Description

Structural volumetric output (GM/WM/CSF_vol etc.) is not outputted into a stats file at all times. If the session number does not start with 1, no output will be given. Datapath: lood_storage/divi/Projects/ExploreASL/ABBA/NOMARED/derivatives/PseudoM0/NOMARED_PLD7/ (mind, this has been processed before 1.10)

See below:

The printing of the stats files should recognize which session is the first in the subject and output volumetrics accordingly.

Requirements

HENK:

• TestDataSets Siemens3DGRASE_Structural_AlreadyDone_HiQ ASL_1 & ASL_2 renamed to ASL_3 & ASL_7 for testing this 27e928d

Note that all stats columns before the ASL or other outputs, are just copy-pastes from participants.tsv.
Throughout ExploreASL, we assume that the first session is called ASL_1, the second ASL_2, etc. We could change this to always detecting x.SESSIONS as '^ASL_\d+$' and sorting these numerically; and instead of ASL_1 we should use x.SESSIONS{1} if this is already defined

• 1.a xASL_adm_GetPopulationSessions line 28: defaults to 'ASL_1' but should instead default to 'ASL_\d*' and be flexible for each subject.
  The same logics are already used for the other (native space) modules: xASL_init_DefineStudyData line 114: is to search for ASL_\d+ and take ASL_1 as fallback.
  xASL_adm_GetPopulationSessions is used by
  xASL_stat_GetROIStatistics
xASL_stat_PrintStats (only for obtaining nSessions)
• 1.b: xASL_adm_GetPopulationSessions should also be used at the start of the Population module, using qCBF as default input
• 1.c: replace ASL_\d* by ASL_\d+
xASL_adm_CleanUpBeforeRerun
xASL_init_Iteration
• Rebase and test also in other Population functions
• Test also what happens when you already have a Participants.tsv, and if you have one that is wrong (but not put too much time into repairing this, a warning should suffice)
• 1.e have dependent population module functions using x.SESSIONS:
  xASL_qc_SortBySpatialCoV
xASL_qc_ObtainQCCategoriesFromJPG
• 1.d keep old x.SESSIONS of xASL_stat_GetROIStatistics: when feeding back to the population module, then default still to the main population module x.SESSIONS instead of using the potentially more specific one defined for a specific modality within xASL_stat_GetROIStatistics
• 2. xASL_bids_Add2ParticipantsTSV line 69 & 79: here, we assume the first session is named ASL_1. If this is not the case, or if there are inconsistencies, this will crash. Instead, we should instead use the x.SESSIONS defined by xASL_adm_GetPopulationSessions at the start of the Population module.
• Always sort sessions numerically, e.g., {'ASL_1', 'ASL_2', 'ASL_12'} instead of {'ASL_1', 'ASL_12', 'ASL_2'}, using xASL_adm_SortStringNumbers

Release Notes

Improved session handling in Population module