[RESOLVED] Issue running run_qc on rawNII

Issues
1

Hi,
I’m attempting to run run_qc in some newly imported BIDS data but it’s failing. I already successfully run this command on previously imported data in nifti.

Here is the path to my sessions:
/gpfs/project/fas/n3/Studies/STIMZO/sessions

Here is the command I’m trying to run:

qunex_container run_qc \
    --sessionsfolder="$my_study_folder/sessions" \
    --sessions="01026CA_J00,01033KK_J00,01046GM_J00,01068GA_J00,01088VX_J0,01095PA_J00,01106LN_J00,01138VC_J00,02017BS_J00,02019VF_J00,02020CQ_J00,02027SL_J00,02028GS_J00,02030VY_J00,02035CS_J00,02045OR_J00,02048CT_J00,02054CV_J00,02056BJ_J00,02074LF_J00,02089RR_J00,02090MV_J00,02105SC_J00,02107CY_J00,02111GK_J00,02115LJ_J00,02116FA_J00,02123MP_J00,02127GA_J00,02135PP_J00,02137SN_J00,03052LC_J00,03053RP_J00,03069SR_J00,03130RT_J00,04021LC_J00,04036DE_J00,04039SD_J00,04091TC_J00,04098SA_J00,05015PB_J00,05018GA_J00,05025GA_J00,05049LA_J00,06038TS_J00,06059AE_J00,06092RA_J00,06100TA_J00,06103JA_J00,07010KB_J00,07012VB_J00,07013YY_J00,07014SB_J00,07016CP_J00,07022GB_J00,07024PG_J00,07031SR_J00,07037BL_J00,07041RF_J00,07060MF_J00,07061BM_J00,07066GB_J00,07073PS_J00,07075MM_J00,07102AF_J00,07104AM_J00,07114JC_J00,07133SG_J00,07134AH_J00,08029BL_J00,08065EY_J00,08067SC_J00,08072DO_J00,08076EO_J00,08081GM_J00,08099CE_J00,08109AF_J00,08112FG_J00,08117ST_J00,08118CA_J00,08119GB_J00,08122PE_J00,08124MM_J00,08128DF_J00,11040SC_J00,11044GS_J00,11050BN_J00,11051SL_J00,11055LF_J00,11062FJ_J00,11063LK_J00,11071JA_J00,11078SB_J00,11080FL_J00,11129LV_J00" \
    --modality='rawNII' \
    --overwrite=yes \
    --container="$qunex_container" \
    --scheduler="SLURM,time=2-00:00:00,ntasks=1,cpus-per-task=1,mem-per-cpu=8000,partition=pi_anticevic"

I’m linking the error comlog for the session 01026CA_J00:
error_run_qc_01026CA_J00_2022-05-07_05.20.0401556542.log (3.6 KB)

Layla

2

Hi Layla,

There were some known issues regarding running raw NIFTI QC in QuNex prior to version 0.92.0. Previously, when you launch multiple rawNII QC jobs in parallel, they will all try to access and write to the same folder at the root level study folder, which may introduce data race.

Please upgrade to a newer a container. The QC image will now be saved in the sessions/QC folder.

Lining