Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / AllenInstitute/AllenSDK issues and pull requests

#2750 - fix for nans in table["color"].str.match(color_triplet_re)

Pull Request - State: open - Opened by RobertoDF 2 months ago

#2749 - Missing links to model example .tgz files

Issue - State: open - Opened by campagnola 2 months ago
Labels: bug

#2748 - automatic retrival of connections data

Issue - State: open - Opened by Ahuitzol99 3 months ago
Labels: question

#2747 - pip install not working

Issue - State: open - Opened by bmidler 3 months ago - 1 comment
Labels: bug

#2746 - Cannot install AllenSDK on Windows

Issue - State: open - Opened by MatteoCarandini 4 months ago
Labels: bug

#2744 - Python 3.12 support

Issue - State: open - Opened by adamltyson 6 months ago
Labels: enhancement

#2743 - Retrieving Shuffled Frame IDs

Issue - State: open - Opened by isabelgaron 8 months ago
Labels: question

#2742 - Unable to download cache files

Issue - State: open - Opened by VictorSeven 10 months ago
Labels: bug

#2741 - FIlenote FOUnd error for LFP data

Issue - State: closed - Opened by AngCamp 10 months ago - 2 comments
Labels: bug

#2740 - Provide accurate documentation for brain_observatory_cache.get_eye_tracking

Pull Request - State: open - Opened by chaseking 11 months ago - 1 comment

#2739 - Creating drifting gratings (frame by frame)

Issue - State: open - Opened by SalvoCalcagno 11 months ago
Labels: question

#2738 - Rc/2.16.2

Pull Request - State: closed - Opened by morriscb 12 months ago - 1 comment

#2736 - The link to the latest source documentation is broken (google chrome, windows 11)

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

#2735 - rc/2.16.1

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

#2734 - Hotfix for #2733

Pull Request - State: closed - Opened by RobertoDF about 1 year ago - 2 comments

#2732 - Missing channels in LFP data, also is the LFP pre-scaled?

Issue - State: closed - Opened by AngCamp about 1 year ago - 1 comment
Labels: question

#2731 - ticket/PSB-260: Bug fix to VBN

Pull Request - State: closed - Opened by morriscb about 1 year ago - 2 comments

#2730 - Ticket/PSB-7

Pull Request - State: closed - Opened by morriscb about 1 year ago - 2 comments

#2729 - ticket/PSB-257: Investigate AllenSDK test failure for python3.9

Pull Request - State: closed - Opened by morriscb about 1 year ago - 3 comments

#2728 - Ticket/PSB-249: Address comments on final release candidate.

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

#2727 - Update conda-forge package

Issue - State: open - Opened by dyf about 1 year ago - 2 comments
Labels: enhancement

#2726 - Ticket/PSB-207:

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

#2725 - Error: pg_config executable not found. - Installing on Compute Canada

Issue - State: closed - Opened by AngCamp about 1 year ago - 2 comments
Labels: bug

#2724 - Ticket/PSB-235: Fixes needed for data release

Pull Request - State: closed - Opened by morriscb about 1 year ago - 2 comments

#2723 - ticket/PSB-227: Revert to json for vbn packaging.

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

#2722 - Rc/2.16.0

Pull Request - State: closed - Opened by morriscb about 1 year ago - 2 comments

#2721 - ticket/PSB-200: Clean up rc/2.16.0

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

#2720 - unpin hdmf and pynwb

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

#2718 - Cannot load both VisualCoding and VisualBehavior caches in the same Jupyter Notebook

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

#2717 - incorrect task parameter value in session metadata for TRAINING_0 and TRAINING_1

Issue - State: open - Opened by matchings over 1 year ago - 1 comment
Labels: bug

#2716 - Update Dependency Compatibility

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

#2715 - ticket/PSB155: Add is_sham_change column.

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

#2714 - Fix for namespaces issue

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

#2712 - Ticket/PSB-167: Add quality to metadata table

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

#2711 - KeyError: 'sweeps_by_type'

Issue - State: open - Opened by win2dvp21 over 1 year ago
Labels: bug

#2710 - Resolve dependencies refresh

Pull Request - State: closed - Opened by mikejhuang over 1 year ago - 7 comments

#2709 - How to access Neuropixels session end time?

Issue - State: open - Opened by slcalgin over 1 year ago
Labels: question

#2708 - ticket/PSB-173: Create allensdk_anaconda3 image in Pika dockerhub. Modify Bamboo script

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

#2707 - Ticket/psb-171: Various fixes for VBO release

Pull Request - State: closed - Opened by morriscb over 1 year ago - 2 comments

#2706 - `hdmf` requirement is not compatible with latest `pynwb`

Issue - State: open - Opened by jsiegle over 1 year ago
Labels: bug

#2705 - Issue with statsmodels in allensdk install

Issue - State: open - Opened by ajuavinett over 1 year ago - 1 comment
Labels: bug

#2704 - Poetry dependency manager

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

#2703 - Bump aiohttp from 3.7.4 to 3.8.5

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 3 comments
Labels: dependency

#2701 - fixes issue with loading trials from BehaviorEcephysSession.from_nwb

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

#2700 - Psb 127/mouse connectivity cache bugfix

Pull Request - State: closed - Opened by mikejhuang over 1 year ago - 2 comments

#2699 - ticket/PSB-134: Unpin statsmodels

Pull Request - State: closed - Opened by morriscb over 1 year ago - 3 comments

#2698 - Ticket/psb-167: Fix spurious omitted stimuli at beginning of VBN sessions

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

#2697 - PSB-156 load probe lfp metadata without needing to load lfp

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

#2696 - Add 'quality' column to VBN units metadata table

Issue - State: open - Opened by corbennett over 1 year ago - 1 comment
Labels: enhancement

#2695 - Nondoctrialbug

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

#2694 - Request (Allen Brain Observatory Data): Access to ophys metadata as csv files

Issue - State: open - Opened by ehennestad over 1 year ago
Labels: enhancement

#2693 - Error reading NWB file while session cache is instantiated in workspace

Issue - State: open - Opened by slcalgin over 1 year ago
Labels: question

#2690 - brain observatory pupil size data

Issue - State: closed - Opened by mohamadamin-fjz over 1 year ago - 1 comment
Labels: question

#2689 - Ticket/PSB-130:

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

#2688 - Jupyter notebook instance to access data on AWS gets stuck and fails during creation

Issue - State: closed - Opened by atleer over 1 year ago - 2 comments
Labels: bug

#2687 - pip install allensdk fails in new Conda environment

Issue - State: closed - Opened by Jballbe over 1 year ago - 15 comments
Labels: bug

#2685 - Flawed primary injection structure logic

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

#2684 - JSONDecodeError when running oapi.get_structures_with_sets([1])

Issue - State: open - Opened by pderdeyn over 1 year ago - 1 comment
Labels: bug

#2683 - Ophys NWB Conversion fails if a dff file is missing

Issue - State: open - Opened by Ahad-Allen over 1 year ago - 9 comments
Labels: bug

#2682 - Bugfix/im read

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

#2681 - add_lfp_to_nwb Function seems to add the LFP probe data twice

Issue - State: open - Opened by Ahad-Allen over 1 year ago
Labels: question

#2680 - Optogenetic information in NWB files could be using a more specific data type

Issue - State: open - Opened by Ahad-Allen over 1 year ago
Labels: enhancement

#2679 - ticket/PSB-42: Address issues arrising from VBO NWB validation.

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

#2678 - Fix gaussian_function_2d flipped axes

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

#2677 - datasets diffrences

Issue - State: open - Opened by alih100011 over 1 year ago - 1 comment
Labels: question

#2676 - extract event trace

Issue - State: open - Opened by alih100011 over 1 year ago
Labels: question

#2675 - ticket/PSB-90: Modify VBO metadata writer to test upload of NWBs to S3 cache

Pull Request - State: closed - Opened by morriscb over 1 year ago - 2 comments

#2674 - PSB-17 Read session type, date of acquisition from db

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

#2673 - ticket/PSB-86: Small behavior NWB file creation fixup

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

#2672 - Using imread for Ophys Projections automatically casts them to floats

Issue - State: open - Opened by Ahad-Allen over 1 year ago
Labels: bug

#2671 - Add seeds to notebooks

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

#2670 - Changes to support python 3.10

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

#2669 - Ticket/psb 49/fix fit 2d gaussian

Pull Request - State: closed - Opened by mikejhuang over 1 year ago - 2 comments

#2668 - ticket/PSB-91: Add trials_id calculation to BehaviorSession creation.

Pull Request - State: closed - Opened by morriscb over 1 year ago - 6 comments

#2667 - ticket/PSB-70: Flipped running polarity for VBN behavior only sessions.

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

#2666 - Color annotations for Allen Mouse Brain Atlas

Issue - State: closed - Opened by mariakesa over 1 year ago - 2 comments
Labels: question

#2665 - Ticket/PSB-44: Explicit naming of VBO stim blocks

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

#2664 - Feature non behavior ophys nwb

Pull Request - State: open - Opened by Ahad-Allen over 1 year ago - 2 comments

#2663 - Adding support for stimuli in omFISH project (STAGE_0 and STAGE_1 session types)

Pull Request - State: open - Opened by omidzobeiri almost 2 years ago - 1 comment

#2661 - Flipped running polarity for VBN behavior only sessions

Issue - State: open - Opened by corbennett almost 2 years ago - 13 comments
Labels: bug

#2660 - update VBO read the docs page

Pull Request - State: closed - Opened by matchings almost 2 years ago
Labels: behavior

#2659 - Various fixes to dff calculation

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

#2658 - Ticket/PSB-13: Pika validation of VBO data release

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

#2657 - Slow loading of Visual Behaviour Npixels data

Issue - State: closed - Opened by seankmartin almost 2 years ago - 2 comments
Labels: question

#2656 - Reproduce VBO functional clustering results

Issue - State: closed - Opened by matchings almost 2 years ago - 1 comment

#2655 - X,Y coordinate flip in receptive_field_mapping.fit_2d_gaussian

Issue - State: closed - Opened by michaheilbron almost 2 years ago
Labels: bug

#2654 - Error-when using session.stimulus_presentations #2637 not solved

Issue - State: closed - Opened by mariakesa almost 2 years ago - 1 comment
Labels: bug

#2653 - Can't download experiment files from Neuropixels Brain Observatory

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

#2652 - rc/2.15.1: HOTFIX

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

#2651 - Violation of SWC spec in at least three files

Issue - State: closed - Opened by patrick-nicodemus almost 2 years ago - 1 comment
Labels: bug