macse

maintainer malacology · 0 votes · scanned 2026-08-03 00:08:14.047287

LOW

Why flagged The package downloads a prebuilt JAR file from the project's official website, which is used as-is; the source is not executed during build, but the JAR is installed as a binary artifact, and while the host is not whitelisted, it is plausibly the project's own release infrastructure, making this a low-risk, typical AUR package for a Java application without source code.

Triggered rules

LOW AI review downgraded a static finding llm_review

The static rules flagged this MEDIUM, but an AI model (qwen/qwen3-235b-a22b-07-25) reviewed the full PKGBUILD and judged it LOW (confidence 95%): The package downloads a prebuilt JAR file from the project's official website, which is used as-is; the source is not executed during build, but the JAR is installed as a binary artifact, and while the host is not whitelisted, it is plausibly the project's own release infrastructure, making this a low-risk, typical AUR package for a Java application without source code.

1 higher static finding superseded - not the current verdict (shown for transparency)

MEDIUM source=() URL on a non-standard host source_untrusted_domain

One or more source=() URLs point to a host outside the trusted allowlist (github.com, gitlab.com, codeberg.org, pypi.org, …).

PKGBUILD:10 source=(https://www.agap-ge2pop.org/wp-content/uploads/macse/releases/macse_v${pkgver}.jar)

PKGBUILD

1 offending line(s) highlighted

      1# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
    
      2pkgname=macse
    
      3pkgver=2.07
    
      4pkgrel=1
    
      5pkgdesc="Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons"
    
      6arch=('any')
    
      7url="https://www.agap-ge2pop.org/macse/"
    
      8license=('custom:unknown')
    
      9makedepends=('java-runtime' 'bash')
    
      10source=(https://www.agap-ge2pop.org/wp-content/uploads/macse/releases/macse_v${pkgver}.jar)
    
      11noextract=("macse_v${pkgver}.jar")
    
      12sha256sums=('96873a1465f1e1aa9d0c462d469eee6954d36e8639727f69f34a72fcb6583963')
    
      13# no source code
    
      14package(){
    
      15  cd $srcdir
    
      16  install -Dm755 ${pkgname}_v${pkgver}.jar $pkgdir/usr/share/java/$pkgname.jar
    
      17  echo "java -jar /usr/share/java/$pkgname.jar \$@" > ${pkgname}-bin
    
      18  chmod +x ${pkgname}-bin
    
      19  install -Dm755 ${pkgname}-bin $pkgdir/usr/bin/$pkgname
    
      20
    
      21  echo "Unknown License" > license
    
      22  install -Dm644 license $pkgdir/usr/share/licenses/$pkgname/license  
    
      23}
    
      24

Scan history

Scanned at (UTC)	Severity	Rules
2026-08-03 00:08:14	LOW	2
2026-08-02 00:16:08	LOW	2
2026-08-01 00:11:18	LOW	2
2026-07-31 00:14:10	LOW	2
2026-07-30 00:17:23	LOW	2
2026-07-29 00:25:53	LOW	2
2026-07-28 00:07:28	LOW	2
2026-07-27 00:24:32	LOW	2
2026-07-26 00:07:32	LOW	2
2026-07-25 00:13:44	LOW	2
2026-07-24 00:02:28	LOW	2
2026-07-23 00:14:47	LOW	2
2026-07-22 00:29:32	LOW	2
2026-07-21 00:24:15	LOW	2
2026-07-20 00:19:49	LOW	2
2026-07-19 00:17:08	LOW	2
2026-07-18 00:14:48	LOW	2
2026-07-17 00:06:16	LOW	2
2026-07-16 00:05:41	LOW	2
2026-07-15 00:09:25	LOW	2