polish the PKGBUILD

1 files changed, 2 insertions, 94 deletions

diff --git a/PKGBUILD b/PKGBUILD
index 87b9b1cd046e..6926ad131814 100644
--- a/PKGBUILD
+++ b/PKGBUILD
@@ -20,100 +20,8 @@ depends=(
 	'openjdk-src'
 )
 package() {
-    mkdir "${pkgdir}/usr"
-    mkdir "${pkgdir}/usr/share"
-    mkdir "${pkgdir}/usr/share/applications"
-    mkdir "${pkgdir}/usr/share/EasyCodeML"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Custom"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Custom/dat"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/CodeMLSrc"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/Linux"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/BM"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/BM/BM"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/BM/FR"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/BM/M0"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/BSM"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/BSM/ModelA"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/BSM/ModelAnull"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/CM"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/CM/M22"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/CM/CmC"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM/M0"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM/M1a"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM/M2a"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM/M3"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM/M7"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM/M8"
-    mkdir "${pkgdir}/usr/share/EasyCodeML/Preset/SM/M8a"
-
-    
-    install -m 755 ${srcdir}/EasyCodeML/EasyCodeML.jar ${pkgdir}/usr/share/EasyCodeML/EasyCodeML.jar
-    install -m 755 ${srcdir}/EasyCodeML/Quick_Guide.pdf ${pkgdir}/usr/share/EasyCodeML/Quick_Guide.pdf
-    install -m 755 ${srcdir}/EasyCodeML/README.md ${pkgdir}/usr/share/EasyCodeML/README.md
-    install -m 755 "${srcdir}/EasyCodeML/Version History.txt" "${pkgdir}/usr/share/EasyCodeML/Version History.txt"
-    install -m 755 ${srcdir}/EasyCodeML/Citation.ris ${pkgdir}/usr/share/EasyCodeML/Citation.ris
-    
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/chi2.c ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/chi2.c
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/chi2.c ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/chi2.c
-    install -m 755 "${srcdir}/EasyCodeML/CodeMLSrc/Compile Commands for Mac or Linux" "${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/Compile Commands for Mac or Linux"
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/paml.h ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/paml.h
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/tools.c ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/tools.c
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/treespace.c ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/treespace.c
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/treesub.c ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/treesub.c
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/Linux/chi2.exe ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/Linux/chi2.exe
-    install -m 755 ${srcdir}/EasyCodeML/CodeMLSrc/Linux/codeml.exe ${pkgdir}/usr/share/EasyCodeML/CodeMLSrc/Linux/codeml.exe
-    
-    install -m 755 ${srcdir}/EasyCodeML/Custom/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Custom/codeml.ctl
-    install -m 755 ${srcdir}/EasyCodeML/Custom/default.ctl ${pkgdir}/usr/share/EasyCodeML/Custom/default.ctl
-    
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/cpREV10.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/cpREV10.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/cpREV64.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/cpREV64.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/dayhoff.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/dayhoff.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/dayhoff-dcmut.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/dayhoff-dcmut.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/g1974a.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/g1974a.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/g1974c.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/g1974c.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/g1974p.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/g1974p.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/g1974v.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/g1974v.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/grantham.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/grantham.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/jones.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/jones.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/jones-dcmut.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/jones-dcmut.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/lg.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/lg.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/miyata.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/miyata.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/mtArt.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/mtArt.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/mtmam.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/mtmam.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/mtREV24.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/mtREV24.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/MtZoa.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/MtZoa.dat
-    install -m 755 ${srcdir}/EasyCodeML/Custom/dat/wag.dat ${pkgdir}/usr/share/EasyCodeML/Custom/dat/wag.dat
-    
-    install -m 755 ${srcdir}/EasyCodeML/Preset/chi2.exe ${pkgdir}/usr/share/EasyCodeML/Preset/chi2.exe
-    install -m 755 ${srcdir}/EasyCodeML/Preset/codeml.exe ${pkgdir}/usr/share/EasyCodeML/Preset/codeml.exe
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/.DS_Store
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/BM/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/BM/.DS_Store
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/BM/BM/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/BM/BM/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/BM/BM/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/BM/BM/codeml.ctl
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/BM/FR/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/BM/FR/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/BM/FR/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/BM/FR/codeml.ctl
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/BM/M0/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/BM/M0/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/BM/M0/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/BM/M0/codeml.ctl
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/BSM/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/BSM/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/BSM//ModelA/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/BSM/ModelA/codeml.ctl
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/BSM/ModelAnull/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/BSM/ModelAnull/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/BSM/ModelAnull/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/BSM/ModelAnull/codeml.ctl
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/CM/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/CM/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/CM/CmC/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/CM/CmC/codeml.ctl
-    install -m 755 ${srcdir}/EasyCodeML/Preset/CM/M22/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/CM/M22/codeml.ctl
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/SM/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/SM/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M0/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M0/codeml.ctl
-    install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M1a/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M1a/codeml.ctl
-    install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M2a/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M2a/codeml.ctl
-    install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M3/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M3/codeml.ctl
-    install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M7/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M7/codeml.ctl
-    install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M8/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M8/codeml.ctl
-    # install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M8/.DS_Store ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M8/.DS_Store
-    install -m 755 ${srcdir}/EasyCodeML/Preset/SM/M8a/codeml.ctl ${pkgdir}/usr/share/EasyCodeML/Preset/SM/M8a/codeml.ctl
-    
+    install -dm755 "$pkgdir"/usr/share/{EasyCodeML,applications}
+    mv "$srcdir"/EasyCodeML/* "$pkgdir"/usr/share/EasyCodeML
     install -m 755 ${srcdir}/EasyCodeML.png ${pkgdir}/usr/share/EasyCodeML/EasyCodeML.png
     install -m 755 ${srcdir}/easycodeml.desktop ${pkgdir}/usr/share/applications/easycodeml.desktop 
 }