[Bioc-devel] Package build failure on RELEASE_3_8. Please fix.

[Turaga, Nitesh]

Hello Maintainers,

Just to clarify, these packages were tested on a Docker image “bioconductor_full” which aims to capture all the system dependencies. 

Other than CATALYST which is actually failing on both RELEASE_3_8 and devel build systems because of errors, the remaining 3 packages are errors caused because of the GCC complier version being used on the image. 

Sorry for the confusion. Please note, this is not related to the errors on the build machine. 

Best,

Nitesh 


> On Mar 8, 2019, at 12:55 PM, Turaga, Nitesh <Nitesh.Turaga using RoswellPark.org> wrote:
> 
> Hello Bioconductor Maintainers, 
> 
> The following packages have issues which need to be fixed by maintainers. The issues are listed below, if you are getting a direct email it means your package is one of the broken ones. Please take time to fix them as soon as possible.
> 
> The packages are, 
> 
> 1. bgx
> 2. CATALYST
> 3. dSimer
> 4. flipflop
> 
> The specific error messages are below. 
> 
> 1. bgx
> 
>        Makevars:14: recipe for target 'bgx.o' failed
>        make: *** [bgx.o] Error 1
>        ERROR: compilation failed for package ‘bgx’
>        * removing ‘/root/shared/pkglibs/bgx’
> 
> 2. CATALYST
> 
>        Error : in method for ‘filter’ with signature ‘.data="daFrame"’:  arguments (‘.preserve’) after ‘...’    in the generic must appear in the method,   in the same place at the end of the argument list
>        Error : unable to load R code in package ‘CATALYST’
>        ERROR: lazy loading failed for package ‘CATALYST’
>        * removing ‘/root/shared/pkglibs/CATALYST’
> 
> 3. dSimer
> 
>        /usr/local/lib/R/etc/Makeconf:171: recipe for target 'BOG.o' failed
>        make: *** [BOG.o] Error 1
>        ERROR: compilation failed for package ‘dSimer’
>        * removing ‘/root/shared/pkglibs/dSimer’
> 
> 4. flipflop
> 
>        /usr/local/lib/R/etc/Makeconf:171: recipe for target 'align.o' failed
>        make: *** [align.o] Error 1
>        ERROR: compilation failed for package ‘flipflop’
>        * removing ‘/root/shared/pkglibs/flipflop’
> 
> 
> Best,
> 
> Nitesh Turaga
> 
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