Ecosyste.ms: Issues

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

GitHub / yeatmanlab/pyAFQ issues and pull requests

#1064 - List the tissue properties that get profiled.

Issue - State: open - Opened by arokem 11 months ago

#1062 - How do you recalculate tract profiles?

Issue - State: open - Opened by arokem 11 months ago

#1060 - What output should you expect?

Issue - State: open - Opened by arokem 11 months ago

#1058 - How to set all the different parameters.

Issue - State: open - Opened by arokem 11 months ago

#1057 - Getting started running pyAFQ: step-by-step for

Issue - State: open - Opened by arokem 11 months ago

#1056 - More documentation

Issue - State: open - Opened by arokem 11 months ago - 1 comment

#1055 - DOC: finish tractometry figure

Pull Request - State: closed - Opened by 36000 11 months ago - 4 comments

#1053 - [doc] make afq tractometry pipeline page, reorganize usage section

Pull Request - State: closed - Opened by 36000 11 months ago

#1051 - DOC: Extensive documentation improvements

Pull Request - State: closed - Opened by arokem 11 months ago - 3 comments

#1050 - Potential compatibility issues between numpy and vtk?

Issue - State: closed - Opened by chiuhoward 11 months ago - 1 comment

#1049 - [ENH] add some utilities for working with altair and pyafq

Pull Request - State: closed - Opened by 36000 11 months ago - 2 comments

#1048 - [FIX] bf for roi clipping

Pull Request - State: closed - Opened by 36000 11 months ago - 10 comments

#1047 - Edge clipping raises error

Issue - State: closed - Opened by arokem 12 months ago - 1 comment

#1046 - [ENH] add line width argument to fury

Pull Request - State: closed - Opened by 36000 12 months ago

#1045 - Seeding at the GM/WM interface

Issue - State: open - Opened by arokem 12 months ago

#1044 - Integrate better CSA and GQI2 for tractography

Issue - State: open - Opened by 36000 12 months ago

#1043 - Preparations for numpy 2.0

Issue - State: open - Opened by arokem 12 months ago

#1042 - RF: Update call to seaborn plotting.

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

#1041 - [ENH,FIX] Integrate more steps into the segmentation pipeline

Pull Request - State: closed - Opened by 36000 about 1 year ago - 1 comment

#1040 - Trying out a variety of newer Python versions.

Pull Request - State: open - Opened by arokem about 1 year ago

#1039 - GroupAFQ and BIDS error

Issue - State: closed - Opened by radhi-bhalerao about 1 year ago - 2 comments

#1038 - [FIX] pin astroid

Pull Request - State: closed - Opened by 36000 about 1 year ago - 4 comments

#1037 - [enh] set afq home

Pull Request - State: closed - Opened by 36000 about 1 year ago

#1036 - Allow user to define where AFQ_HOME is

Issue - State: closed - Opened by arokem about 1 year ago

#1035 - [ENH] more specific bids entities and fixes to be bids compatible

Pull Request - State: closed - Opened by 36000 about 1 year ago - 7 comments

#1034 - Unable to create the 'tract_profile_plots' output folder

Issue - State: closed - Opened by tpatpa about 1 year ago - 1 comment

#1033 - Memory demands of segmentation

Issue - State: open - Opened by arokem about 1 year ago - 1 comment

#1032 - tracking and segmentation params

Issue - State: open - Opened by 36000 about 1 year ago - 1 comment

#1031 - [FIX] download LV1 roi in this example

Pull Request - State: closed - Opened by 36000 about 1 year ago

#1030 - [FIX] set default back to serial

Pull Request - State: closed - Opened by 36000 about 1 year ago - 2 comments

#1029 - Remove unused MPL import

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

#1028 - ModuleNotFoundError for Matplotlib

Issue - State: closed - Opened by tpatpa about 1 year ago - 5 comments

#1027 - Use cudipy for GPU-based acceleration

Issue - State: open - Opened by arokem about 1 year ago

#1026 - Update installation_guide.rst

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

#1025 - Adds an option to build the docs without running the examples.

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

#1022 - Update installation_guide.rst

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

#1020 - Fence the TRX test by checking whether TRX is installed.

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

#1017 - Removes some of the sphinx gallery ignore patterns.

Pull Request - State: closed - Opened by arokem about 1 year ago - 4 comments

#1016 - WIP: Example visually showing the stages of tractometry.

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

#1015 - [FIX] delete folders in AFQ derivatives when clobbering

Pull Request - State: closed - Opened by 36000 about 1 year ago

#1014 - [ENH] Proposal for better bd management

Pull Request - State: closed - Opened by 36000 about 1 year ago - 1 comment

#1013 - Issue with tractography output files and BIDS format

Issue - State: closed - Opened by pierre-nedelec about 1 year ago - 5 comments

#1012 - Update the pypi action so that it runs on latest ubuntu.

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

#1011 - [FIX] typo in hbn fetcher

Pull Request - State: closed - Opened by 36000 about 1 year ago

#1010 - Installation fails with Python 3.11

Issue - State: closed - Opened by dkp about 1 year ago - 3 comments

#1009 - RF: Set dask as the default paralellization engine.

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

#1008 - Memory leak?

Issue - State: closed - Opened by jyeatman about 1 year ago - 12 comments

#1007 - [ENH] add OR pediatric bundle definition, make it easier to add future pediatric bundles

Pull Request - State: closed - Opened by 36000 about 1 year ago - 2 comments

#1006 - Incorporate TRX

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

#1005 - WIP: Trying to incorporate a notebook into the doc build.

Pull Request - State: open - Opened by arokem about 1 year ago

#1004 - Updates reference documentation with recent additions to kwargs/methods.

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

#1003 - Add an endpoint or exclusion ROI for infant ATR

Issue - State: open - Opened by arokem about 1 year ago

#1002 - added more documentation of dependencies

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

#1001 - Combine bundles rendering

Issue - State: open - Opened by jyeatman about 1 year ago

#1000 - WIP: Adds a notebook with a rather complete baby_afq tutorial.

Pull Request - State: open - Opened by arokem about 1 year ago - 1 comment

#999 - [Doc] add an example of single subject rois; reduce example time

Pull Request - State: closed - Opened by 36000 about 1 year ago - 2 comments

#998 - Upstream fast mahalanobis calculation

Issue - State: closed - Opened by arokem about 1 year ago

#997 - Slf123new

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

#996 - Fetchers/readers could return human-readable paths

Issue - State: closed - Opened by arokem about 1 year ago - 1 comment

#995 - added a new tutorial to segment the SLF1/2/3

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

#994 - [ENH] Bundle montage

Pull Request - State: closed - Opened by 36000 about 1 year ago - 5 comments

#993 - Update plot_viz.py

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

#992 - DOC: Myst

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

#991 - Update setup.cfg with newer pybids

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

#990 - Update to most recent pybids for faster indexing

Issue - State: closed - Opened by pierre-nedelec about 1 year ago - 1 comment

#989 - Examples should be jupyter notebooks to make it easier to write text

Issue - State: open - Opened by 36000 about 1 year ago - 1 comment

#988 - Installation with quotes

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

#987 - [BUG] We need to remove these lines, no longer true

Issue - State: closed - Opened by 36000 about 1 year ago

#986 - [ENH] update dipy

Pull Request - State: closed - Opened by 36000 about 1 year ago - 2 comments

#985 - [FIX] fix a small bug in the curvature code

Pull Request - State: closed - Opened by 36000 about 1 year ago - 4 comments

#984 - We might want to update the default probability threshold to be higher than 0

Issue - State: open - Opened by 36000 about 1 year ago - 2 comments

#983 - Use a simpler way of using tqdm on the tractography

Pull Request - State: closed - Opened by 36000 about 1 year ago - 5 comments

#982 - [ENH] Much faster mahal cleaning

Pull Request - State: closed - Opened by 36000 about 1 year ago - 3 comments

#981 - [FIX] Remove itk

Pull Request - State: closed - Opened by 36000 about 1 year ago - 1 comment

#979 - Participant AFQ versus GroupAFQ

Issue - State: closed - Opened by radhi-bhalerao about 1 year ago

#978 - Speed-memory tradeoff in reading from probability maps?

Issue - State: closed - Opened by arokem over 1 year ago - 2 comments

#977 - [ENH] Adds export_up_to, adds some minor fixes here and there

Pull Request - State: closed - Opened by 36000 over 1 year ago

#976 - [ENH] allow the setting of number of voxels for a seed mask

Pull Request - State: closed - Opened by 36000 over 1 year ago - 1 comment

#975 - [FIX] split GPU pyafq docker builds into differnet actions

Pull Request - State: closed - Opened by 36000 over 1 year ago - 1 comment

#974 - How to address `CsdNanResponseError`?

Issue - State: closed - Opened by smeisler over 1 year ago - 2 comments

#973 - [ENH] Calculate new curvature metric manually

Pull Request - State: closed - Opened by 36000 over 1 year ago - 1 comment

#972 - [ENH] add CUDA 12 compat to GPU tractography

Pull Request - State: closed - Opened by 36000 over 1 year ago - 1 comment

#971 - [ENH] allow GPU docker file to play nice with singularity

Pull Request - State: closed - Opened by 36000 over 1 year ago - 1 comment

#970 - Interface with ModelArray

Issue - State: open - Opened by arokem over 1 year ago - 1 comment

#969 - [DOC] show memory add the end of examples

Pull Request - State: closed - Opened by 36000 over 1 year ago

#968 - NF: Adds fetcher for cerebellar peduncle waypoint ROIs.

Pull Request - State: closed - Opened by arokem over 1 year ago - 8 comments

#967 - OSError and URLError in myafq.export

Issue - State: closed - Opened by snaillyd over 1 year ago - 6 comments

#966 - Infant pipeline troubleshooting

Issue - State: closed - Opened by TeddyTuresky over 1 year ago - 6 comments

#965 - Default seed threshold should not be 0

Issue - State: closed - Opened by arokem over 1 year ago - 6 comments

#964 - Adds back reference documentation to reference section.

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