<div dir="ltr"><br>Thanks, Simon and Dirk,<br><br>I can install the packages normally on macOS. However, I want to install it in a conda environment. Thanks for sharing the link. I really appreciate it. <br><br>Here is a reproducible example, in case you have time to try.<div><br>On macOS:<br><br>Step 1: create a conda environment and install R<br><br><font color="#0000ff">conda create -n r-environment r-essentials r-base</font><br><br>Step 2: activate the environment<br><br><font color="#0000ff">conda activate r-environment</font><br><br>Step 3: Install rstudio<br><br><font color="#0000ff">conda install -c r rstudio</font><br><br>Step 4: Install some required packages<br><br><font color="#0000ff">conda install -c r r-devtools<br>conda install -c r r-wcorr<br>conda install -c r r-ranger<br>conda install -c conda-forge r-rcpparmadillo<br>conda install -c r r-testthat<br>conda install -c conda-forge r-superlearner<br>conda install -c conda-forge r-polycor<br>conda install -c conda-forge r-logger</font><br><br>Step 6:<br>According to this page, download dependencies:<br><font color="#0000ff"><a href="https://mac.r-project.org/openmp/">https://mac.r-project.org/openmp/</a></font><br><br>And copied them into the environment include and lib directory. <br><br><br>Step 7:<br>According to this page, I exported variables in step 6.<br><a href="https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html#set-env-vars">https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html#set-env-vars</a><br><br><font color="#38761d">#!/bin/sh<br><br>export PKG_CPPFLAGS='-Xclang -fopenmp'<br>export PKG_LIBS='-lomp'</font><br><br>Step 8:<br>Reactivated the conda environment<br><br>Step 9:<br>run: rstudio<br><br>Step 10:<br>inside rstudio<br><font color="#0000ff">library(devtools)<br>install_github("fasrc/CausalGPS")</font><br><br>I get the following error:<br><br><font color="#ff0000">Downloading GitHub repo fasrc/CausalGPS@master<br>Error: Could not find tools necessary to compile a package</font><br><br>I think something is wrong with Step 7. Because apparently, I lost the path to Xcode. Without Step 7, I get the following error:</div><div><br></div><div><font color="#ff0000">In file included from ColorSpace.cpp:1:<br>In file included from ./ColorSpace.h:4:<br>In file included from env/bin/../include/c++/v1/typeinfo:60:<br>In file included from env/bin/../include/c++/v1/exception:81:<br>In file included from env/bin/../include/c++/v1/cstdlib:85:<br>In file included from env/bin/../include/c++/v1/stdlib.h:100:<br>env/bin/../include/c++/v1/math.h:773:12: error: no member named 'labs' in the global namespace; did you mean 'abs'?<br> return ::labs(__x);<br> ~~^<br>~/env/bin/../include/c++/v1/math.h:772:39: note: 'abs' declared here<br>inline _LIBCPP_INLINE_VISIBILITY long abs(long __x) _NOEXCEPT {<br> ^<br>~/env/bin/../include/c++/v1/math.h:777:12: error: no member named 'llabs' in the global namespace<br> return ::llabs(__x);<br> ~~^<br>~/env/bin/../include/c++/v1/math.h:785:12: error: no member named 'fabsf' in the global namespace<br> return ::fabsf(__lcpp_x);<br> ~~^<br>~/env/bin/../include/c++/v1/math.h:789:12: error: no member named 'fabs' in the global namespace; did you mean 'abs'?<br> return ::fabs(__lcpp_x);<br> ~~^<br>~/env/bin/../include/c++/v1/math.h:772:39: note: 'abs' declared here<br>inline _LIBCPP_INLINE_VISIBILITY long abs(long __x) _NOEXCEPT {<br> ^<br>~/env/bin/../include/c++/v1/math.h:794:12: error: no member named 'fabsl' in the global namespace<br> return ::fabsl(__lcpp_x);<br> ~~^</font><br><br>Best regards, <br>Naeem <br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Thu, Jul 15, 2021 at 3:25 AM Simon Urbanek <<a href="mailto:simon.urbanek@r-project.org">simon.urbanek@r-project.org</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">Naeem,<br>
<br>
I'm not sure which issues are you talking about specifically. If your package is well written, the instructions at <a href="https://mac.r-project.org/openmp/" rel="noreferrer" target="_blank">https://mac.r-project.org/openmp/</a> should be sufficient with regular CRAN installation of R and standard tools.<br>
<br>
Cheers,<br>
Simon<br>
<br>
<br>
<br>
> On Jul 15, 2021, at 02:41, Naeem Khoshnevis <<a href="mailto:khoshnevis.naeem@gmail.com" target="_blank">khoshnevis.naeem@gmail.com</a>> wrote:<br>
> <br>
> Hi,<br>
> <br>
> I hope this email finds you well.<br>
> I wondered what the best approaches to troubleshooting C++ dependencies issues in general and specifically in R are; specifically, those packages which are using OpenMP and we want to install on macOS. <br>
> So far, I am just googling the error and finding out what the problem is. However, it is hard to address issues and come up with long-term solutions without internalizing the concepts.<br>
> One example is creating a conda environment for each R package project and installing llvm, clang, etc into each environment. <br>
> I talked to several software engineers; however, I could not find a convincing answer. I think I do not know what I do not know about this topic, which prevents me from asking good questions. I would be grateful if you could let me know your thoughts about these questions.<br>
> <br>
> Where is a good place to start learning about this topic?<br>
> Is a professional C++ developer necessarily good at troubleshooting problems with compilers and linkers? Or these are two different topics.<br>
> <br>
> Best regards,<br>
> Naeem Khoshnevis<br>
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