Job fails if a soft link resolves to 2 different paths - pb-dyim/SMRT-Analysis GitHub Wiki

If you try to run Celera Assembler where $SEYMOUR_HOME is a soft link that resolves to two different paths, the job will fail.

Theoretically, you can solve this problem by using the pathMap= parameter in the \*.spec to circumvent the $FindBin::RealBin check by explicitly stating the location of the binaries. However, in practice this does not work for the error correction step (P_PacBioToCA) in the current version of Celera Assembler.

This was fixed in the newest release of Celera Assembler, and will be included in a later release of SMRT Pipe.