Eventually what worked for me is just rebuilding the most recent emsdk tag 
on my machine:

./emsdk install sdk-tag-1.38.27-64bit
./emsdk activate sdk-tag-1.38.27-64bit

As I now understand, what matters is the environment clang is compiled in. 
The version of clang doesn't make difference in this case.
My current setup:
devtoolset-7
llvm-toolset-7 (not sure if this was really needed)

Hope this helps.

On Friday, 22 February 2019 10:45:21 UTC, Sergei Romanov wrote:
>
> I'm using CentOS 7.6 and having the same problem. My solution was to 
> install an older tag - just before they updated to llvm 6.
> ./emsdk install sdk-tag-1.38.2-64bit
> ./emsdk activate sdk-tag-1.38.2-64bit
>
> After this [emmake cmake .. && emmake make] worked fine - successfully 
> generated .bc. But then emcc started to complain "cannot find binaryen js 
> libraries". This problem seems fixed in 1.38.8 - 
> https://github.com/emscripten-core/emsdk/issues/157
> I struggle to find the exact change which fixed it. Anyone knows if it's 
> possible to patch sdk-tag-1.38.2 locally and get it sorted? Or maybe it 
> just needs the right build configuration?
>
> To restate the problem:
> We need a working emsdk with llvm 5.
>
> On Thursday, 21 February 2019 17:15:05 UTC, Mike Alberghini wrote:
>>
>> One of our devs requested emscripten on our build nodes.  I'm trying to 
>> get it working on our build nodes, which are Red Hat 7.6.  I keep hitting 
>> roadblocks and I'm wondering if anyone has managed to get this working on 
>> RHEL.
>>
>> Problem 1:  new clang meets old libstdc++
>>
>> When I install the SDK by following the directions, running emcc -v 
>> returns:
>>
>> clang++: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found 
>> (required by clang++)
>> clang++: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.21' not found 
>> (required by clang++)
>>
>> Seems the version of clang that comes with emscripten does not like the 
>> old c libs on Red Hat.
>>
>> I know that Red Hat has a newer verison of clang available, so I track 
>> that down in llvm-toolset-6.0
>>
>> Problem 2:  Red Hat clang is not the clang emscripten is looking for
>>
>> Now when I run emcc -v I get 
>>
>> shared:CRITICAL: fastcomp in use, but LLVM has not been built with the 
>> JavaScript backend as a target, llc reports
>>
>> shared:CRITICAL: you can fall back to the older (pre-fastcomp) compiler 
>> core, although that is not recommended, see 
>> http://kripken.github.io/emscripten-site/docs/building_from_source/LLVM-Backend.html
>> shared:ERROR: failing sanity checks due to previous llvm failure
>>
>> Has anyone managed to get emscripten working on RHEL?  Do I need to 
>> compile fastcomp to get this all working?
>>
>

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