14
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to search→Optional Configurable Settings
** Maximum amount of memory used by samtools sort after running bwa
** Maximum amount of memory used by samtools sort after running bwa
* JAVA_MEM = -Xmx4g
* JAVA_MEM = -Xmx4g
** Set the maximum size of the java memory allocation pool. Default is 4g, adjust that as necessary.
** Set the maximum size of the java memory allocation pool. Default is 4g, adjust that as necessary.
*BATCH_TYPE = mosix
** Tells the cluster gateway to use mosix to send jobs to the client nodes.
*BATCH_OPTS = -j36,37,38,39,40,41,45,46,47,48,49
** Specifies which client nodes mosix should send jobs to.
== Running the Alignment Pipeline ==
== Running the Alignment Pipeline ==
