From ddc879ed256f93add07119a901b11659441f168c Mon Sep 17 00:00:00 2001 From: Cody Baker <51133164+CodyCBakerPhD@users.noreply.github.com> Date: Wed, 2 Aug 2023 08:38:10 -0400 Subject: [PATCH 1/2] Update README.md --- README.md | 15 +++++++++++++-- 1 file changed, 13 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 959f90e..5a7a966 100644 --- a/README.md +++ b/README.md @@ -4,5 +4,16 @@ This repository houses the modules used to convert IBL specific neurophysiology data in the open source [ONE](https://docs.internationalbrainlab.org/en/stable/03_tutorial.html) format (Alyx + ALF) into NWB data standard. -- __Alyx__: a data base that contains all the metadata associated with an experiment: session details, subject details, probe information etc. This data has a one-to-one mapping to supported metadata of NWB. -- __ALF__: format for storage of all the experimental data: electrophysiology time series (raw + processed), trials data, sorted spikes data, behavior (raw + processed), stimulus. + + +# How to convert processed-only data for BWM + +From the first level of the repo as the working directory, + +``` +python ibl_to_nwb/updated_conversion/brainwide_map/convert_brainwide_map_processed_only_parallel.py +``` + +The script contains some values that might want to be changed, such as `number_of_parallel_jobs`, or `base_path` if not running on the DANDI Hub. + +The block about skipping sessions already on DANDI would need to be commented out if a 'patch' conversion + new release is being performed. From f76efbed40318de49271e6148b2921931a9ca71e Mon Sep 17 00:00:00 2001 From: Cody Baker <51133164+CodyCBakerPhD@users.noreply.github.com> Date: Wed, 2 Aug 2023 08:39:25 -0400 Subject: [PATCH 2/2] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 5a7a966..a23e3ac 100644 --- a/README.md +++ b/README.md @@ -2,7 +2,7 @@ [![PyPI version](https://badge.fury.io/py/ibl-to-nwb.svg)](https://badge.fury.io/py/ibl-to-nwb) [![License](https://img.shields.io/badge/License-BSD%203--Clause-blue.svg)](https://opensource.org/licenses/BSD-3-Clause) -This repository houses the modules used to convert IBL specific neurophysiology data in the open source [ONE](https://docs.internationalbrainlab.org/en/stable/03_tutorial.html) format (Alyx + ALF) into NWB data standard. +This repository houses conversion piplines for the IBL data releases, including the Brain Wide Map project.