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From Genome Analysis Wiki
Jump to navigationJump to search→STEP 2 : Run GotCloud Alignment Pipeline
~/gotcloud/gotcloud align --conf ~/gotcloudExample/[[#Alignment Configuration File|GBR2align.conf]] --outdir [[#Alignment Output Directory|~/gotcloudTutorialOut]] --baseprefix ~/gotcloudExample
~/gotcloud/gotcloud align --conf ~/gotcloudExample/[[#Alignment Configuration File|GBR2align.conf]] --outdir [[#Alignment Output Directory|~/gotcloudTutorialOut]] --baseprefix ~/gotcloudExample
Upon successful completion of the alignment pipeline (about 1-2 minutes), you will see the following message:
Upon successful completion of the alignment pipeline (about 1-3 minutes), you will see the following message:
Processing finished in nn secs with no errors reported
Processing finished in nn secs with no errors reported
