Add vg 1.4.0

recipes/vg/build.sh

@@ -0,0 +1,12 @@
+#!/bin/bash
+
+export C_INCLUDE_PATH=${PREFIX}/include
+export CPLUS_INCLUDE_PATH=${PREFIX}/include
+export INCLUDE_PATH=${PREFIX}/include
+export LIBRARY_PATH=${PREFIX}/lib
+
+source source_me.sh
+make static || (find . -name config.log -exec cat {} \; ; exit 1)
+
+mkdir -p $PREFIX/bin
+cp bin/vg $PREFIX/bin

recipes/vg/meta.yaml

@@ -0,0 +1,60 @@
+{% set version = "1.6.0" %}
+{% set gxx_version = "7.2.0" %}
+{% set clang_version = "4.0.1" %}
+
+package:
+  name: vg
+  version: {{ version }}
+
+build:
+  number: 0
+
+source:
+  # vg requires submodules in order to build
+  git_url: https://github.com/vgteam/vg.git
+  git_rev: 1f8d1fa24521243546fa12d060b1876cfbf692ab
+  patches:
+    - source_me.sh.patch
+
+requirements:
+  build:
+    # TODO use jinja functions once conda-build 3 is enabled
+    - gcc_linux-64 {{ gxx_version }}  # [linux64]
+    - gxx_linux-64 {{ gxx_version }}  # [linux64]
+    - clangxx_osx-64 {{ clang_version }}  # [osx]
+    - clang_osx-64 {{ clang_version }}    # [osx]
+    - openmp
+    - cmake
+    - zlib {{ CONDA_ZLIB }}*
+    - bzip2 {{ CONDA_BZIP2 }}*
+    - protobuf
+    - jansson
+    - bison
+    - flex
+    - rdflib
+    - unzip
+    - autoconf
+    - automake
+    - libtool
+    - pkg-config
+  run:
+    - zlib {{ CONDA_ZLIB }}*
+    - bzip2 {{ CONDA_BZIP2 }}*
+    # TODO use jinja functions once conda-build 3 is enabled
+    - libgcc >={{ gxx_version }}  # [not osx]
+    - libcxx >={{ clang_version }}  # [osx]
+    - openmp
+
+test:
+  commands:
+    - vg --help
+
+about:
+  home: https://github.com/vgteam/vg
+  license: MIT
+  summary: Tools for working with genome variation graphs.
+
+extra:
+  skip-lints:
+    - missing_hash
+    - uses_git_url

recipes/vg/source_me.sh.patch

@@ -0,0 +1,11 @@
+--- source_me.sh	2018-02-06 08:52:22.507013984 +0100
++++ source_me.sh.patched	2018-02-06 08:52:38.755014384 +0100
+@@ -5,8 +5,6 @@
+ export CPLUS_INCLUDE_PATH=`pwd`/include:$CPLUS_INCLUDE_PATH
+ export INCLUDE_PATH=`pwd`/include:$INCLUDE_PATH
+ export PATH=`pwd`/bin:`pwd`/scripts:$PATH
+-export CC=$(which gcc)
+-export CXX=$(which g++)
+
+ #
+ #  disable until file arguments work as in normal bash :(