Eponine.t 失败作为对 Bio::Tools::Run::Alignment::Muscle 的测试

Question

我正在尝试安装 Perl 模块 Bio::Tools::Run::Alignment::Muscle。我正在使用这张 docker 图片：

FROM ubuntu:16.04

RUN echo 'debconf debconf/frontend select Noninteractive' | debconf-set-selections
RUN apt-get update && apt-get install -y software-properties-common
RUN apt-add-repository multiverse
RUN add-apt-repository restricted
RUN apt-get update && apt-get install -y \
    wget \
    unzip \
    sudo \
    make \
    gcc \
    libdb-dev \
    libgd-dev \
    zlib1g-dev \
    libxml2-dev \
    libexpat1-dev \
    pkg-config \
    graphviz \
    libssl-dev \
    cpanminus

# Dependencies
RUN cpanm File::Sort Config::Any Bio::FeatureIO Bio::Cluster::SequenceFamily

# Install problematic ::Muscle
RUN cpanm Net::SSLeay LWP::Protocol::https Bio::Tools::Eponine
RUN cpanm Bio::DB::EUtilities # Ensembl requirement

当我尝试通过进入容器并键入 "cpanm Bio::Tools::Run::Alignment::Muscle" 来使用 cpanm 安装时，出现以下错误：

    Test Summary Report
    -------------------
    t/Eponine.t                 (Wstat: 65280 Tests: 2 Failed: 0)
      Non-zero exit status: 255
      Parse errors: Bad plan.  You planned 7 tests but ran 2.
    Files=70, Tests=2068, 15 wallclock secs ( 0.32 usr  0.09 sys + 12.22 cusr  1.33 csys = 13.96 CPU)
    Result: FAIL
    Failed 1/70 test programs. 0/2068 subtests failed.
-> FAIL Installing Bio::Tools::Run::Alignment::Muscle failed. See /root/.cpanm/work/1552304305.41131/build.log for details. Retry with --force to force install it.

有没有办法调试它，并检查忽略它是否安全？

Answer 1

您需要安装 Java 才能成功进行 t/Eponine.t 测试。

行有错误：

open(my $PIPE,"java -version 2>&1 |") || exit;

如果 Java 未安装，测试将退出并且测试计划失败。

Eponine.t 失败作为对 Bio::Tools::Run::Alignment::Muscle 的测试

Eponine.t failure as a test for Bio::Tools::Run::Alignment::Muscle

perl

bioperl