Simplified target/bait inputs

[anoronh4]

Previously we have required several tempo files to be generated for each baitset. The processes for generating files such as the coding bed, the intervals list, etc, were not well-documented or formalized, which presents a problem for ease of use and standardization. This PR aims to simplify that process by only requiring the targets.bed and baits.bed and creating the other necessary files within Tempo with a new process.

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[gongyixiao]

I agree this is indeed simplifying the process. But I guess there might be some additional conflicts resolving involved regarding placeHolder values and storeDir.

[gongyixiao]

Some useful links to the resource of the targets/baits/intervals files:
https://sites.google.com/a/broadinstitute.org/legacy-gatk-documentation/dictionary/11009-Intervals-and-interval-lists
https://console.cloud.google.com/storage/browser/gatk-test-data/intervals?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&inv=1&invt=Abm62w&organizationId=548622027621&project=broad-dsde-outreach
https://console.cloud.google.com/storage/browser/gatk-best-practices/somatic-b37?inv=1&invt=Abm62w&project=broad-dsde-outreach