Complete workflow using the conda env approach.

A temporary conda environment is built within the workflow process and is used to launch the atac leader job. This environment is deleted at the end of the workflow so the user does not have to worry about their home2 directory filling up!

workflow/configs/biohpc.config

 singularity {
   enabled = true
-  runOptions = ' -B /cm/shared/apps/slurm/16.05.8 -B /etc/slurm -B /cm/shared/apps/slurm/var/etc/ -B /usr/lib64/libreadline.so.6 -B /usr/lib64/libhistory.so.6 -B /usr/lib64/libtinfo.so.5 -B /var/run/munge -B /usr/lib64/libmunge.so.2 -B /usr/lib64/libmunge.so.2.0.0 -B /cm/shared/apps/slurm/16.05.8/lib64/slurm/  -B /cm/shared/apps/slurm/16.05.8/lib64' 
+  runOptions = ''
+  // Below connects the experimental atac container to BioHPC's Slurm job scheduler.
+  // runOptions = '\
+  // --bind /cm/shared/apps/slurm/16.05.8,/etc/slurm,/cm/shared/apps/slurm/var/etc/,/usr/lib64/libreadline.so.6 \
+  // --bind /usr/lib64/libhistory.so.6,/usr/lib64/libtinfo.so.5,/var/run/munge,/usr/lib64/libmunge.so.2 \
+  // --bind /usr/lib64/libmunge.so.2.0.0,/cm/shared/apps/slurm/16.05.8/lib64/slurm/'
+
                                              // Please do NOT use "--disable-cache" in this runOptions. 
                                               // Starting from version 2.0.0, the astrocyte_cli will clean up the cache automatically.
   // runOptions = '--bind /vagrant:/vagrant'  // Use this one for vagrant development env only
@@ -16,7 +22,8 @@ process {
     beforeScript = 'ulimit -Ss unlimited'
 
     withName:runSource {
-        container = 'docker://git.biohpc.swmed.edu:5050/s219741/astrocyte-atac-source/atac:0.0.1'
+        // Experimental containerized version of the caper software.
+        // container = 'docker://git.biohpc.swmed.edu:5050/s219741/astrocyte-atac-source/atac:0.0.1'
         executor = 'local'
     }
 }