From 5fc398f8880b79f400379fc9bc8e66d1e9987d41 Mon Sep 17 00:00:00 2001
From: Sukanka <su975853527@gmail.com>
Date: Sat, 4 Jun 2022 01:12:53 +0800
Subject: [PATCH] add jasp-desktop

---
 BioArchLinux/jasp-desktop/PKGBUILD   | 121 +++++++++++++++++++++++++++
 BioArchLinux/jasp-desktop/jasp.patch |  33 ++++++++
 BioArchLinux/jasp-desktop/lilac.py   |  12 +++
 BioArchLinux/jasp-desktop/lilac.yaml |  40 +++++++++
 4 files changed, 206 insertions(+)
 create mode 100644 BioArchLinux/jasp-desktop/PKGBUILD
 create mode 100644 BioArchLinux/jasp-desktop/jasp.patch
 create mode 100644 BioArchLinux/jasp-desktop/lilac.py
 create mode 100644 BioArchLinux/jasp-desktop/lilac.yaml

diff --git a/BioArchLinux/jasp-desktop/PKGBUILD b/BioArchLinux/jasp-desktop/PKGBUILD
new file mode 100644
index 0000000000..831ea512a3
--- /dev/null
+++ b/BioArchLinux/jasp-desktop/PKGBUILD
@@ -0,0 +1,121 @@
+#Maintainer: sukanka <su975853527 AT gmail.com>
+
+_pkgname=jasp
+_pkgver=0.16.2
+pkgname=jasp-desktop
+pkgver=${_pkgver//[:-]/.}
+pkgrel=1
+pkgdesc="A complete statistical package for both Bayesian and Frequentist statistical methods"
+arch=('x86_64')
+url="https://github.com/jasp-stats/jasp-desktop"
+license=('AGPL3')
+makedepends=("cmake" 'boost' 'jsoncpp'
+'openssl'
+'autoconf'
+'zlib'
+'bison'
+'flex'
+'jags'
+'gcc-fortran'
+'qtcreator'
+)
+depends=('r'
+'qt6-5compat'
+'readstat'
+'libarchive'
+'r-rinside'
+'qt6-base'
+'qt6-webengine'
+
+# jaspBase
+"r-jaspbase"
+"r-jaspgraphs"
+"r-jaspresults"
+"r-jasptools"
+
+#jaspCommon
+"r-jaspdescriptives"
+"r-jaspttests"
+"r-jaspanova"
+"r-jaspmixedmodels"
+"r-jaspregression"
+"r-jaspfrequencies"
+"r-jaspfactor"
+
+#jaspExtra
+"r-jaspaudit"
+"r-jaspbain"
+"r-jaspbsts"
+"r-jaspcircular"
+"r-jaspcochrane"
+"r-jaspdistributions"
+"r-jaspequivalencettests"
+"r-jaspjags"
+"r-jasplearnbayes"
+"r-jaspmachinelearning"
+"r-jaspmetaanalysis"
+"r-jaspnetwork"
+"r-jaspprocesscontrol"
+"r-jaspreliability"
+"r-jaspsem"
+"r-jaspsummarystatistics"
+"r-jaspvisualmodeling"
+"r-jaspprophet"
+)
+provides=($_pkgname)
+source=("${pkgname}-${pkgver}.tar.gz::https://github.com/jasp-stats/jasp-desktop/archive/refs/tags/v${pkgver}.tar.gz"
+"${_pkgname}".patch
+'jasp.sh'
+"jaspColumnEncoder::git+https://github.com/jasp-stats/jaspColumnEncoder.git"
+'jaspResults::git+https://github.com/jasp-stats/jaspResults.git'
+)
+sha256sums=('6f62db1b2b0741c894a7937f413799887e0d443f25f1b85d59e914847b14fff1'
+            '3e359651595e76790ea287b57cfd629279f027a9934a36b95b2825c2ba3bf43d'
+            'e0714d980e7549b4c7dcbae50370e95b6ad2e7f0cf21a534ceb3a5a83ee583fd'
+            'SKIP'
+            'SKIP'
+            )
+
+prepare(){
+    cd $srcdir/${pkgname}-${pkgver}
+    patch --strip=1 < ../${_pkgname}.patch
+    cp -rf $srcdir/jaspColumnEncoder/*  Common/jaspColumnEncoder
+    cp -rf $srcdir/jaspResults/*        R-Interface/jaspResults
+    
+    find Tools/CMake -name *.cmake -print0 | xargs -0 sed -i "s|/usr/local|/usr|g"
+}
+
+
+build(){
+    cd $srcdir/${pkgname}-${pkgver}
+    mkdir -p ${srcdir}/usr/lib/R
+    cmake -S . -B build -DCUSTOM_R_PATH=/usr/lib/R -DLINUX_LOCAL_BUILD=OFF -DINSTALL_R_MODULES=OFF \
+        -DUSE_LOCAL_R_LIBS_PATH=",lib=\"${srcdir}/usr/lib/R\"" \
+        -DCMAKE_BUILD_TYPE=Release \
+        -DCMAKE_INSTALL_PREFIX=/usr/lib/${pkgname} -DCMAKE_INSTALL_LIBDIR=lib 
+        
+    cmake --build build -- -j 5
+}
+
+package() {
+    cd $srcdir/${pkgname}-${pkgver}/build
+    make install DESTDIR=${pkgdir}
+    install -Dm755 $srcdir/jasp.sh ${pkgdir}/usr/bin/jasp
+
+    cd ${pkgdir}/usr/lib/${pkgname}
+    mv share ${pkgdir}/usr
+    mv Resources ${pkgdir}/usr/share/${pkgname}
+    ln -s /usr/share/${pkgname} ${pkgdir}/usr/lib/${pkgname}/Resources
+
+    rm -rf lib64
+    rm -rf Modules/{renv-cache,*.log}
+    
+
+    # fix RPATH
+    patchelf --add-rpath /usr/lib/R/library/RInside/lib/ \
+        ${pkgdir}/usr/lib/jasp-desktop/bin/JASPEngine
+    sed -i "s|^Exec.*|Exec=jasp %f|g" \
+        ${pkgdir}/usr/share/applications/org.jaspstats.JASP.desktop
+    
+    rm -rf ${pkgdir}/usr/lib/jasp-desktop/{renv-root,renv-cache}
+}
diff --git a/BioArchLinux/jasp-desktop/jasp.patch b/BioArchLinux/jasp-desktop/jasp.patch
new file mode 100644
index 0000000000..64562bcadc
--- /dev/null
+++ b/BioArchLinux/jasp-desktop/jasp.patch
@@ -0,0 +1,33 @@
+diff --color --unified --recursive --text jasp-desktop-0.16.2/Tools/CMake/R.cmake jasp-desktop-0.16.21/Tools/CMake/R.cmake
+--- jasp-desktop-0.16.2/Tools/CMake/R.cmake	2022-04-19 15:47:06.000000000 +0800
++++ jasp-desktop-0.16.21/Tools/CMake/R.cmake	2022-05-23 01:21:50.757847997 +0800
+@@ -706,8 +706,9 @@
+   set(R_EXECUTABLE "${R_HOME_PATH}/bin/R")
+   set(RCPP_PATH "${R_LIBRARY_PATH}/Rcpp")
+   set(RINSIDE_PATH "${R_LIBRARY_PATH}/RInside")
+-
+-  set(USE_LOCAL_R_LIBS_PATH ", lib='${R_LIBRARY_PATH}'")
++  if(NOT USE_LOCAL_R_LIBS_PATH)
++    set(USE_LOCAL_R_LIBS_PATH ", lib='${R_LIBRARY_PATH}'")
++  endif(NOT USE_LOCAL_R_LIBS_PATH)
+ 
+   message(CHECK_START "Looking for R.h")
+   set(R_INCLUDE_PATH "${R_HOME_PATH}/include")
+diff --color --unified --recursive --text jasp-desktop-0.16.2/Tools/CMake/Modules.cmake jasp-desktop-0.16.21/Tools/CMake/Modules.cmake
+--- jasp-desktop-0.16.2/Tools/CMake/Modules.cmake	2022-04-19 15:47:06.000000000 +0800
++++ jasp-desktop-0.16.21/Tools/CMake/Modules.cmake	2022-05-23 02:02:39.562203992 +0800
+@@ -158,14 +158,6 @@
+     if ('jaspBase' %in% installed.packages()) {
+       cat(NULL, file='${MODULES_BINARY_PATH}/jaspBase-installed-successfully.log')
+     } else {
+-      install.packages(c('ggplot2', 'gridExtra', 'gridGraphics',
+-                        'jsonlite', 'modules', 'officer', 'pkgbuild',
+-                        'plyr', 'qgraph', 'ragg', 'R6', 'renv',
+-                        'rjson', 'rvg', 'svglite', 'systemfonts',
+-                        'withr', 'testthat',
+-                        'data.table', 'httr', 'lifecycle',
+-                        'pkgload', 'remotes', 'stringi', 'stringr',
+-                        'vdiffr'), type='${R_PKG_TYPE}', repos='${R_REPOSITORY}' ${USE_LOCAL_R_LIBS_PATH})
+       install.packages('${PROJECT_SOURCE_DIR}/Engine/jaspBase/', type='source', repos=NULL ${USE_LOCAL_R_LIBS_PATH}, INSTALL_opts='--no-multiarch --no-docs --no-test-load')
+     }
+     ")
diff --git a/BioArchLinux/jasp-desktop/lilac.py b/BioArchLinux/jasp-desktop/lilac.py
new file mode 100644
index 0000000000..620556bc87
--- /dev/null
+++ b/BioArchLinux/jasp-desktop/lilac.py
@@ -0,0 +1,12 @@
+#!/usr/bin/env python3
+from lilaclib import *
+
+def pre_build():
+    for line in edit_file('PKGBUILD'):
+        if line.startswith('_pkgver='):
+            line = f'_pkgver={_G.newver}'
+        print(line)
+    update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
+
+def post_build():
+    git_pkgbuild_commit()
diff --git a/BioArchLinux/jasp-desktop/lilac.yaml b/BioArchLinux/jasp-desktop/lilac.yaml
new file mode 100644
index 0000000000..692bc7e0c0
--- /dev/null
+++ b/BioArchLinux/jasp-desktop/lilac.yaml
@@ -0,0 +1,40 @@
+maintainers:
+  - github: sukanka
+    email: su975853527@gmail.com
+build_prefix: extra-x86_64
+repo_depends:
+  - "r-rinside"
+  - "r-jaspbase"
+  - "r-jaspgraphs"
+  - "r-jaspresults"
+  - "r-jasptools"
+  - "r-jaspdescriptives"
+  - "r-jaspttests"
+  - "r-jaspanova"
+  - "r-jaspmixedmodels"
+  - "r-jaspregression"
+  - "r-jaspfrequencies"
+  - "r-jaspfactor"
+  - "r-jaspaudit"
+  - "r-jaspbain"
+  - "r-jaspcircular"
+  - "r-jaspcochrane"
+  - "r-jaspdistributions"
+  - "r-jaspequivalencettests"
+  - "r-jaspjags"
+  - "r-jasplearnbayes"
+  - "r-jaspmachinelearning"
+  - "r-jaspmetaanalysis"
+  - "r-jaspnetwork"
+  - "r-jaspprocesscontrol"
+  - "r-jaspreliability"
+  - "r-jaspsem"
+  - "r-jaspsummarystatistics"
+  - "r-jaspvisualmodeling"
+  - "r-jaspprophet"
+pre_build: vcs_update
+post_build: git_pkgbuild_commit
+update_on:
+  - source: github
+    github: jasp-stats/jasp-desktop
+    use_latest_release: true