New: cgpbigwig (BigWig manipulation); Update: bcbio (#11347)

- cgpbigwig (https://github.com/cancerit/cgpBigWig) provides bigwig
  generation and manipulation command line tools including bam to bigwig
  conversion.
- bcbio: fixes for QC on variants and peddy for CWL runs

recipes/bcbio-nextgen/meta.yaml

@@ -3,13 +3,13 @@ package:
   version: '1.1.1a'
 
 build:
-  number: 11
+  number: 12
   skip: true # [not py27]
 
 source:
   #url: https://pypi.io/packages/source/b/bcbio-nextgen/bcbio-nextgen-1.1.0.tar.gz
-  url: https://github.com/bcbio/bcbio-nextgen/archive/3f436af.tar.gz
-  sha256: d445fbc9a46bb8d3e6a6d06893154b6cdba0239d12e5aa691ae78ed6d1480807
+  url: https://github.com/bcbio/bcbio-nextgen/archive/b84fc4e.tar.gz
+  sha256: 5ae203bbbdc7181397fff34a4de9c9f42aaa3aafb32fa7b3048c06576ad01024
 
 requirements:
   host:

recipes/cgpbigwig/build.sh

@@ -0,0 +1,7 @@
+#!/bin/bash
+
+mkdir -p $PREFIX/bin
+make -C c clean
+make -C c prefix=$PREFIX HTSLOC=$PREFIX/lib OPTINC="-I$PREFIX/include" LFLAGS="-L$PREFIX/lib"
+cp bin/* $PREFIX/bin
+

recipes/cgpbigwig/meta.yaml

@@ -0,0 +1,50 @@
+{% set version = "1.0.2" %}
+{% set sha256 = "1858d4f59e8a28b95080cfcc48d98571fb50466bb4e6cd20fac8207360910a61" %}
+
+package:
+  name: cgpbigwig
+  version: {{ version }}
+
+build:
+  number: 0
+  skip: true # [not linux]
+
+source:
+  url: https://github.com/cancerit/cgpBigWig/archive/{{ version }}.tar.gz
+  sha256: {{ sha256 }}
+
+requirements:
+  build:
+    - {{ compiler('c') }}
+  host:
+    - zlib
+    - bzip2
+    - xz
+    - gnutls
+    - gmp
+    - libtasn1
+    - nettle
+    - p11-kit
+    - htslib
+    - libbigwig
+  run:
+    - zlib
+    - bzip2
+    - xz
+    - gnutls
+    - gmp
+    - libtasn1
+    - nettle
+    - p11-kit
+    - htslib
+    - libbigwig
+
+about:
+  home: https://github.com/cancerit/cgpBigWig
+  license: GPLv3
+  summary: BigWig manpulation tools using libBigWig and htslib
+
+test:
+  commands:
+    - bam2bw -h
+    - detectExtremeDepth -h