Add CRAN R package leapp. (#12428)

recipes/r-leapp/build.sh

@@ -0,0 +1,34 @@
+#!/bin/bash
+if [[ $target_platform =~ linux.* ]] || [[ $target_platform == win-32 ]] || [[ $target_platform == win-64 ]] || [[ $target_platform == osx-64 ]]; then
+  export DISABLE_AUTOBREW=1
+  $R CMD INSTALL --build .
+else
+  mkdir -p $PREFIX/lib/R/library/leapp
+  mv * $PREFIX/lib/R/library/leapp
+  if [[ $target_platform == osx-64 ]]; then
+    pushd $PREFIX
+      for libdir in lib/R/lib lib/R/modules lib/R/library lib/R/bin/exec sysroot/usr/lib; do
+        pushd $libdir || exit 1
+          for SHARED_LIB in $(find . -type f -iname "*.dylib" -or -iname "*.so" -or -iname "R"); do
+            echo "fixing SHARED_LIB $SHARED_LIB"
+            install_name_tool -change /Library/Frameworks/R.framework/Versions/3.5.0-MRO/Resources/lib/libR.dylib "$PREFIX"/lib/R/lib/libR.dylib $SHARED_LIB || true
+            install_name_tool -change /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libR.dylib "$PREFIX"/lib/R/lib/libR.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/local/clang4/lib/libomp.dylib "$PREFIX"/lib/libomp.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/local/gfortran/lib/libgfortran.3.dylib "$PREFIX"/lib/libgfortran.3.dylib $SHARED_LIB || true
+            install_name_tool -change /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib "$PREFIX"/lib/libquadmath.0.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/local/gfortran/lib/libquadmath.0.dylib "$PREFIX"/lib/libquadmath.0.dylib $SHARED_LIB || true
+            install_name_tool -change /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib "$PREFIX"/lib/libgfortran.3.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/lib/libgcc_s.1.dylib "$PREFIX"/lib/libgcc_s.1.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/lib/libiconv.2.dylib "$PREFIX"/sysroot/usr/lib/libiconv.2.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/lib/libncurses.5.4.dylib "$PREFIX"/sysroot/usr/lib/libncurses.5.4.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/lib/libicucore.A.dylib "$PREFIX"/sysroot/usr/lib/libicucore.A.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/lib/libexpat.1.dylib "$PREFIX"/lib/libexpat.1.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/lib/libcurl.4.dylib "$PREFIX"/lib/libcurl.4.dylib $SHARED_LIB || true
+            install_name_tool -change /usr/lib/libc++.1.dylib "$PREFIX"/lib/libc++.1.dylib $SHARED_LIB || true
+            install_name_tool -change /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libc++.1.dylib "$PREFIX"/lib/libc++.1.dylib $SHARED_LIB || true
+          done
+        popd
+      done
+    popd
+  fi
+fi

recipes/r-leapp/meta.yaml

@@ -0,0 +1,47 @@
+{% set version = '1.2' %}
+
+package:
+  name: r-leapp
+  version: {{ version|replace("-", "_") }}
+
+source:
+  url:
+    - {{ cran_mirror }}/src/contrib/leapp_{{ version }}.tar.gz
+    - {{ cran_mirror }}/src/contrib/Archive/leapp/leapp_{{ version }}.tar.gz
+  sha256: 27646512c35ee598a377cd39c1493617dd9db11f5f17c62effc315fa60fd38fa
+
+build:
+  number: 0
+
+  rpaths:
+    - lib/R/lib/
+    - lib/
+
+requirements:
+  host:
+    - r-base
+    - r-mass
+    - r-corpcor
+    - bioconductor-sva
+
+  run:
+    - r-base
+    - r-mass
+    - r-corpcor
+    - bioconductor-sva
+
+test:
+  commands:
+    - $R -e "library('leapp')"
+
+about:
+  home: https://CRAN.R-project.org/package=leapp
+  license: GPL (>= 2)
+  summary: These functions take a gene expression value matrix, a primary covariate vector, an
+    additional known covariates matrix.  A two stage analysis is applied to counter
+    the effects of latent variables on the rankings of hypotheses.  The estimation and
+    adjustment of latent effects are proposed by Sun, Zhang and Owen (2011).  "leapp"
+    is developed in the context of microarray experiments, but may be used as a general
+    tool for high throughput data sets where dependence may be involved.
+  license_family: GPL3
+  license_file: '{{ environ["PREFIX"] }}/lib/R/share/licenses/GPL-3'