Description

When splitting an M0 image from an ASL volumes, then we have to remove certain ASL tags when creating the M0.json as not all ASL tags are supposed to be there.

Test on Siemens_PCASL_3DGRASE_VE11C_3 and also find out why there is the T1 tag, why the PLD and labdur tags are wrong, and why the TotalAcquiredPairs tag is wrong after import to BIDS.

When we are removing the dummyScans, we should make sure to reduce and check the TotalAcquiredPairs as well. For example in Siemens_PCASL_2DEPI_VE11C_MB_1, we have 45 pairs (including 2 dummy scans and 2 m0scans). We remove correctly both in BIDS2Legacy, but we reduce the TotalAcquired pairs only to 44 and not to 43.

Tasks

• When splitting M0 from ASL, run the BIDS function that strips the unnecessary ASL tags from the M0.json. Test on Siemens_PCASL_3DGRASE_VE11C_3. Check T1 tag, PLD and labdurs lengths.
• Check TotalAcquiredPairs tag and adjust for removing dummy scans after splitting in Siemens_PCASL_3DGRASE_VE11C_3. and in Siemens_PCASL_2DEPI_VE11C_MB_1.
• Check totalPairs and dummy in xASL_bids_BIDSifyASLJSON, xASL_bids_parseM0, xASL_bids_BIDSifyASLNII, xASL_bids_MergeNifti.

How to test

• Update Siemens_PCASL_multi_VE11C_1 flavor.
• RUn flavors test.
• Do final flavor updates.

Release notes

Fix TotalAcquiredPairs calculation with dummy scans.