3,045
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to searchGotCloud: Alignment Pipeline (view source)
Revision as of 02:14, 7 November 2012
, 02:14, 7 November 2012→Running the Mapping Pipeline
== Running the Mapping Pipeline ==
== Running the Mapping Pipeline ==
=== Command-Line Options ===
=== Command-Line Options ===
The mapping pipeline is currently a 2 step process.
The mapping pipeline is currently a 2 step process.
===Step 1: Generate the Makefiles, 1 per sample===
Run bin/gen_biopipeline.pl with the appropriate command-line parameters.
Run bin/gen_biopipeline.pl with the appropriate command-line parameters.
Instructions are printed for running the Makefiles.
Instructions are printed for running the Makefiles.
===Step 2: Run the Samples===
Run make -f on each file in the Makefiles directory. Each Makefile is independent and can be run in parallel and across a cloud.
Run make -f on each file in the Makefiles directory. Each Makefile is independent and can be run in parallel and across a cloud.
