Have to be fixed before 2017.08 release

[tmozgach]

brew install fails: (The list is based on the high priority list)

• [x] delly (https://github.com/Homebrew/homebrew-science/pull/5412)
• [ ] discovardenovo (https://github.com/bcgsc/orca/issues/19)
• [ ] gubbins (Homebrew/homebrew-science#5752)
• [ ] masurca (Homebrew/homebrew-science#5772)
• [ ] mira (https://github.com/bcgsc/orca/issues/20)
• [ ] pbsuite (https://github.com/Homebrew/homebrew-science/pull/5685 + conflict, bedtools: because Both install bin/bamToFastq)
• [ ] poretools (https://github.com/bcgsc/orca/issues/21)

brew test fails:

• [ ] blasr blasr: revision for hdf5 https://github.com/Homebrew/homebrew-science/pull/5688

brew linkage --test fails:

• [ ] blasr https://github.com/bcgsc/orca/issues/3
• [ ] lobstr https://github.com/Homebrew/homebrew-science/pull/5861
• [x] openssl@1.1 https://github.com/bcgsc/orca/issues/15

[tmozgach]

@sjackman Could you look at these problems and navigate how to fix them. May be we have to get rid off some of them, for example blasr?

[sjackman]

Let's first try updating blasr to the most recent version, 4.0.0.