Elina Thibeau Sutre

Minor fixes + addition

1

Hello ClinicaDL team, I recently worked with ClinicaDL on a projet and encountered some minor problems, so this PR intends to fix them: - individual attribution maps were not correctly...

session variables may correspond to an integer (the duration in months between the session and baseline) or to a string ID `ses-MXX`. Moreover DataFrames must be indexed with participant_id and...

Deal with non-integer session values with `tsvtool getlabels`

1

Sessions may have an ID formatted like `ses-XX` where `XX` cannot be converted to an integer.

Similarly to Clinica, we could now use `pathlib` functionalities instead of `os`.

MapsManager API

1

Write appropriate documentation.

Homogeneize with Clinica, refer to another repo for all commands linked to GitHub.

Fix warnings in `merge-tsv`

4

`merge-tsv` raises a lot of warning from pandas which prevents other messages from being seen. This PR solves these issues.

`t1-volume` freezes when one session has not passed one step

1

**Describe the bug** `t1-volume` is made of 4 steps, from tissue segmentation to atlas parcelllation. If during the first step, one or more participants was not correctly processed, the pipeline...

Clinica not displaying the list of CAPS outputs not found

3

**Describe the bug** Clinica used to display the list of crash files linked to the CAPS outputs that were not found at the end of a pipeline. This is not...

Hi! Thank you for maintaining this repo on deep learning studies for the medical field! Is it possible to add our study on Alzheimer's disease classification with CNN on T1-MRI?