During the execution of AlignReads with align and deduplicate options. Baga was not able to find picard.
The installed version from checkforget is 2.5.0 but baga is trying to execute picard-tools-1.135.
I changed the name of the path to picard from external_programs/picard-tools-2.5.0/ to external_programs/picard-tools-1.135/ and is working.
During the execution of AlignReads with align and deduplicate options. Baga was not able to find picard. The installed version from checkforget is 2.5.0 but baga is trying to execute picard-tools-1.135.
I changed the name of the path to picard from external_programs/picard-tools-2.5.0/ to external_programs/picard-tools-1.135/ and is working.