DaehwanKimLab / tophat

Spliced read mapper for RNA-Seq
http://ccb.jhu.edu/software/tophat
Boost Software License 1.0
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Clean up tophat's src/Makefile.am #54

Closed hartzell closed 6 years ago

hartzell commented 6 years ago

I'm forwarding this patch from PR #8244 for the Spack package manager, https://github.com/spack/spack/pull/8244.

Tophat was failing to build with automake@1.16.1, it worked with the older automake@1.15.1. This commit adds a patch to Tophat's src/Makefile.am which cleans up a few things. The result builds successfully with both automake@1.15.1 and automake@1.16.1. I have no way to check that the resulting builds Do The Right Thing.

It changes two things:

While it may appear that I'm someone who understands automake, keep in mind that I only play such a person on a TV reality show. YMMV.

Closes #53

hartzell commented 6 years ago

Thanks. Do you know if/when there will be a release including this? Spack will need to apply it until then and not apply it beyond that point.

gpertea commented 6 years ago

I tagged this as v2.1.2 (which includes your patch and some older PRs) -- does that work? (https://github.com/infphilo/tophat/releases/tag/v2.1.2)

hartzell commented 6 years ago

Yep. Here's the new Spack PR: https://github.com/spack/spack/pull/8266

hartzell commented 6 years ago

ps THANKS for the quick and helpful response!