ucscgenomebrowser / kent-core Goto Github PK

Describe the bug
I tried to build the source tree as is to create a Debian package but failed due to several references to code parts that are not contained in kent-core. I've written a patch to fix several issues but its not complete yet.

To Reproduce
Steps to reproduce the behavior:

1. Try make clean to get a first impression what's going on.
2. Try make to see what's happening.

Expected behavior
Building should be possible without parts of ucscGenomeBrowser/kent that are not (yet) part of kent-core. The patch I've created should perfectly work inside the full source tree since its always checking whether a directory exists or not (sometimes with make wildcard sometimes with shell if - no idea what you might prefer in the long run thus filling this issue to discuss about next steps.

I stopped here when I was running into:

make[2]: *** No rule to make target '../lib/x86_64/jkOwnLib.a', needed by 'webBlat'.  Stop.
make[2]: Leaving directory '/builds/med-team/kent-core/debian/output/source_dir/src/webBlat'

since I'm wondering whether you might like to consider providing jkOwnLib.a source code with MIT license to be able to build webBlat which is not possible yet.

Desktop (please complete the following information):

• OS: Debian

Kind regards, Andreas.

Hi,

I'm working on a new R package that contains a trimmed down copy of the kent-core source tree. The package is intended to support manipulation of .2bit files in R. See https://github.com/hpages/Rtwobitlib

First of all, is this acceptable?

If so I'm planning to submit the package to CRAN but I want to make sure that I get the legal stuff right before going any further.

Here's what I've done:

• Copied the LICENSE file from https://github.com/ucscGenomeBrowser/kent-core/ to https://github.com/hpages/Rtwobitlib/

• Added a COPYRIGHTS file in the package that contains the following lines:

  YEAR: 2015-2017
  COPYRIGHT HOLDER: UC Regents
  

• Listed "UC Regents" as a copyright holder in the DESCRIPTION file of the package. See https://github.com/hpages/Rtwobitlib/blob/devel/DESCRIPTION ("UC Regents" is listed with the "cph" role in the Authors@R field)

Is there anything else I should do?

Thanks for making the code in the kent-core repo open source. There's a lot of very valuable stuff in there!

Best,

Hervé Pagès
Bioconductor Core Team

Describe the bug
This repository does not contain a tag

Expected behavior
I'd like to create a Debian package of this code. It helps a lot to spot new versions that are targeting end users if you would tag the according commit with a version.

Thanks a lot for publishing this code as free software, Andreas.