bio-tbtools: add package

replace tbtools(for biology) to bio-tbtools, to avoid conflicting to extra/tbtools which for Thunder Bolt

BioArchLinux/bio-tbtools/PKGBUILD

@@ -0,0 +1,42 @@
+# Maintainer: Kiri <kiri@vern.cc>
+# Contributor: wangzhichao <wangzhichao1990@126.com>
+
+pkgname=bio-tbtools
+_pkgname=tbtools
+pkgver=2.106
+pkgrel=1
+epoch=1
+pkgdesc='GUI/CommandLine Tool Box for biologistists to utilize NGS data. \
+	https://doi.org/10.1016/j.molp.2023.09.010'
+arch=('x86_64')
+url='https://github.com/CJ-Chen/TBtools-II'
+license=('unknown')
+depends=('java-runtime>=11'
+         'bash')
+makedepends=('unzip'
+             'gendesk')
+optdepends=('blast+: BLAST support'
+            'diamond: quick blast(needed in quick MCScanx scan) support'
+            'mcscanx: collinear scan support'
+            'hmmer: HMM Search support'
+            'muscle: align support'
+            'trimal: large scale align support'
+            'iqtree: maximum likelihood phylogenomic tree support'
+            'kaks_calculator: kaks calculate support')
+source=("https://github.com/CJ-Chen/TBtools-II/releases/download/${pkgver}/TBtools_JRE1.6.jar")
+sha256sums=('62047368b209763ed91c31910217c4292ed603e2dfdbc23f5949bfbda8003195')
+
+prepare() {
+    # generate /usr/bin file
+    printf '#!/usr/bin/sh\nexec java -jar /usr/share/bio-tbtools/tbtools*.jar "$@"\n'>${srcdir}/${_pkgname}
+    # generate desk entry
+    gendesk -f -n --pkgname "${_pkgname}" --pkgdesc "${pkgdesc}" --exec="${_pkgname}" --name="${_pkgname}" --categories="Science"
+}
+
+package() {
+    install -Dm 755 ${srcdir}/${_pkgname} ${pkgdir}/usr/bin/${_pkgname}
+    install -Dm 644 ${srcdir}/${_pkgname}.desktop ${pkgdir}/usr/share/applications/${_pkgname}.desktop
+    install -Dm 755 ${srcdir}/TBtools*.jar ${pkgdir}/usr/share/${pkgname}/${_pkgname}.jar
+    install -Dm 644 ${srcdir}/Icons/TBtoolsLogo.png ${pkgdir}/usr/share/icons/hicolor/720x720/apps/${_pkgname}.png
+    install -Dm 644 ${srcdir}/Icons/TBtoolsLogo16x16.png ${pkgdir}/usr/share/icons/hicolor/16x16/apps/${_pkgname}.png
+}

BioArchLinux/bio-tbtools/lilac.yaml

@@ -0,0 +1,13 @@
+maintainers:
+  - github: kiri2002
+    email: kiri@vern.cc
+build_prefix: extra-x86_64
+pre_build_script: |
+  update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
+post_build_script: |
+  git_pkgbuild_commit()
+  update_aur_repo()
+update_on:
+  - source: github
+    github: CJ-Chen/TBtools-II
+    use_max_tag: true