biocore / oecophylla

shotgun pipeline
MIT License
11 stars 19 forks source link

updated temp dir specifications in a few rules #156

Closed tanaes closed 5 years ago

tanaes commented 6 years ago

There were a few rules that just called TMP_DIR_ROOT directly without interpreting shell variables. This causes problems when using more complex scratch specifications, as on Comet, or in the new /panfs/panfs1.ucsd.edu/panscratch/$USER scratch specification on Barnacle.