From 89c6e473b09318159f3cb9f36227ffe48ddafbc1 Mon Sep 17 00:00:00 2001 From: Remi Gau Date: Wed, 31 Jul 2024 18:12:05 +0200 Subject: [PATCH 1/3] fix typo --- dataset_listing.tsv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/dataset_listing.tsv b/dataset_listing.tsv index 5bd1e3f53..3ba09035e 100644 --- a/dataset_listing.tsv +++ b/dataset_listing.tsv @@ -59,7 +59,7 @@ pet005 T1w, PET [@mnoergaard](https://github.com/mnoergaard) anat, pet T1w, eve micr_SEM Example SEM dataset in PNG format with 1 sample imaged over 2 sessions [link](https://doi.org/10.5281/zenodo.5498378) [@jcohenadad](https://github.com/jcohenadad) micr SEM, photo, samples, sessions micr_SEMzarr Example SEM dataset in PNG and OME-ZARR format with 1 sample imaged over 2 sessions [@TheChymera](https://github.com/TheChymera) micr SEM, SPIM, samples, sessions micr_SPIM Example SPIM dataset in OME-TIFF format with 2 samples from the same subject with 4 chunks each [link](https://doi.org/10.5281/zenodo.5517223) [@jcohenadad](https://github.com/jcohenadad) micr SPIM, photo, samples -fnirs_tapping Example fNIRS measurement with three conditions from five subjects [link](https://doi.org/10.5281/zenodo.5529797) [@rob_luke](https://github.com/rob_luke) nirs channels, coordsystem, events, nirs, optodes, scans +fnirs_tapping Example fNIRS measurement with three conditions from five subjects [link](https://doi.org/10.5281/zenodo.5529797) [@rob-luke](https://github.com/rob-luke) nirs channels, coordsystem, events, nirs, optodes, scans fnirs_automaticity 24 subjects performing (non-)automatic finger tapping and foot stepping [link](https://doi.org/10.34973/vesb-mh30) [@robertoostenveld](https://github.com/robertoostenveld) nirs channels, coordsystem, events, nirs, optodes, practicelogbook, scans motion_systemvalidation Example dataset of two different motion captured system recorded almost simultaneously, but no brain data [link](https://doi.org/10.6084/m9.figshare.20238006.v2) [@JuliusWelzel](https://github.com/JuliusWelzel) motion channels, motion, scans ds000117 A multi-subject, multi-modal human neuroimaging dataset of 19 subjects on a MEG visual task [link](https://openneuro.org/datasets/ds000117/) [@RikHenson](https://github.com/RikHenson) anat, beh, dwi, fmap, func, meg FLASH, T1w, beh, bold, channels, coordsystem, dwi, events, headshape, magnitude1, magnitude2, meg, phasediff, scans From fc84fd0f42560973b605ce812c7cf490800449e5 Mon Sep 17 00:00:00 2001 From: Remi Gau Date: Wed, 31 Jul 2024 18:17:18 +0200 Subject: [PATCH 2/3] insert tables on a comment rather than a heading --- README.md | 3 ++- tools/print_dataset_listing.py | 3 ++- 2 files changed, 4 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 02901f0ff..d94280f46 100644 --- a/README.md +++ b/README.md @@ -113,6 +113,7 @@ file or open a and ask us directly. ## Dataset index + " def main(output_file=None): @@ -123,7 +124,7 @@ def clean_previous_run(output_file: Path) -> None: lines = output_file.read_text().split("\n") with output_file.open("w") as f: for line in lines: - if line.startswith("## Dataset index"): + if line.startswith(DELIMITER): f.write(line + "\n") add_warning(f) break From bf6144c7069cc795aa8ed58061e0cd12ae18d8d0 Mon Sep 17 00:00:00 2001 From: Chris Markiewicz Date: Mon, 5 Aug 2024 23:08:45 -0400 Subject: [PATCH 3/3] fix: (Re)move sidecars with no data files --- ds000117/task-facerecognition_beh.json | 3 --- ds000248/{acq-epi_T1w.json => T1w.json} | 0 eeg_rest_fmri/acq-NODDI66DIR_dwi.json | 9 --------- 3 files changed, 12 deletions(-) delete mode 100644 ds000117/task-facerecognition_beh.json rename ds000248/{acq-epi_T1w.json => T1w.json} (100%) delete mode 100644 eeg_rest_fmri/acq-NODDI66DIR_dwi.json diff --git a/ds000117/task-facerecognition_beh.json b/ds000117/task-facerecognition_beh.json deleted file mode 100644 index 7bed447ab..000000000 --- a/ds000117/task-facerecognition_beh.json +++ /dev/null @@ -1,3 +0,0 @@ -{ - "TaskDescription": "After the M/EEG acquisition, participants saw each of the 300 faces again, but now used three buttons to indicate whether (1) they had not seen the face before the experiment, (2) the face looked familiar, but they could not remember from where, or (3) they knew the face, i.e. could remember definite fact about them, such as their job, a movie they were in, their name etc. On average across participants, 73% of famous faces were given a rating of 2-3, and 86% of nonfamous faces were given a rating of 1. These debriefing data could be used to further refine familiarity of each participant with each face, and are available on request, but were not used in the current validation." -} diff --git a/ds000248/acq-epi_T1w.json b/ds000248/T1w.json similarity index 100% rename from ds000248/acq-epi_T1w.json rename to ds000248/T1w.json diff --git a/eeg_rest_fmri/acq-NODDI66DIR_dwi.json b/eeg_rest_fmri/acq-NODDI66DIR_dwi.json deleted file mode 100644 index 8aff3be11..000000000 --- a/eeg_rest_fmri/acq-NODDI66DIR_dwi.json +++ /dev/null @@ -1,9 +0,0 @@ -{ - "Manufacturer": "Siemens", - "ManufacturersModelName":"Avanto ", - "MagneticFieldStrength":1.5, - "GradientSetType":"self-shielded gradient set with maximum gradient amplitude of 40 mT m−1", - "PulseSequenceType":"SE-EPI", - "RepetitionTime": 8.3, - "EchoTime": 0.098 -}