Commit Graph

13 Commits

Author SHA1 Message Date
Todd Gamblin
05fa302655
Replace github.com/llnl/spack with github.com/spack/spack (#6142)
We moved to a new GitHub org! Now make the code and docs reflect that.
2017-11-04 17:08:04 -07:00
Carlos Bederián
db149876a4 samtools: add version 1.6 + some fixes (#5715)
* htslib: add version 1.6

* samtools: add version 1.6, remove zlib dependency

* bcftools: add version 1.6, switch to using standalone htslib
2017-10-12 10:08:31 -06:00
Michael Kuhn
84ae7872d3 Update copyright notices for 2017 (#5295) 2017-09-06 17:44:16 -10:00
Todd Gamblin
cac4362f64 Make LICENSE recognizable by GitHub. (#4598) 2017-06-24 22:22:55 -07:00
Adam J. Stewart
745e2ce52f Fixes needed to build htop (#3691)
* Fixes needed to build htop

* Build libncursesw.so, not libncurses.so

* Remove htop hack now that it is picking up newer ncurses

* Tell packages to link to new ncursesw libraries
2017-04-05 16:03:11 -05:00
George Hartzell
259cc02260 htslib depends_on version must match samtools (#3625) 2017-03-29 14:20:37 -05:00
George Hartzell
d6cbae81c7 Update/samtools (#3595)
* Update samtools family to 1.4

* simple cleanup

* Make bzip depends_on for future versions too
2017-03-28 21:34:41 -05:00
Tom Merrick
d71f8dcab5 samtools could not find the ncurses library (#1785) 2016-09-20 02:27:19 -07:00
George Hartzell
769408130a Samtools depends on htslib from 1.3.1 onward
Samtools used to (before 1.3.1) include it's own copy of htslib.  Going
forward, it needs to use the standalone htslib.
2016-08-05 17:47:11 -04:00
George Hartzell
d6dedee6ff Flake8 cleanup 2016-08-04 15:23:04 -04:00
George Hartzell
ba0577dc96 Update samtools to support v1.3.1
Update the samtools package to support v1.3.1, which
- now uses configure script; and
- now depends on external htslib package.

The dependency on mpc seems to have been bogus, it's never linked in,
nor is it mentioned in the source tree.  I *do* have a version in
/usr/lib64, but ldd does not sure it being linked in either....

By depending on 'ncurses' I can do away with the need for the patch.
2016-08-04 14:18:03 -04:00
Todd Gamblin
e7ced54369 Correct LLNL LGPL license template for clarity. 2016-05-11 21:22:25 -07:00
Todd Gamblin
89d5127900 New, cleaner package repository structure.
Package repositories now look like this:

    top-level-dir/
        repo.yaml
        packages/
            libelf/
                package.py
            mpich/
                package.py
            ...

This leaves room at the top level for additional metadata, source,
per-repo configs, indexes, etc., and it makes it easy to see that
something is a spack repo (just look for repo.yaml and packages).
2015-11-26 14:19:27 -08:00