在HPC上安装synapser遇版本匹配错误,寻求解决方法
在HPC上安装synapser遇到的问题
我在HPC环境中尝试安装R包synapser以运行脚本,执行的命令如下:
install.packages("synapser", repos=c("http://staging-ran.synapse.org"))
执行后出现以下错误:
正在将软件包安装至‘/kyukon/home/gent/456/vsc45640/R/x86_64-pc-linux-gnu-library/4.2’ (因为未指定‘lib’) 尝试 URL 'http://staging-ran.synapse.org/src/contrib/synapser_1.0.57.tar.gz' 内容类型 'application/x-tar',长度 154291 字节 (150 KB) ================================================== 已下载 150 KB * 正在安装源包‘synapser’ ... ** 使用分段安装 [1] "*** 使用Python配置:" python: /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/bin/python libpython: /usr/lib64/libpython3.6m.so pythonhome: /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate:/kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate 版本: 3.6.8 (default, Jun 14 2022, 12:54:58) [GCC 8.5.0 20210514 (Red Hat 8.5.0-10)] numpy: /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages/numpy numpy_version: 1.19.5 找到的python版本: /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/bin/python /kyukon/home/apps/RHEL8/zen3-ampere-ib/software/Python/3.9.6-GCCcore-11.2.0/bin/python3 /kyukon/home/apps/RHEL8/zen3-ampere-ib/software/Python/3.9.6-GCCcore-11.2.0/bin/python /usr/bin/python3 /usr/bin/python 使用虚拟环境 '/kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate' ... + '/kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/bin/python' -m pip install --upgrade --no-user 'requests' 'pandas' 'pysftp' 'jinja2' 'markupsafe' 要求已满足: requests 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (2.27.1) 要求已满足: pandas 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (1.1.5) 要求已满足: pysftp 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (0.2.9) 要求已满足: jinja2 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (3.0.3) 要求已满足: markupsafe 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (2.0.1) 要求已满足: charset-normalizer~=2.0.0 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 requests) (2.0.12) 要求已满足: urllib3<1.27,>=1.21.1 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 requests) (1.26.15) 要求已满足: certifi>=2017.4.17 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 requests) (2023.5.7) 要求已满足: idna<4,>=2.5 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 requests) (3.4) 要求已满足: numpy>=1.15.4 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 pandas) (1.19.5) 要求已满足: python-dateutil>=2.7.3 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 pandas) (2.8.2) 要求已满足: pytz>=2017.2 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 pandas) (2023.3) 要求已满足: paramiko>=1.17 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 pysftp) (3.1.0) 要求已满足: bcrypt>=3.2 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 paramiko>=1.17->pysftp) (4.0.1) 要求已满足: pynacl>=1.5 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 paramiko>=1.17->pysftp) (1.5.0) 要求已满足: cryptography>=3.3 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 paramiko>=1.17->pysftp) (40.0.2) 要求已满足: six>=1.5 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 python-dateutil>=2.7.3->pandas) (1.16.0) 要求已满足: cffi>=1.12 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 cryptography>=3.3->paramiko>=1.17->pysftp) (1.15.1) 要求已满足: pycparser 在 /kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/lib/python3.6/site-packages (来自 cffi>=1.12->cryptography>=3.3->paramiko>=1.17->pysftp) (2.21) 使用虚拟环境 '/kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate' ... + '/kyukon/home/gent/456/vsc45640/.virtualenvs/r-reticulate/bin/python' -m pip install --upgrade --no-user 'synapseclient==2.7.0' 错误: 找不到满足要求 synapseclient==2.7.0 的版本 (可用版本: 0.1.2, 0.1.4, 0.2.0, 0.2.1, 0.3.0, 0.4.0, 0.4.1, 0.5.0, 0.5.1, 0.5.2, 1.0.1, 1.0.3, 1.1, 1.2, 1.3, 1.4, 1.5, 1.5.1, 1.6.1, 1.6.2, 1.7.1, 1.7.2, 1.7.3, 1.7.5, 1.8.0, 1.8.1, 1.8.2, 1.9.0, 1.9.1, 1.9.2, 1.9.3, 1.9.4, 2.0.0, 2.1.0, 2.1.1, 2.2.0, 2.2.2, 2.3.0, 2.3.1, 2.4.0, 2.5.0, 2.5.1) 错误: 没有找到匹配 synapseclient==2.7.0 的发行版本 Error: 安装软件包出错: "'synapseclient==2.7.0'" 执行停止 错误: 软件包‘synapser’配置失败 * 正在移除‘/kyukon/home/gent/456/vsc45640/R/x86_64-pc-linux-gnu-library/4.2/synapser’ Warning in install.packages : 软件包‘synapser’的安装退出状态非零 下载的源软件包位于 ‘/tmp/Rtmpm6z0Np/downloaded_packages’
我已经尝试单独安装synapseclient,但未成功,恳请协助解决该问题。
内容的提问来源于stack exchange,提问作者Klara Dewitte
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