spaces in iRODS folder names causing failures

[elyons]

If there are spaces in iRODS folder names, CoGe's workflow will fail:

Fetching /iplant/home/arabiflora/coge_data/Concatenated AFG data/A02concat_R1.fastq Job: mkdir -p /scratch/coge/tmp/uploads/arabiflora/FCFBB44EEBD611EAA59889A743376945/irods/iplant/home/arabiflora/coge_data/Concatenated AFG data && export irodsEnvFile='/opt/apache2/coge/irodsEnv' && iget -fT '/iplant/home/arabiflora/coge_data/Concatenated AFG data/A02concat_R1.fastq' '/scratch/coge/tmp/uploads/arabiflora/FCFBB44EEBD611EAA59889A743376945/irods/iplant/home/arabiflora/coge_data/Concatenated AFG data' && touch /scratch/coge/tmp/uploads/arabiflora/FCFBB44EEBD611EAA59889A743376945/irods/iplant/home/arabiflora/coge_data/Concatenated AFG data/A02concat_R1.fastq.done Submitted at: 31/08/20 at 03:13:44PM Completed at: 31/08/20 at 03:13:58PM Execution time: 12.550773 sec Assigned to task: 14389 Return status: 0 Expected outputs: /scratch/coge/tmp/uploads/arabiflora/FCFBB44EEBD611EAA59889A743376945/irods/iplant/home/arabiflora/coge_data/Concatenated AFG data/A02concat_R1.fastq, /scratch/coge/tmp/uploads/arabiflora/FCFBB44EEBD611EAA59889A743376945/irods/iplant/home/arabiflora/coge_data/Concatenated AFG data/A02concat_R1.fastq.done Command Output: