branch master updated (f7618bf -> f8ee22f)

[Ricardo Wurmus]

rekado pushed a change to branch master
in repository guix.

      from  f7618bf   gnu: linux-libre: Update to 4.18.16.
       new  9a6808e   gnu: tophat: Update to 2.1.1.
       new  1d18ee6   gnu: bwa-pssm: Fetch from git.
       new  2ba2d62   gnu: python2-bx-python: Update to 0.8.2.
       new  f5cec00   gnu: Add python-bx-python.
       new  8640f9e   gnu: python-twobitreader: Update to 3.1.6.
       new  7321920   gnu: crossmap: Update to 0.2.9.
       new  a5b0038   gnu: Add python-dnaio.
       new  6b7260b   gnu: cutadapt: Update to 1.18.
       new  6b31040   gnu: python-py2bit: Update to 0.3.0.
       new  42643fc   gnu: python-dendropy: Fetch from git.
       new  e6b65bd   gnu: eolie: Update to 0.9.45.
       new  4d494a4   gnu: deeptools: Update to 3.1.3.
       new  7a1e62c   gnu: delly: Update to 0.7.9.
       new  1c06399   gnu: diamond: Fetch from git.
       new  49b2e86   gnu: Add texlive-latex-doi.
       new  893fbf1   gnu: Add texlive-generic-listofitems.
       new  1d0669f   gnu: Add texlive-latex-readarray.
       new  f50f343   gnu: Add texlive-latex-verbatimbox.
       new  4348a05   gnu: Add texlive-latex-examplep.
       new  5748fe5   gnu: discrover: Fetch from git.
       new  949fa34   gnu: eigensoft: Update to 7.2.1.
       new  c96ca68   gnu: edirect: Update to 10.2.20181018.
       new  38622cc   gnu: express-beta-diversity: Update to 1.0.8.
       new  0db75f7   gnu: fasttree: Use INVOKE.
       new  50e33c3   gnu: python-screed: Update to 1.0.
       new  4b8f453   gnu: khmer: Update to 2.1.2.
       new  4d93a9a   gnu: seqan: Update to 2.4.0.
       new  f8ee22f   gnu: flexbar: Update to 3.4.0.

The 28 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 gnu/local.mk                                       |   3 -
 gnu/packages/bioinformatics.scm                    | 658 +++++++++++----------
 gnu/packages/gnome.scm                             |   6 +-
 .../patches/crossmap-allow-system-pysam.patch      | 121 ----
 .../patches/delly-use-system-libraries.patch       |  56 --
 .../patches/tophat-build-with-later-seqan.patch    |  24 -
 gnu/packages/tex.scm                               | 191 +++++-
 7 files changed, 534 insertions(+), 525 deletions(-)
 delete mode 100644 gnu/packages/patches/crossmap-allow-system-pysam.patch
 delete mode 100644 gnu/packages/patches/delly-use-system-libraries.patch
 delete mode 100644 gnu/packages/patches/tophat-build-with-later-seqan.patch