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[INFRA] Run linkchecker in stock docker image #932

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Nov 17, 2021
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8 changes: 4 additions & 4 deletions .circleci/config.yml
Original file line number Diff line number Diff line change
Expand Up @@ -21,18 +21,18 @@ jobs:

linkchecker:
docker:
- image: yarikoptic/linkchecker:9.4.0.anchorfix1-1
- image: circleci/python:3.8
steps:
# checkout code to default ~/project
- checkout
- attach_workspace:
# mkdocs build outputs will be in ~/project/site
at: ~/project
- run:
name: install git
name: install linkchecker
command: |
apt update -y
apt install git-all -y
python -m ensurepip
python -m pip install linkchecker
- run:
name: check links
command: |
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Original file line number Diff line number Diff line change
Expand Up @@ -3,9 +3,11 @@
## Common metadata fields

MR Data described in the following sections share the following RECOMMENDED metadata
fields (stored in sidecar JSON files). MRI acquisition parameters are divided
into several categories based on
["A checklist for fMRI acquisition methods reporting in the literature"](https://thewinnower.com/papers/977-a-checklist-for-fmri-acquisition-methods-reporting-in-the-literature)
fields (stored in sidecar JSON files).
MRI acquisition parameters are divided into several categories based on
"A checklist for fMRI acquisition methods reporting in the literature"
([article](https://winnower-production.s3.amazonaws.com/papers/977/v4/pdf/977-a-checklist-for-fmri-acquisition-methods-reporting-in-the-literature.pdf),
[checklist](https://winnower-production.s3.amazonaws.com/papers/977/assets/993e199d-6bc3-4418-be3a-f620af1188b7-Parameter_Reporting_V1p3.pdf))
by Ben Inglis.

### Scanner Hardware
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Expand Up @@ -24,7 +24,7 @@ stored in one of the following formats:
| [BrainVision Core Data Format](https://www.brainproducts.com/productdetails.php?id=21&tab=5) | `.vhdr`, `.vmrk`, `.eeg` | Each recording consists of a `.vhdr`, `.vmrk`, `.eeg` file triplet. |
| [EEGLAB](https://sccn.ucsd.edu/eeglab) | `.set`, `.fdt` | The format used by the MATLAB toolbox [EEGLAB](https://sccn.ucsd.edu/eeglab). Each recording consists of a `.set` file with an optional `.fdt` file. |
| [Neurodata Without Borders](https://nwb-schema.readthedocs.io) | `.nwb` | Each recording consists of a single `.nwb` file. |
| [MEF3](https://msel.mayo.edu/files/codes/MEF%203%20Specification.pdf) | `.mefd` | Each recording consists of a `.mefd` directory. |
| [MEF3](https://osf.io/e3sf9/) | `.mefd` | Each recording consists of a `.mefd` directory. |

It is RECOMMENDED to use the European data format, or the BrainVision data
format. It is furthermore discouraged to use the other accepted formats over
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27 changes: 0 additions & 27 deletions tools/linkchecker-docker/neurodocker-build.sh

This file was deleted.