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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/HTSCluster | ||
mv * $PREFIX/lib/R/library/HTSCluster | ||
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 |
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{% set version = '2.0.8' %} | ||
{% set posix = 'm2-' if win else '' %} | ||
{% set native = 'm2w64-' if win else '' %} | ||
|
||
package: | ||
name: r-htscluster | ||
version: {{ version|replace("-", "_") }} | ||
|
||
source: | ||
url: | ||
- {{ cran_mirror }}/src/contrib/HTSCluster_{{ version }}.tar.gz | ||
- {{ cran_mirror }}/src/contrib/Archive/HTSCluster/HTSCluster_{{ version }}.tar.gz | ||
sha256: 6f82fa50bd95620fe5dea7c66a1876a6fea0bd46bb3e1aa54806f5060d74cb72 | ||
|
||
build: | ||
number: 0 | ||
noarch: generic | ||
rpaths: | ||
- lib/R/lib/ | ||
- lib/ | ||
|
||
requirements: | ||
build: | ||
|
||
host: | ||
- r-base | ||
- r-capushe | ||
- bioconductobioconductor-edger | ||
- r-plotrix | ||
run: | ||
- r-base | ||
- r-capushe | ||
- bioconductobioconductor-edger | ||
- r-plotrix | ||
|
||
test: | ||
commands: | ||
- $R -e "library('HTSCluster')" # [not win] | ||
- "\"%R%\" -e \"library('HTSCluster')\"" # [win] | ||
|
||
about: | ||
home: https://CRAN.R-project.org/package=HTSCluster | ||
license: GPL (>= 3) | ||
summary: A Poisson mixture model is implemented to cluster genes from high- throughput transcriptome | ||
sequencing (RNA-seq) data. Parameter estimation is performed using either the EM | ||
or CEM algorithm, and the slope heuristics are used for model selection (i.e., to | ||
choose the number of clusters). | ||
license_family: GPL3 | ||
license_file: '{{ environ["PREFIX"] }}/lib/R/share/licenses/GPL-3' |
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@@ -0,0 +1,33 @@ | ||
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/NBPSeq | ||
mv * $PREFIX/lib/R/library/NBPSeq | ||
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 |
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@@ -0,0 +1,49 @@ | ||
{% set version = '0.3.0' %} | ||
{% set posix = 'm2-' if win else '' %} | ||
{% set native = 'm2w64-' if win else '' %} | ||
|
||
package: | ||
name: r-nbpseq | ||
version: {{ version|replace("-", "_") }} | ||
|
||
source: | ||
url: | ||
- {{ cran_mirror }}/src/contrib/NBPSeq_{{ version }}.tar.gz | ||
- {{ cran_mirror }}/src/contrib/Archive/NBPSeq/NBPSeq_{{ version }}.tar.gz | ||
sha256: 7e251fa017d91ffa7b0c5e740859db4aa4f9bc3b46632983e03c4da161a79e50 | ||
|
||
build: | ||
number: 0 | ||
rpaths: | ||
- lib/R/lib/ | ||
- lib/ | ||
|
||
requirements: | ||
build: | ||
- {{ compiler('c') }} # [not win] | ||
- {{native}}toolchain # [win] | ||
- {{posix}}filesystem # [win] | ||
- {{posix}}make | ||
- {{posix}}sed # [win] | ||
- {{posix}}coreutils # [win] | ||
- {{posix}}zip # [win] | ||
host: | ||
- r-base | ||
- bioconductor-qvalue | ||
run: | ||
- r-base | ||
- {{native}}gcc-libs # [win] | ||
- bioconductor-qvalue | ||
|
||
test: | ||
commands: | ||
- $R -e "library('NBPSeq')" # [not win] | ||
- "\"%R%\" -e \"library('NBPSeq')\"" # [win] | ||
|
||
about: | ||
home: https://CRAN.R-project.org/package=NBPSeq | ||
license: GPL-2 | ||
summary: Negative Binomial (NB) models for two-group comparisons and regression inferences | ||
from RNA-Sequencing Data. | ||
license_family: GPL2 | ||
license_file: '{{ environ["PREFIX"] }}/lib/R/share/licenses/GPL-2' |