Remove various packages from the blacklist (#10269)

* Remove various packages from the blacklist * graphmap uses openmp, which is problematic with clang
bioconda · Aug 6, 2018 · 8eae705 · 8eae705
1 parent 4498255
commit 8eae705
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Showing 5 changed files with 9 additions and 14 deletions.
diff --git a/build-fail-blacklist b/build-fail-blacklist
@@ -1586,18 +1586,9 @@ recipes/ms
 # GL missing, needs the extended base image
 recipes/emperor
 
-recipes/graphmap
-# /opt/rh/devtoolset-2/root/usr/libexec/gcc/x86_64-redhat-linux/4.8.2/ld: cannot find -lz
-recipes/hera
-
-
 # RuntimeError: Setuptools downloading is disabled in conda build. Be sure to add all dependencies in the meta.yaml  url=https://pypi.org/simple/HyPhy/
 recipes/hivtrace
 
-
-# [Jun 26 23:28:29] SERR ImportError: libstdc++.so.6: cannot open shared object file: No such file or directory
-recipes/htseq/0.6.1
-
 # sed: can't read /opt/conda/conda-bld/idba_1530055808563/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehol/bin/aclocal: No such file or directory
 recipes/idba
 # socket.timeout: timed out

diff --git a/recipes/graphmap/build.sh b/recipes/graphmap/build.sh
@@ -1,8 +1,9 @@
 #!/bin/bash
 
-export CFLAGS="-I$PREFIX/include"
-export LDFLAGS="-L$PREFIX/lib"
-export CPATH=${PREFIX}/include
+export CPP_INCLUDE_PATH=${PREFIX}/include
+export CPLUS_INCLUDE_PATH=${PREFIX}/include
+export CXX_INCLUDE_PATH=${PREFIX}/include
+export LIBRARY_PATH=${PREFIX}/lib
 
 mkdir -p $PREFIX/bin
 

diff --git a/recipes/graphmap/meta.yaml b/recipes/graphmap/meta.yaml
@@ -8,6 +8,7 @@ package:
 
 build:
   number: 2
+  skip: True  # [osx]
 
 source:
   url: https://github.com/isovic/{{ name|lower }}/archive/eb8c75d68b03be95464318afa69b645a59f8f6b7.tar.gz
@@ -18,12 +19,12 @@ source:
 
 requirements:
   build:
-    - {{ compiler('c') }}
+    - {{ compiler('cxx') }}
   host:
     - wget
     - zlib
   run:
-  - zlib
+    - zlib
 
 test:
   commands:

diff --git a/recipes/hera/build.sh b/recipes/hera/build.sh
@@ -2,6 +2,7 @@
 
 mkdir -p $PREFIX/bin
 
+export LIBRARY_PATH=${PREFIX}/lib
 if [ `uname` == Darwin ]; then
   export CFLAGS="-I$PREFIX/include -fgnu89-inline -O2 -D USE_JEMALLOC  -w -lz -Wl,-rpath,${PREFIX}/lib"
 else

diff --git a/recipes/htseq/0.6.1/meta.yaml b/recipes/htseq/0.6.1/meta.yaml
@@ -14,6 +14,7 @@ package:
 requirements:
   host:
   - python
+  - cython
   - numpy ==1.7.1
   - matplotlib ==1.2.1
   run:
-Original file line number
+Diff line change
@@ Expand Up / @@ -14,6 +14,7 @@ package: @@
     requirements:
       host:
       - python
+      - cython
       - numpy ==1.7.1
       - matplotlib ==1.2.1
       run:
@@ Expand Down @@