R，python，reticulate和limmbo：将数组“float64”强制转换为“int64”错误(R, python, reticulate, and limmbo: cast array

R，python，reticulate和limmbo：将数组“float64”强制转换为“int64”错误(R, python, reticulate, and limmbo: cast array 'float64' to 'int64' error)

我试图通过reticulate R包使用Python模块limmbo （ https://github.com/HannahVMeyer/limmbo ）与R。我已经用Anaconda2成功安装了limmbo 。我现在正在尝试使用函数limmbo$core$vdbootstrap$LiMMBo$runBootstrapCovarianceEstimation ，如下面的代码所示。当我运行下面的代码时，出现了有关将float64转换为整数64的错误。

```{r} library(reticulate) import("limmbo") -> limmbo ```

然后我运行python代码：

```{python} import numpy from numpy.random import RandomState from numpy.linalg import cholesky as chol from limmbo.core.vdsimple import vd_reml from limmbo.io.input import InputData random = RandomState(15) N = 100 S = 1000 P = 3 snps = (random.rand(N, S) < 0.2).astype(float) kinship = numpy.dot(snps, snps.T) / float(10) y = random.randn(N, P) pheno = numpy.dot(chol(kinship), y) pheno_ID = [ 'PID{}'.format(x+1) for x in range(P)] samples = [ 'SID{}'.format(x+1) for x in range(N)] datainput = InputData() datainput.addPhenotypes(phenotypes = pheno, phenotype_ID = pheno_ID, pheno_samples = samples) datainput.addRelatedness(relatedness = kinship, relatedness_samples = samples) ```

当我尝试运行R函数时出现问题limmbo$core$vdbootstrap$LiMMBo$runBootstrapCovarianceEstimation ：

```{r} (limmbo$core$vdbootstrap$LiMMBo(py$datainput, timing = TRUE, iterations = 100, S = 2) -> foo) limmbo$core$vdbootstrap$LiMMBo$runBootstrapCovarianceEstimation(foo, cpus = 1, seed = 12345) ``` Error in py_call_impl(callable, dots$args, dots$keywords) : TypeError: Cannot cast array from dtype('float64') to dtype('int64') according to the rule 'safe' Detailed traceback: File "/Users/frederickboehm/anaconda2/lib/python2.7/site-packages/limmbo/core/vdbootstrap.py", line 96, in runBootstrapCovarianceEstimation minCooccurrence=minCooccurrence) File "/Users/frederickboehm/anaconda2/lib/python2.7/site-packages/limmbo/core/vdbootstrap.py", line 353, in __generateBootstrapMatrix rand_state = np.random.RandomState(seed) File "mtrand.pyx", line 644, in mtrand.RandomState.__init__ File "mtrand.pyx", line 687, in mtrand.RandomState.seed Calls: <Anonymous> ... eval -> eval -> <Anonymous> -> py_call_impl -> .Call Execution halted

I am trying to use the python module limmbo (https://github.com/HannahVMeyer/limmbo) with R via the reticulate R package. I have successfully installed limmbo with Anaconda2. I'm now trying to use the function limmbo$core$vdbootstrap$LiMMBo$runBootstrapCovarianceEstimation, as in my code below. When I run the code below, I get an error about converting a float64 to an integer64.

```{r} library(reticulate) import("limmbo") -> limmbo ```

I then run the python code:

```{python} import numpy from numpy.random import RandomState from numpy.linalg import cholesky as chol from limmbo.core.vdsimple import vd_reml from limmbo.io.input import InputData random = RandomState(15) N = 100 S = 1000 P = 3 snps = (random.rand(N, S) < 0.2).astype(float) kinship = numpy.dot(snps, snps.T) / float(10) y = random.randn(N, P) pheno = numpy.dot(chol(kinship), y) pheno_ID = [ 'PID{}'.format(x+1) for x in range(P)] samples = [ 'SID{}'.format(x+1) for x in range(N)] datainput = InputData() datainput.addPhenotypes(phenotypes = pheno, phenotype_ID = pheno_ID, pheno_samples = samples) datainput.addRelatedness(relatedness = kinship, relatedness_samples = samples) ```

The problem arises when I try to run the R function limmbo$core$vdbootstrap$LiMMBo$runBootstrapCovarianceEstimation:

```{r} (limmbo$core$vdbootstrap$LiMMBo(py$datainput, timing = TRUE, iterations = 100, S = 2) -> foo) limmbo$core$vdbootstrap$LiMMBo$runBootstrapCovarianceEstimation(foo, cpus = 1, seed = 12345) ``` Error in py_call_impl(callable, dots$args, dots$keywords) : TypeError: Cannot cast array from dtype('float64') to dtype('int64') according to the rule 'safe' Detailed traceback: File "/Users/frederickboehm/anaconda2/lib/python2.7/site-packages/limmbo/core/vdbootstrap.py", line 96, in runBootstrapCovarianceEstimation minCooccurrence=minCooccurrence) File "/Users/frederickboehm/anaconda2/lib/python2.7/site-packages/limmbo/core/vdbootstrap.py", line 353, in __generateBootstrapMatrix rand_state = np.random.RandomState(seed) File "mtrand.pyx", line 644, in mtrand.RandomState.__init__ File "mtrand.pyx", line 687, in mtrand.RandomState.seed Calls: <Anonymous> ... eval -> eval -> <Anonymous> -> py_call_impl -> .Call Execution halted