If cmake is run with -DTRACE=ON, then some #ifdefs become active that make strobealign print the list of found NAMs for each query.
I find myself adding this type of output quite often for debugging purposes, and think it would be nice to have this as part of the code, disabled by default, but easily enabled.
CHUNK_SIZE is forced to 1 when tracing is on to ensure that SAM/PAF output comes right after the corresponding tracing output. (Otherwise you get the tracing output for all queries within one chunk follewd by all the SAM/PAF output for all queries in the chunk.)
ksahlin
commented
3 weeks ago
If
cmakeis run with-DTRACE=ON, then some#ifdefs become active that make strobealign print the list of found NAMs for each query.I find myself adding this type of output quite often for debugging purposes, and think it would be nice to have this as part of the code, disabled by default, but easily enabled.
CHUNK_SIZEis forced to 1 when tracing is on to ensure that SAM/PAF output comes right after the corresponding tracing output. (Otherwise you get the tracing output for all queries within one chunk follewd by all the SAM/PAF output for all queries in the chunk.)