BEPs redirect cleanup (#399)

* BEPs redirect cleanup - Cleaned up BEPs links to not redirect. - Made all external links in new tab. - Adjusted beps table jinja file to take link from yaml file * updated BEPs links corrected links to point to PR (if available) or spec website (if completed)
bids-standard · May 30, 2024 · 2ce099d · 2ce099d
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diff --git a/data/beps.yml b/data/beps.yml
@@ -2,13 +2,15 @@
 # template
 # - number:
 #   title:
+#   link:
 #   leads:
 #     - name:
 #   status:
 #   blocking:
 
 -   number: '004'
     title: Susceptibility Weighted Imaging (SWI)
+    link: https://docs.google.com/document/d/1kyw9mGgacNqeMbp4xZet3RnDhcMmf4_BmRgKaOkO2Sc/
     leads:
     -   name: ' '
     status:
@@ -22,10 +24,11 @@
 
 -   number: '011'
     title: Structural preprocessing derivatives
+    link: https://docs.google.com/document/d/1YG2g4UkEio4t_STIBOqYOwneLEs1emHIXbGKynx7V0Y/
     leads:
     -   name: Viviana Siless
     status:
-    -   Opened [pull request](https://github.com/bids-standard/bids-specification/pull/518).
+    -   Opened [pull request](https://github.com/bids-standard/bids-specification/pull/518){:target="_blank"}.
     -   Need to conform with final Common Derivatives and gather community feedback.
     content:
     -   derivative
@@ -37,10 +40,11 @@
 
 -   number: '012'
     title: Functional preprocessing derivatives
+    link: https://github.com/bids-standard/bids-specification/pull/519
     leads:
     -   name: Chris Markiewicz
     status:
-    -   Opened the [pull request](https://github.com/bids-standard/bids-specification/pull/519).
+    -   Opened the [pull request](https://github.com/bids-standard/bids-specification/pull/519){:target="_blank"}.
     -   'Features: Derivative images (mean, ALFF, ReHo, etc.), Time series (confounds, decompositions, etc.)'
     content:
     -   derivative
@@ -51,11 +55,12 @@
 
 -   number: '014'
     title: Affine transformations and nonlinear field warps
+    link: https://docs.google.com/document/d/11gCzXOPUbYyuQx8fErtMO9tnOKC3kTWiL9axWkkILNE/
     leads:
     -   name: Oscar Esteban
     status:
     -   Creating file format (X5) to store spatial transforms.
-    -   '[There is a software prototype - NiTransforms](https://osf.io/8aq7b/) demonstrates implementation of this BEP. '
+    -   '[There is a software prototype - NiTransforms](https://osf.io/8aq7b/){:target="_blank"} demonstrates implementation of this BEP. '
     -   NiTransforms has been tested and integrated to work within fMRIPrep
     content:
     -   derivative
@@ -66,13 +71,14 @@
 
 -   number: '016'
     title: Diffusion weighted imaging derivatives
+    link: https://github.com/bids-standard/bids-bep016
     leads:
     -   name: Franco Pestilli
     -   name: Oscar Esteban
     status:
-    -   Being discussed [here](https://github.com/bids-standard/bids-bep016).
+    -   Being discussed [here](https://github.com/bids-standard/bids-bep016/){:target="_blank"}.
     -   Coordinating with BEP017.
-    -   Diffusion-weighted model description merged, but must comply to [this](https://github.com/bids-standard/bids-bep016/issues/7).
+    -   Diffusion-weighted model description merged, but must comply to [this](https://github.com/bids-standard/bids-bep016/issues/7){:target="_blank"}.
     -   Upcoming integration across DWI, Tractography, Tractometry, and Connectivity (from fMRI and DWI)
     content:
     -   derivative
@@ -83,10 +89,10 @@
 
 -   number: '017'
     title: Generic BIDS connectivity data schema
+    link: https://docs.google.com/document/d/1ugBdUF6dhElXdj3u9vw0iWjE6f_Bibsro3ah7sRV0GA/
     leads:
     -   name: Eugene Duff
     status:
-    -   '[Current state](https://bids.neuroimaging.io/bep017).'
     -   Intended as a meeting point for minimal harmonisation of connectivity-based formats across modalities.
     -   Seeking use cases spanning modalities and input defining connectivity based formats
     content:
@@ -98,6 +104,7 @@
 
 -   number: '020'
     title: Eye Tracking including Gaze Position and Pupil Size
+    link: https://github.com/bids-standard/bids-specification/pull/1128
     leads:
     -   name: Dejan Draschkow
     status:
@@ -112,6 +119,7 @@
 
 -   number: '021'
     title: Common Electrophysiological Derivatives
+    link: https://docs.google.com/document/d/1PmcVs7vg7Th-cGC-UrX8rAhKUHIzOI-uIOh69_mvdlw/
     leads:
     -   name: Stefan Appelhoff
     -   name: Arnaud Delorme
@@ -121,7 +129,7 @@
     -   name: Robert Oostenveld
     -   name: Cyril Pernet
     status:
-    -   Discussion [here](https://github.com/bids-standard/bep021) UCSD to include head models with BIDS EEG data.
+    -   Discussion [here](https://github.com/bids-standard/bep021){:target="_blank"}. PR [draft](https://github.com/bids-standard/bids-specification/pull/1680){:target="_blank"} in progress. UCSD to include head models with BIDS EEG data.
     -   Developments of BIDS M/EEG pipelines will trigger discussion on storing derived data.
     content:
     -   derivative
@@ -132,12 +140,13 @@
 
 -   number: '022'
     title: Magnetic Resonance Spectroscopy (MRS)
+    link: https://github.com/bids-standard/bids-specification/pull/1377
     leads:
     -   name: Mark Mikkelsen
     -   name: William Clarke
     -   name: Martin Wilson
     status:
-    -   Group discussions [here](https://forum.mrshub.org/t/bids-for-spectroscopy/83) and [here](https://forum.mrshub.org/t/nifti-mrs-discussion-thread/443).
+    -   Group discussions [here](https://forum.mrshub.org/t/bids-for-spectroscopy/83){:target="_blank"} and [here](https://forum.mrshub.org/t/nifti-mrs-discussion-thread/443){:target="_blank"}.
     -   Developed NifTI standard for MRS data - presented abstract at ISMRM; manuscript in preparation.
     content:
     -   raw
@@ -148,6 +157,7 @@
 
 -   number: '023'
     title: PET Preprocessing derivatives
+    link: https://docs.google.com/document/d/1yzsd1J9GT-aA0DWhdlgNr5LCu6_gvbjLyfvYq2FuxlY/
     leads:
     -   name: Martin Noergaard
     -   name: Graham Searle
@@ -165,6 +175,7 @@
 
 -   number: '024'
     title: Computed Tomography scan (CT)
+    link: https://docs.google.com/document/d/1fqnJZ18x5LJC8jiJ8yvPHUGFzNBZ6gW2kywYrUKWtuo/
     leads:
     -   name: Hugo Boniface
     status:
@@ -178,10 +189,11 @@
 
 -   number: '026'
     title: Microelectrode Recordings
+    link: https://docs.google.com/document/d/14KC1d5-Lx-7ZSMtwS7pVAAvz-2WR_uoo5FvsNirzqJw/
     leads:
     -   name:
     status:
-    -   BEP is open to new leadership, see also [BEP032 (animal electrophys)](https://bids.neuroimaging.io/bep032)
+    -   BEP is open to new leadership, see also [BEP032 (animal electrophys)](https://docs.google.com/document/d/1oG-C8T-dWPqfVzL2W8HO3elWK8NIh2cOCPssRGv23n0/){:target="_blank"}
     content:
     -   raw
     blocking: Searching for a new leader.
@@ -191,15 +203,16 @@
 
 -   number: '028'
     title: Provenance
+    link: https://docs.google.com/document/d/1vw3VNDof5cecv2PkFp7Lw_pNUTUo8-m8V4SIdtGJVKs/
     leads:
     -   name: Satra Ghosh
     -   name: Camille Maumet
     status:
     -   BEP aims to provide a description of data manipulation and transformations steps related to a BIDS data element via BIDS structured sidecar JSON-LD
         files.
     -   Can be used to describe provenance at different levels of granularity.
-    -   Discussions held in [this repository](https://github.com/bids-standard/BEP028_BIDSprov).
-    -   A set of [examples](https://github.com/bids-standard/BEP028_BIDSprov/tree/master/examples) and [user stories](https://github.com/bids-standard/BEP028_BIDSprov/issues/48)
+    -   Discussions held in [this repository](https://github.com/bids-standard/BEP028_BIDSprov){:target="_blank"}.
+    -   A set of [examples](https://github.com/bids-standard/BEP028_BIDSprov/tree/master/examples){:target="_blank"} and [user stories](https://github.com/bids-standard/BEP028_BIDSprov/issues/48){:target="_blank"}
         are being refined.
     content:
     -   metadata
@@ -210,15 +223,16 @@
 
 -   number: '032'
     title: Animal electrophysiology
+    link: https://docs.google.com/document/d/1oG-C8T-dWPqfVzL2W8HO3elWK8NIh2cOCPssRGv23n0/
     leads:
     -   name: Sylvain Takerkart
     -   name: Julia Sprenger
     status:
-    -   New BEP, collecting comments and community feedback which may be submitted [here](https://github.com/INCF/neuroscience-data-structure/issues),         directly
-        to [Sylvain](mailto:sylvain.takerkart@univ-amu.fr) &         [Julia](mailto:julia.sprenger@univ-amu.fr), or         [here](https://www.incf.org/sig/incf-working-group-standardized-data)
+    -   New BEP, collecting comments and community feedback which may be submitted [here](https://github.com/INCF/neuroscience-data-structure/issues){:target="_blank"},         directly
+        to [Sylvain](mailto:sylvain.takerkart@univ-amu.fr) &         [Julia](mailto:julia.sprenger@univ-amu.fr), or         [here](https://www.incf.org/sig/incf-working-group-standardized-data){:target="_blank"}
         during the ~monthly meeting.
-    -   Example datasets [here](https://gin.g-node.org/NeuralEnsemble/BEP032-examples).
-    -   'Supporting early stage interaction with: [ProbeInterface & SpikeInterface](https://github.com/SpikeInterface),         [AnDO](https://github.com/INT-NIT/AnDO),         interoperability
+    -   Example datasets [here](https://gin.g-node.org/NeuralEnsemble/BEP032-examples){:target="_blank"}.
+    -   'Supporting early stage interaction with: [ProbeInterface & SpikeInterface](https://github.com/SpikeInterface){:target="_blank"},         [AnDO](https://github.com/INT-NIT/AnDO){:target="_blank"},         interoperability
         with NWB and NIX data/metadata formats.'
     content:
     -   raw
@@ -229,6 +243,7 @@
 
 -   number: '033'
     title: Advanced Diffusion Weighted Imaging (aDWI)
+    link: https://docs.google.com/document/d/1en4ByORlPqwDfZwNOOBTj0GwpYBcS0_2peqreTOvwDU/
     leads:
     -   name: James Gholam
     -   name: Leandro Beltrachini
@@ -237,7 +252,7 @@
     -   'New BEP, seeking contributors and collecting community feedback relating to:         priority sequences to support, best supported binary structured
         formats         (e.g. CBOR? HDF5? MsgPack?).'
     -   Comments may be submitted directly on the document.
-    -   Generating example datasets [here](https://github.com/JAgho/MISP_plot/tree/main) and determining best practice w/ vendors to record data in-sequence
+    -   Generating example datasets [here](https://github.com/JAgho/MISP_plot/tree/main){:target="_blank"} and determining best practice w/ vendors to record data in-sequence
     content:
     -   raw
     blocking: None
@@ -247,11 +262,12 @@
 
 -   number: '034'
     title: Computational modeling
+    link: https://github.com/bids-standard/bids-specification/pull/967
     leads:
     -   name: Michael Schirner
     -   name: Petra Ritter
     status:
-    -   'BEP Computational Models: PR open for review and discussion [here](https://github.com/bids-standard/bids-specification/pull/850)'
+    -   'BEP Computational Models: PR open for review and discussion [here](https://github.com/bids-standard/bids-specification/pull/967){:target="_blank"}'
     content:
     -   derivative
     -   metadata
@@ -262,6 +278,7 @@
 
 -   number: '035'
     title: Modular extensions for individual participant data mega-analyses with non-compliant derivatives
+    link: https://docs.google.com/document/d/1tFRNumQyIgjXBNC3brFDLO9FaikjL84noxK6Om-Ctik/
     leads:
     -   name: Giuseppe Gallitto
     -   name: Balint Kincses
@@ -278,6 +295,7 @@
 
 -   number: '036'
     title: Phenotypic Data Guidelines
+    link: https://docs.google.com/document/d/1WTkfES8L0vItZVyyR68fc-9cO03jS-kCnMnw6602pbc/
     leads:
     -   name: '[Eric Earl](mailto:eric.earl@nih.gov)'
     -   name: '[Samuel Guay](mailto:samuel.guay@umontreal.ca)'
@@ -295,6 +313,7 @@
 
 -   number: '037'
     title: Non-Invasive Brain Stimulation (NIBS)
+    link: https://docs.google.com/document/d/1drYd7kaNbHTcYPR3T_CRDsPcEbFSV7JbJUmhMPeWMqY/
     leads:
     -   name: '[Giacomo Bertazzoli](mailto:giacomo.bertazzoli@unitn.it)'
     -   name: '[Vittorio Iacovella](mailto:vittorio.iacovella@unitn.it)'
@@ -311,6 +330,7 @@
 
 -   number: '038'
     title: Atlases
+    link: https://docs.google.com/document/d/1RxW4cARr3-EiBEcXjLpSIVidvnUSHE7yJCUY91i5TfM/
     leads:
     -   name: '[James Kent](mailto:jamesdkent21@gmail.com)'
     -   name: '[Peer Herholz](mailto:herholz.peer@gmail.com)'
@@ -327,6 +347,7 @@
 
 -   number: '039'
     title: Dimensionality reduction-based networks
+    link: https://docs.google.com/document/d/1GTWsj0MFQedXjOaNk6H0or6IDVFyMAysrJ9I4Zmpz2E/
     leads:
     -   name: '[Arianna Sala](mailto:arianna.sala@uliege.be)'
     -   name: '[Anibal Heinsfeld](mailto:anibalsolon@utexas.edu)'
@@ -344,6 +365,7 @@
 
 -   number: '040'
     title: Functional Ultrasound (fUS)
+    link: https://docs.google.com/document/d/1W3z01mf1E8cfg_OY7ZGqeUeOKv659jCHQBXavtmT-T8/
     leads:
     -   name: '[Jean-Charles Mariani](mailto:jean-charles.mariani@cri-paris.org)'
     -   name: '[Samuel Diebolt](mailto:samuel.diebolt@iconeus.com)'
@@ -359,6 +381,7 @@
 
 -   number: '041'
     title: Statistical Model Derivatives
+    link: https://docs.google.com/document/d/1KHzp-yk8KXvkUIhtN71WU0m4P4kKT9C1yvI-i9_kNeY/
     leads:
     -   name: '[Taylor Salo](mailto:salot@pennmedicine.upenn.edu)'
     status:
@@ -373,6 +396,7 @@
 
 -   number: '042'
     title: Electromyography (EMG)
+    link: https://docs.google.com/document/d/1G5_Eu2OemcZXS9xOGINPA6SUTaZOml7LBmZCMnUhTXA/
     leads:
     -   name: '[Seyed Yahya Shirazi](mailto:shirazi@ieee.org)'
     status:
@@ -386,6 +410,7 @@
 
 -   number: '043'
     title: BIDS Term Mapping
+    link: https://docs.google.com/document/d/1LACjc5hFXDpa2l_QddBPR41Vce_gglGv9WeuBB7LsBU/
     leads:
     -   name: '[Chris Markiewicz](mailto:markiewicz@stanford.edu)'
     -   name: '[Eric Earl](mailto:eric.earl@nih.gov)'