Index

Symbols

1-001 1-002 2-001

2-002 2-003 2-004 3-001

A

absolute path adjusted branch

annex annex UUID

B

bare Git repositories bash

Bitbucket branch broken symlink

C

Chapter 1. DataLad datasets 10. Advanced Options 11. Go big or go home 12. Computing on clusters 13. Better late than never 14. Special purpose showrooms 15. DataLad internals 16. DataLad extensions 2. DataLad Run 3. git-annex 4. Collaboration 5. Configuration 6. Data analysis (YODA) 7. Software container 8. Third party infrastructure 9. Help yourself Special purpose showrooms

Cheatsheet checksum clone command Line commit commit message compute node conda Config files .datalad/config .git/config .gitattributes .gitmodules container container image container recipe crippled filesystem

D

datalad command addurls clone, [1], [2], [3], [4], [5], [6], [7], [8], [9] containers-add containers-list containers-remove containers-run copy-file create create-sibling, [1], [2] create-sibling-gin create-sibling-github, [1], [2], [3] create-sibling-gitlab, [1] create-sibling-ria, [1], [2], [3] datalad subdatasets diff drop, [1] get push remove rerun run run-procedure save save --to-git siblings status uninstall unlock update wtf

DataLad dataset DataLad extension DataLad Gooey DataLad subdataset DataLad superdataset dataset ID Debian Debugging debugging Docker Docker-Hub DOI

E

environment variable, [1] ephemeral clone

extensions extractor

F

force-push

fork

G

GIN Git git config Git config file Git identity

git-annex git-annex branch GitHub Gitk GitLab globbing

H

high-performance computing (HPC) high-throughput computing (HTC) hooks

http https Human Connectome Project (HCP)

L

log level

logging

M

Make Makefile manpage

master merge merge request metadata

N

nano	nesting, [1]

O

object-tree

OHBM 2020 Poster Open Science Framework (OSF)

P

pager paths permissions pip

pipe procedures provenance publication dependency pull request

R

ref relative path remote Remote Indexed Archive (RIA) store, [1]

result hooks run procedure run record run-procedures

S

sed shasum shebang shell, [1] sibling Singularity Singularity-Hub software container, [1] special remote

squash SSH SSH key SSH server stderr stdin stdout submodule symlink (broken)

T

tab completion, [1] tag

terminal, [1] the DataLad superdataset /// tig

U

Ubuntu Usecase Basic provenance tracking Basic Reproducible Neuroimaging Collaboration Encrypted data storage and transport Machine Learning Analysis Remote Indexed Archive (RIA) store Reproducible Neuroimaging reproducible paper Scaling up: 80TB and 15 million files Student supervision Using Globus as data store

UUID

V

version control

vim virtual environment

W

WSL

Y

YODA principles

Z

zsh