Question

这是我尝试运行的PyStan模型。但是，一旦尝试运行它，就会遇到以下错误：

CompileError：命令'gcc'失败，退出状态为1

您知道如何在macOS上修复此错误吗？

counts = [0.0711, 0.125, 0.0121, 0.00513, 0.112, 0.0694, 0.0166, 0.163, 0.0481, 0.0762, 0.175, 0.117, 0.211, 0.0468, 0.0272, 0.134, 0.035, 0.0125, 0.0834, 0.011, 0.0226, 0.0652, 0.132, 0.0738, 0.206, 0.107, 0.0354, 0.0853, 0.0219, 0.106, 0.165, 0.0729, 0.111, 0.0352, 0.0749, 0.00188, 0.00146, 0.0113, 0.0175, 0.167, 0.0736, 0.00292, 0.0378, 0.116, 0.145, 0.161, 0.292, 0.0158, 0.207, 0.481, 0.066, 0.0926, 0.0188, 0.103, 0.262, 0.167, 0.163, 0.0357, 0.137, 0.0699, 0.00632, 0.012, 0.124, 0.159, 0.000179, 0.0441, 0.16, 0.196, 0.131, 0.0731, 0.0282, 0.046, 0.089, 0.0318, 0.0303, 0.0269, 0.184, 0.144, 0.0981, 0.277, 0.0277, 0.000416, 0.225, 0.0538, 0.0422, 0.186, 0.00116, 0.0118, 0.0668, 0.157, 0.12, 0.0285, 0.0204, 0.0702, 0.0692, 0.126, 0.00857, 0.0322, 0.029, 0.0737, 0.0811, 0.0172, 0.121, 0.0589, 0.00973, 0.0797, 0.0996, 0.0862, 0.185, 0.0671, 0.0142, 0.0669, 0.0739, 0.12, 0.566, 0.0179, 0.0483, 0.0382, 0.0109, 0.058, 0.0252, 0.0368, 0.0241, 0.156, 0.0696, 0.015, 0.0759, 0.0431, 0.0798, 0.0816, 0.108, 0.0155, 0.0211, 0.00171, 0.00148, 0.0117, 0.0164, 0.0681, 0.000238, 0.00691, 0.127, 0.0502, 0.00598, 0.0722, 0.0174, 0.0627, 0.00372, 0.0648, 0.0343, 0.101, 0.0751, 0.0111, 0.189, 0.0298, 0.0563, 0.0123, 0.00126, 0.0407, 0.0203, 0.143, 0.0488, 0.0696, 0.0145, 0.0474, 0.0245, 0.172, 0.17, 0.109, 0.182, 0.0357, 0.0729, 0.295, 0.041, 0.207, 0.0725, 0.107, 0.00257, 0.0252, 0.0866, 0.00576, 0.0468, 0.13, 0.0881, 0.115, 0.0321, 0.000605, 0.0392, 0.017, 0.0408, 0.00253, 0.132, 0.298, 0.109, 0.00814, 0.0338, 0.0253, 0.0153, 0.0475, 0.0624, 0.199, 0.265, 0.0202, 0.199, 0.135, 0.0285, 0.0728, 0.124, 0.0165, 0.0385, 0.0843, 0.0988, 0.139, 0.0311, 0.0837, 0.0931, 0.182, 0.0129, 0.00582, 0.0166, 0.109, 0.039, 0.0892, 0.0269, 0.0407, 0.154, 0.109, 0.212, 0.112, 0.0252, 0.00368, 0.0556, 0.103, 0.0754, 0.0135, 0.106, 0.184, 0.0462, 0.0152, 0.0438, 0.105, 0.0283, 0.0417, 0.229, 0.103, 0.0628, 0.0499, 0.122, 0.0227, 0.0451, 0.164, 0.121, 0.0665, 0.00797, 0.113, 0.0421, 0.166, 0.062, 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0.047, 0.0325, 0.0668]



stan_code = """

 data {
   int<lower=1> C;    // number of calls in 11th
   real<lower=0> alpha;   // prior hyperparameters for gamma
   real<lower=0> beta;   // prior hyperparameters for gamma
   real<lower=0> counts[C];   
}

parameters {
    real<lower=0> lambda; 
}


model {
   lambda ~ gamma(alpha,beta);
   counts ~ exponential(lambda);   
   }
"""

stan_model = pystan.StanModel(model_code=stan_code)

stan_data = {
   'C': 892,
   'alpha': [0.5],
   'beta': [0.5],
   'counts': counts,
}

results = stan_model.sampling(data=stan_data)

print(results)

Answer 1

我遇到了类似的问题。我用conda解决了。假设您已经创建了一个名为pystan的conda环境。激活它，然后安装gcc：

$ source activate pystan
(pystan)$ conda install gcc

然后确保您安装了pystan的dependencies，并pip-install pystan

(pystan)$ pip install pystan

这些步骤可以解决我的问题，希望对您有所帮助。

Answer 2

gcc -v显示我的gcc版本是4.2.x和Stan 2.19.0.0 requires gcc 4.9.3 or higher。所以我用Homebrew安装了gcc49：

$ brew install gcc49

如果gcc -v仍然不能打印4.9.x，但是gcc-4.9 -v可以打印，那么您应该创建指向刚刚安装的gcc和g++可执行文件的链接：

$ sudo ln -s `which gcc-4.9` /usr/local/bin/gcc
$ sudo ln -s `which g++-4.9` /usr/local/bin/g++

可能不需要以下步骤，但是如here所述，在相当新的macOS和Xcode上，您还应该执行以下安装程序（至少如果使用Xcode附带的编译器，而我们不需要）：

open /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_macOS_10.14.pkg

我在Conda环境中使用PyStan，安装方式如下：

$ conda create -n pystan python=3.7
$ conda activate pystan
(pystan) $ pip install pystan

上述步骤的顺序可能很重要。

Answer 3

我希望这对其他人有帮助，最后对我有用的是安装python3并在终端中运行此代码

源激活py36 jupyter笔记本

Answer 4

对于任何人（像我一样）非常迷茫并在这里找到路的人，这对我有用......

系统：

OS: macOS Big Sur v11.3
pystan.__version__ '2.19.1.1'
Python 3.8.8

问题

我在跑步时得到一个 CompileError：

import pystan
model_code = 'parameters {real y;} model {y ~ normal(0,1);}'
model = pystan.StanModel(model_code=model_code)  # this will take a minute
y = model.sampling(n_jobs=1).extract()['y']
y.mean()  # should be close to 0

解决方案

确保安装的 gcc 和 xcode 版本是最新的 (brew install gcc && xcode-select --install)
根据 this thread，通过运行 ls /usr/local/bin | grep gcc 和 ls /usr/local/bin | grep g++ 检查 gcc 和 g++ 版本，并将它们添加为环境变量。就我而言，我将这些行添加到我的 ~/.bash_profile:

# for c++ libraries - reqiured for pystan / prophet
export CC=gcc-11
export CXX=g++-11

PyStan：CompileError：命令“ gcc”失败，退出状态为1（macos）

4 个答案:

问题

解决方案