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| Original file line number | Diff line number | Diff line change |
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| %global __brp_check_rpaths %{nil} | ||
| %global __requires_exclude ^libmpi | ||
| %global packname HTSeedGLM | ||
| %global packver 0.1.0 | ||
| %global rlibdir /usr/local/lib/R/library | ||
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| Name: R-CRAN-%{packname} | ||
| Version: 0.1.0 | ||
| Release: 1%{?dist}%{?buildtag} | ||
| Summary: Hydro Thermal Time Analysis of Seed Germination Using Generalised Linear Model | ||
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| License: GPL-3 | ||
| URL: https://cran.r-project.org/package=%{packname} | ||
| Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz | ||
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| BuildRequires: R-devel | ||
| Requires: R-core | ||
| BuildArch: noarch | ||
| BuildRequires: R-stats | ||
| Requires: R-stats | ||
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| %description | ||
| Seed germinates through the physical process of water uptake by dry seed | ||
| driven by the difference in water potential between the seed and the | ||
| water. There exists seed-to-seed variability in the base seed water | ||
| potential. Hence, there is a need for a distribution such that a viable | ||
| seed with its base seed water potential germinates if and only if the soil | ||
| water potential is more than the base seed water potential. This package | ||
| estimates the stress tolerance and uniformity parameters of the seed lot | ||
| for germination under various temperatures by using the hydro-time model | ||
| of counts of germinated seeds under various water potentials. The | ||
| distribution of base seed water potential has been considered to follow | ||
| Normal, Logistic and Extreme value distribution. The estimated proportion | ||
| of germinated seeds along with the estimates of stress and uniformity | ||
| parameters are obtained using a generalised linear model. The significance | ||
| test of the above parameters for within and between temperatures is also | ||
| performed in the analysis. Details can be found in Kebreab and Murdoch | ||
| (1999) <doi:10.1093/jxb/50.334.655> and Bradford (2002) | ||
| <https://www.jstor.org/stable/4046371>. | ||
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| %prep | ||
| %setup -q -c -n %{packname} | ||
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| # fix end of executable files | ||
| find -type f -executable -exec grep -Iq . {} \; -exec sed -i -e '$a\' {} \; | ||
| # prevent binary stripping | ||
| [ -d %{packname}/src ] && find %{packname}/src -type f -exec \ | ||
| sed -i 's@/usr/bin/strip@/usr/bin/true@g' {} \; || true | ||
| [ -d %{packname}/src ] && find %{packname}/src/Make* -type f -exec \ | ||
| sed -i 's@-g0@@g' {} \; || true | ||
| # don't allow local prefix in executable scripts | ||
| find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' {} \; | ||
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| %build | ||
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| %install | ||
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| mkdir -p %{buildroot}%{rlibdir} | ||
| %{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname} | ||
| test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so) | ||
| rm -f %{buildroot}%{rlibdir}/R.css | ||
| # remove buildroot from installed files | ||
| find %{buildroot}%{rlibdir} -type f -exec sed -i "s@%{buildroot}@@g" {} \; | ||
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| %files | ||
| %{rlibdir}/%{packname} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,66 @@ | ||
| %global __brp_check_rpaths %{nil} | ||
| %global __requires_exclude ^libmpi | ||
| %global packname LLIC | ||
| %global packver 3.0.0 | ||
| %global rlibdir /usr/local/lib/R/library | ||
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| Name: R-CRAN-%{packname} | ||
| Version: 3.0.0 | ||
| Release: 1%{?dist}%{?buildtag} | ||
| Summary: Likelihood Criterion (LIC) Analysis for Laplace Regression Model | ||
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| License: MIT + file LICENSE | ||
| URL: https://cran.r-project.org/package=%{packname} | ||
| Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz | ||
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| BuildRequires: R-devel >= 3.5.0 | ||
| Requires: R-core >= 3.5.0 | ||
| BuildArch: noarch | ||
| BuildRequires: R-stats | ||
| BuildRequires: R-CRAN-VGAM | ||
| BuildRequires: R-CRAN-dplyr | ||
| BuildRequires: R-CRAN-LaplacesDemon | ||
| BuildRequires: R-CRAN-relliptical | ||
| BuildRequires: R-CRAN-ggplot2 | ||
| BuildRequires: R-CRAN-rlang | ||
| Requires: R-stats | ||
| Requires: R-CRAN-VGAM | ||
| Requires: R-CRAN-dplyr | ||
| Requires: R-CRAN-LaplacesDemon | ||
| Requires: R-CRAN-relliptical | ||
| Requires: R-CRAN-ggplot2 | ||
| Requires: R-CRAN-rlang | ||
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| %description | ||
| Performs likelihood criterion analysis using the Laplace regression model | ||
| to determine its optimal subset of variables. The methodology is based on | ||
| Guo et al. (2023), LIC criterion for optimal subset selection in | ||
| distributed interval estimation <doi:10.1080/02331888.2020.1823979>. | ||
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| %prep | ||
| %setup -q -c -n %{packname} | ||
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| # fix end of executable files | ||
| find -type f -executable -exec grep -Iq . {} \; -exec sed -i -e '$a\' {} \; | ||
| # prevent binary stripping | ||
| [ -d %{packname}/src ] && find %{packname}/src -type f -exec \ | ||
| sed -i 's@/usr/bin/strip@/usr/bin/true@g' {} \; || true | ||
| [ -d %{packname}/src ] && find %{packname}/src/Make* -type f -exec \ | ||
| sed -i 's@-g0@@g' {} \; || true | ||
| # don't allow local prefix in executable scripts | ||
| find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' {} \; | ||
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| %build | ||
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| %install | ||
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| mkdir -p %{buildroot}%{rlibdir} | ||
| %{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname} | ||
| test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so) | ||
| rm -f %{buildroot}%{rlibdir}/R.css | ||
| # remove buildroot from installed files | ||
| find %{buildroot}%{rlibdir} -type f -exec sed -i "s@%{buildroot}@@g" {} \; | ||
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| %files | ||
| %{rlibdir}/%{packname} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,70 @@ | ||
| %global __brp_check_rpaths %{nil} | ||
| %global __requires_exclude ^libmpi | ||
| %global packname TAD | ||
| %global packver 1.0.0 | ||
| %global rlibdir /usr/local/lib/R/library | ||
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| Name: R-CRAN-%{packname} | ||
| Version: 1.0.0 | ||
| Release: 1%{?dist}%{?buildtag} | ||
| Summary: Realize the Trait Abundance Distribution | ||
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| License: BSD_3_clause + file LICENSE | ||
| URL: https://cran.r-project.org/package=%{packname} | ||
| Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz | ||
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| BuildRequires: R-devel >= 3.5 | ||
| Requires: R-core >= 3.5 | ||
| BuildArch: noarch | ||
| BuildRequires: R-CRAN-mblm >= 0.12 | ||
| BuildRequires: R-CRAN-doFuture | ||
| BuildRequires: R-CRAN-foreach | ||
| BuildRequires: R-methods | ||
| BuildRequires: R-stats | ||
| Requires: R-CRAN-mblm >= 0.12 | ||
| Requires: R-CRAN-doFuture | ||
| Requires: R-CRAN-foreach | ||
| Requires: R-methods | ||
| Requires: R-stats | ||
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| %description | ||
| This analytical framework is based on an analysis of the shape of the | ||
| trait abundance distributions to better understand community assembly | ||
| processes, and predict community dynamics under environmental changes. | ||
| This framework mobilized a study of the relationship between the moments | ||
| describing the shape of the distributions: the skewness and the kurtosis | ||
| (SKR). The SKR allows the identification of commonalities in the shape of | ||
| trait distributions across contrasting communities. Derived from the SKR, | ||
| we developed mathematical parameters that summarise the complex pattern of | ||
| distributions by assessing (i) the R², (ii) the Y-intercept, (iii) the | ||
| slope, (iv) the functional stability of community (TADstab), and, (v) the | ||
| distance from specific distribution families (i.e., the distance from the | ||
| skew-uniform family a limit to the highest degree of evenness: TADeve). | ||
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| %prep | ||
| %setup -q -c -n %{packname} | ||
|
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||
| # fix end of executable files | ||
| find -type f -executable -exec grep -Iq . {} \; -exec sed -i -e '$a\' {} \; | ||
| # prevent binary stripping | ||
| [ -d %{packname}/src ] && find %{packname}/src -type f -exec \ | ||
| sed -i 's@/usr/bin/strip@/usr/bin/true@g' {} \; || true | ||
| [ -d %{packname}/src ] && find %{packname}/src/Make* -type f -exec \ | ||
| sed -i 's@-g0@@g' {} \; || true | ||
| # don't allow local prefix in executable scripts | ||
| find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' {} \; | ||
|
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| %build | ||
|
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||
| %install | ||
|
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| mkdir -p %{buildroot}%{rlibdir} | ||
| %{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname} | ||
| test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so) | ||
| rm -f %{buildroot}%{rlibdir}/R.css | ||
| # remove buildroot from installed files | ||
| find %{buildroot}%{rlibdir} -type f -exec sed -i "s@%{buildroot}@@g" {} \; | ||
|
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| %files | ||
| %{rlibdir}/%{packname} |
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