From 32441c06da99dccb7ba454fd340b6b1113069b5a Mon Sep 17 00:00:00 2001
From: starsareintherose <starsareintherose@outlook.com>
Date: Mon, 23 Aug 2021 14:51:19 +0800
Subject: [PATCH] add seqencematrix

---
 seqencematrix/PKGBUILD              | 25 +++++++++++++++++++++++++
 seqencematrix/lilac.py              | 10 ++++++++++
 seqencematrix/lilac.yaml            |  8 ++++++++
 seqencematrix/seqencematrix.desktop | 18 ++++++++++++++++++
 4 files changed, 61 insertions(+)
 create mode 100644 seqencematrix/PKGBUILD
 create mode 100644 seqencematrix/lilac.py
 create mode 100644 seqencematrix/lilac.yaml
 create mode 100644 seqencematrix/seqencematrix.desktop

diff --git a/seqencematrix/PKGBUILD b/seqencematrix/PKGBUILD
new file mode 100644
index 0000000000..332b3cefc2
--- /dev/null
+++ b/seqencematrix/PKGBUILD
@@ -0,0 +1,25 @@
+# Maintainer: Malacology <guoyizhang at malacology dot com>
+# Contributor: Malacology <guoyizhang at malacology dot com>
+
+pkgname=seqencematrix
+_installname=SeqenceMatrix
+pkgver=1.9
+pkgrel=1
+depends=(
+	'java-runtime'
+)
+pkgdesc="Taxonomy-aware DNA sequence processing toolkit"
+arch=('x86_64')
+url="https://github.com/gaurav/taxondna"
+license=('GPL2')
+source=("https://github.com/gaurav/taxondna/releases/download/v${pkgver}/SequenceMatrix-${pkgver}.zip" "seqencematrix.desktop")
+sha256sums=('ba46fe8672ded973c835ea0a636c251d28fa2f80ee30a69469a4a7fab204e814'
+            '391168a6dc8ed31fde009c3f103836c2400bf32c882f28ec21332a915eae7bd0')
+
+package() {
+    install -dm755 "$pkgdir"/usr/share/{seqencematrix,applications}
+    chmod +x ${srcdir}/SequenceMatrix-${pkgver}/SequenceMatrix.jar
+    install -Dm755 ${srcdir}/seqencematrix.desktop "${pkgdir}/usr/share/applications/seqencematrix.desktop"
+    install -Dm755 ${srcdir}/SequenceMatrix-${pkgver}/SequenceMatrix.jar ${pkgdir}/usr/share/seqencematrix/SequenceMatrix.jar
+    mv ${srcdir}/SequenceMatrix-${pkgver}/* ${pkgdir}/usr/share/seqencematrix/
+}
diff --git a/seqencematrix/lilac.py b/seqencematrix/lilac.py
new file mode 100644
index 0000000000..8c66f58ed6
--- /dev/null
+++ b/seqencematrix/lilac.py
@@ -0,0 +1,10 @@
+#!/usr/bin/env python3
+
+from lilaclib import *
+
+def pre_build():
+  update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
+
+def post_build():
+  git_add_files('PKGBUILD')
+  git_commit()
diff --git a/seqencematrix/lilac.yaml b/seqencematrix/lilac.yaml
new file mode 100644
index 0000000000..00e51c9ddf
--- /dev/null
+++ b/seqencematrix/lilac.yaml
@@ -0,0 +1,8 @@
+build_prefix: extra-x86_64
+maintainers:
+  - github: starsareintherose
+    email: starsareintherose@outlook.com
+update_on:
+  - source: github
+    github: starsareintherose/tiger
+    use_latest_release: true
diff --git a/seqencematrix/seqencematrix.desktop b/seqencematrix/seqencematrix.desktop
new file mode 100644
index 0000000000..2c6c4aafb8
--- /dev/null
+++ b/seqencematrix/seqencematrix.desktop
@@ -0,0 +1,18 @@
+[Desktop Entry]
+Categories=
+Encoding=UTF-8
+Exec=java -jar /usr/bin/SeqenceMatrix.jar
+GenericName=
+GenericName[zh]=
+Icon=java15-openjdk
+MimeType=
+Name=SequenceMatrix
+Name[zh]=SequenceMatrix
+ServiceTypes=
+SwallowExec=
+SwallowTitle=
+Terminal=false
+TerminalOptions=
+Type=Application
+X-KDE-SubstituteUID=false
+X-KDE-Username=root