB2 files

Issue - State: open - Opened by tmchartrand almost 4 years ago
Labels: bug

#511 - GH #508 - Remove np.nan values from np.diff array

Pull Request - State: closed - Opened by ru57y34nn almost 4 years ago - 3 comments

#510 - Fix missing electrode 0 when in bath sweep was ran with smoketest sti…

Pull Request - State: closed - Opened by ru57y34nn almost 4 years ago - 3 comments

#509 - Cells failing QC due to "electrode_0_pa missing value"

Issue - State: open - Opened by ru57y34nn almost 4 years ago - 13 comments
Labels: enhancement

#508 - Correctly infer stimulus/experiment epochs from traces with Nan values

Issue - State: closed - Opened by wbwakeman almost 4 years ago - 30 comments

#505 - upgrades pip so cryptography wheel gets installed

Pull Request - State: closed - Opened by MatthewAitken almost 4 years ago

#504 - Release 1.0.3

Pull Request - State: closed - Opened by MatthewAitken almost 4 years ago - 1 comment

#503 - returns 0.0 for amplitude instead of nan

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

#502 - Release ipfx

Issue - State: closed - Opened by wbwakeman almost 4 years ago

#501 - Merging master into dev

Pull Request - State: closed - Opened by sgratiy almost 4 years ago

#500 - Dev

Pull Request - State: closed - Opened by sgratiy almost 4 years ago

#499 - add ability to set specific sweep checks as optional

Issue - State: open - Opened by wbwakeman almost 4 years ago - 2 comments

#498 - ipfx should handle sweeps with missing stimulus amplitudes

Issue - State: closed - Opened by wbwakeman almost 4 years ago - 2 comments

#497 - 495/mem leak lru cache

Pull Request - State: closed - Opened by kasbaker almost 4 years ago

#496 - 360/get notebook value

Pull Request - State: open - Opened by kasbaker about 4 years ago

#495 - Memory leak due to LRU cache in method of EphysNWBData

Issue - State: closed - Opened by gouwens about 4 years ago - 4 comments
Labels: bug

#494 - Memory leak when loading NWB2 files with default options

Issue - State: open - Opened by gouwens about 4 years ago - 1 comment
Labels: bug

#493 - Release 1.0.2

Pull Request - State: closed - Opened by sgratiy about 4 years ago

#492 - Remove x_to_nwb conversion functionality from the repo

Issue - State: open - Opened by sgratiy about 4 years ago - 1 comment
Labels: enhancement

#491 - GH-470 Add features state to the json output

Pull Request - State: closed - Opened by sgratiy about 4 years ago - 2 comments

#490 - Fix h5py package version

Pull Request - State: closed - Opened by sgratiy about 4 years ago - 1 comment

#489 - citation?

Issue - State: closed - Opened by bendichter about 4 years ago - 2 comments
Labels: enhancement

#488 - Fix nightly build failure

Issue - State: closed - Opened by sgratiy about 4 years ago
Labels: bug

#487 - Update ipfx bamboo builds for new server

Issue - State: closed - Opened by wbwakeman over 4 years ago - 1 comment

#486 - fix truncated pulse error #485

Pull Request - State: closed - Opened by sborde over 4 years ago - 2 comments

#485 - Fix Truncated Pulse Error

Issue - State: closed - Opened by ozsat over 4 years ago - 1 comment
Labels: enhancement

#484 - Deploy ipfx

Issue - State: closed - Opened by wbwakeman over 4 years ago

#483 - merge master into dev again

Pull Request - State: closed - Opened by sgratiy over 4 years ago

#482 - debug merge

Pull Request - State: closed - Opened by sgratiy over 4 years ago

#481 - Prevent mismatch between number of values and labels in AP feature plots

Pull Request - State: closed - Opened by sgratiy over 4 years ago

#480 - Merge master into dev

Pull Request - State: closed - Opened by sgratiy over 4 years ago

#479 - running extract_data_set_features on some PatchSeq datasets fails

Issue - State: closed - Opened by danielsf over 4 years ago - 1 comment
Labels: bug

#478 - 464/lru cache

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

#477 - Deploy ipfx

Issue - State: closed - Opened by wbwakeman over 4 years ago

#476 - Implement fix on LIMS strategy to get correct ontology

Issue - State: closed - Opened by isaak-willett over 4 years ago - 1 comment

#475 - fix segment length rounding error #473

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

#474 - GH-471 Update pynwb requirements

Pull Request - State: closed - Opened by sgratiy over 4 years ago

#473 - unequal number of datapoints in NWB conversion

Issue - State: open - Opened by ozsat over 4 years ago - 2 comments
Labels: bug

#472 - Document feature extraction graceful degradation

Issue - State: open - Opened by wbwakeman over 4 years ago

#471 - Update ipfx pynwb requirement and remove hdmf requirement

Issue - State: closed - Opened by wbwakeman over 4 years ago - 1 comment

#470 - save feature_states in output

Issue - State: closed - Opened by tmchartrand over 4 years ago - 1 comment

#469 - Large number of cells missing long square features

Issue - State: closed - Opened by tmchartrand over 4 years ago - 7 comments
Labels: bug

#468 - ImportError: cannot import name 'MultiContainerInterface' from 'hdmf.container'

Issue - State: closed - Opened by LibertyW over 4 years ago - 2 comments
Labels: bug

#467 - Create static ephys phase plot image

Issue - State: open - Opened by wbwakeman over 4 years ago

#465 - Triage October cell processing failures

Issue - State: open - Opened by wbwakeman over 4 years ago

#460 - EphysQcV3Strategy writes input parameters unsupported by the QC schema

Issue - State: open - Opened by NileGraddis over 4 years ago - 1 comment
Labels: bug