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./opencga.sh files link -i ALL.chr22.phase3_shapeit2_mvncall_integrated_v5a.20130502.genotypes.vcf.gz -s "sudy" ./opencga.sh variant index --file ALL.chr22.phase3_shapeit2_mvncall_integrated_v5a.20130502.genotypes.vcf.gz --calculate-stats --annotate -o tmp |
Once If OpenCGA daemon is not running, user can start it with the following command:
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/opt/opencga/bin$ ./opencga-admin.sh catalog daemon --start <<< admin_password |
Once daemon is started, it will fetch available jobs from the catalog, prepare them and then submit each catalog job as an "Azure Task" to the pool specified in "configuration.yml". A typical Azure task command will look like :
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