fmriprep: bind-mount all important dirs

This is regardless if they're automatically bound or not. It helps avoid
footguns as the user adjusts this to their needs.

fmriprep/gen_submit.sh

 #!/bin/bash
-# v1.2
+# v1.3
 
 CPUS='1'
 RAM='8G'
@@ -7,6 +7,7 @@ DISK='90G'
 LOGS_DIR=~/htcondor-templates/fmriprep/logs
 
 FMRIPREP='/data/project/singularity/fmriprep-20.0.5.simg'
+WORK_DIR='/tmp'
 BIDS_DIR='/data/project/llamas'
 OUTPUT_DIR='/data/project/llamas/Derivatives'
 
@@ -28,11 +29,11 @@ executable     = /usr/bin/singularity
 
 # loop over all subjects
 for sub in sub-{01..36}; do
-    printf "arguments = run --cleanenv -B ${BIDS_DIR},/opt/freesurfer/6.0/license.txt:/opt/freesurfer/license.txt \
+    printf "arguments = run --cleanenv -B ${WORK_DIR},${BIDS_DIR},${OUTPUT_DIR},/opt/freesurfer/6.0/license.txt:/opt/freesurfer/license.txt \
                         ${FMRIPREP} \
                         --n_cpus ${CPUS} \
                         --skull-strip-fixed-seed \
-                        --work-dir /tmp \
+                        --work-dir ${WORK_DIR} \
                         ${BIDS_DIR} ${OUTPUT_DIR} participant \
                         --participant-label ${sub}\n"
     printf "log       = ${LOGS_DIR}/\$(Cluster).\$(Process).${sub}.log\n"