Maxime Wack
323b6be7d2
Change branch naming convention !!
Separate type and name with '/' instead of '|'
'|' is not a widely accepted character, whereas '/' is natural to group branches together
3 months ago
Maxime Wack
e5b80e0dd8
Update README
3 months ago
Maxime Wack
20c3ea5b51
Update README with more details about requirements
3 months ago
Maxime Wack
eb00eb0dc0
Fix timeline.
Isolated diagnostics did not appear because only diag to diag relations were kept.
3 months ago
Maxime Wack
e7560ce94c
Set option in git annex config so that it propagates to other clones
3 months ago
Maxime Wack
8a105062dc
Fix hashes parsing
Ensure the object matches the given type, but also check that it matches if the name was given with the type.
Only accept to match a commit unambiguously
3 months ago
Maxime Wack
f90ebb92e7
Get invalidated from all samples. Indicate wasInvalidatedBy
3 months ago
Maxime Wack
9a5f1c5d92
Update figures
3 months ago
Maxime Wack
6479829b71
Fix tests
3 months ago
Maxime Wack
d83b310735
Portable makefile with creating directories
Test bash-completion before installing completions and removing them
3 months ago
Maxime Wack
e2e7cead82
Correct diagnostic to diagnosis
3 months ago
Maxime Wack
2d3605dcd6
Update gitignore
3 months ago
Maxime Wack
9612b2c794
Fix completing object names with colons. Integrate with bash-completions
3 months ago
Maxime Wack
240989515e
Group related dot-munging operations
3 months ago
Maxime Wack
55d8cc6dd4
Add HPV test
3 months ago
Maxime Wack
08e3ee41b2
Prettier graphical output
- mark branch heads
- mark invalidated objects
- group objects in samples
- group diagnostics
- align samples and data
3 months ago
Maxime Wack
ab3fce7269
Add bash completions
3 months ago
Maxime Wack
794867d0b3
Fix list_patient to silence errors
3 months ago
Maxime Wack
f4269d48e5
Add get all to list all objects
3 months ago
Maxime Wack
9b9d491875
Document Add and List operations in README
3 months ago
Maxime Wack
58a6bf7c2c
Add GPL3 licence
3 months ago
Maxime Wack
3d11f77598
Add documentation and help
3 months ago
Maxime Wack
a1f03c1d0b
Update and add tests
3 months ago
Maxime Wack
c3a81da517
Add modifications in dot to display agents and activities
3 months ago
Maxime Wack
8a698bdf88
Provide a SPARQL endpoint
Implement graph filtering operations internally as SPARQL queries
3 months ago
Maxime Wack
4f1945690d
Enable overriding configuration using environment variables
3 months ago
Maxime Wack
4c61a40106
Make PROVDIER optional and qualify all entities
3 months ago
Maxime Wack
19e451642c
Running rapper to clean up PROV message doesn't need pre-sorting
Also graphviz can output to x11 directly
3 months ago
Maxime Wack
d15ceba4a3
Prettier output
- Announce adding an object
- remove git rev-parse checks
3 months ago
Maxime Wack
39917b91b3
Comments
3 months ago
Maxime Wack
acbac8e09e
Rewrite validate_sample
3 months ago
Maxime Wack
c4943bdbee
Reorganise functions file
3 months ago
Maxime Wack
57ab0beddd
List directory contents idiomatically
3 months ago
Maxime Wack
6b2fd4edc2
Prettier debug log
- colorize in all modes
- add less empty lines
3 months ago
Maxime Wack
50b9e434a7
Accept extra arguments from STDIN
3 months ago
Maxime Wack
a06b30d8de
Simpler dispatch for get functions
3 months ago
Maxime Wack
6419f60567
Abstract turtle2prov to use in get graph and get timeline
3 months ago
Maxime Wack
8281141ab4
List the files added by an object
3 months ago
Maxime Wack
b244278389
Get the git log
3 months ago
Maxime Wack
259517bef1
Fix get object to target the correct argument
3 months ago
Maxime Wack
3531edb791
Generic list object function
3 months ago
Maxime Wack
7a11ad30b6
Validate patients as git repositories
3 months ago
Maxime Wack
54ff4f63a7
Move completion script out of the main functions file
3 months ago
Maxime Wack
25a30a7a86
Checkout any commit with get_object
3 months ago
Maxime Wack
513b8dc8aa
Run the PROV turtle text through rapper to clean it
3 months ago
Maxime Wack
039c54873e
Do not qualify a patient by default
3 months ago
Maxime Wack
055495c7ae
Exit if trying to add a sample that already exists
3 months ago
Maxime Wack
74d416b324
Add get_timeline to generate a diagnostic timeline graphical representation
3 months ago
Maxime Wack
95d74cdb62
Add get_graph to generate a graphical representation of the prov graph
3 months ago
Maxime Wack
4d006d6e55
Rewrite get_last
3 months ago