[R] [R-sig-Fedora] Building R-3.2.0 from source.

[Rolf Turner]

On 11/05/15 12:06, M. Edward (Ed) Borasky wrote:
> 1. R 3.2.0 is packaged for Fedora now; it's in Rawhide and Fedora 22.
> I'm running Fedora 22 (late beta) and haven't had any problems with R.
> RStudio Desktop Preview (0.99.435) from the RStudio Fedora RPM is also
> running fine. You might save yourself some hassles by upgrading to
> Fedora 22.

I'm sure I would, but I don't dare.  Everything I see on the Fedora 
mailing list fills me with terror in respect of the disasters that can 
occur.  I don't have the skills to cope with such disasters and I have 
no access to support in respect of Fedora.

> 2. I have a bash script to build R from source that works on Fedora
> 22. It probably also works on Fedora 21 but it's been a while since I
> tried it. Note that it installs 'calibre' and makes the ebooks of the
> manuals. It also does some packaging things at the end you probably
> don't need.

Thanks, but I don't think it's any help in my situation.

I had no problem at all building R 3.1.2 from source.  What changed from
3.1.2 to 3.2.0 that would cause those undefined reference problems?

cheers,

Rolf Turner

>
> On Sun, May 10, 2015 at 2:52 PM, Rolf Turner <r.turner at auckland.ac.nz> wrote:
>>
>> I am cross-posting this to r-sig-fedora (I hope that's not an egregious sin)
>> in the hope that doing so might provide some source of insight.
>>
>> I tried
>>
>>      sudo yum install zlib
>>
>> and was told
>>
>>> Package zlib-1.2.5-7.fc17.x86_64 already installed and latest version
>>
>>
>>
>> Likewise for "zlib-devel".
>>
>> I also tried
>>
>>      sudo yum install bzlib
>>
>> and was told
>>
>>> No package bzlib available.
>>
>>
>> Likewise for "bzlib-devel".
>>
>> Finally I sort of got some joy with "lzma" and "lzma-devel" --- both of
>> those yielded an actual installation.  But it didn't help.
>>
>> I re-did the configure and then the make and got the same errors/complaints
>> about undefined references to deflate, inflate, crc32, etc.
>>
>> Can anyone provide any guidance/suggestions about what else I could try?
>> I'm getting very frustrated! :-)
>>
>> cheers,
>>
>> Rolf Turner
>>
>> On 11/05/15 00:50, peter dalgaard wrote:
>>>
>>>
>>>> On 10 May 2015, at 14:15 , Rolf Turner <r.turner at auckland.ac.nz> wrote:
>>>>
>>>>
>>>>
>>>> I am just now getting around to upgrading from 3.1.2 to 3.2.0 and am
>>>> getting hammered by a problem which is beyond my limited capabilities of
>>>> handling.
>>>>
>>>> I executed
>>>>
>>>>    ./configure --with-tcltk --with cairo
>>>>
>>>> which seemed to go just fine, and then did:
>>>>
>>>>     make
>>>>
>>>> In fairly short order I started getting  error messages like unto:
>>>>
>>>>> connections.o: In function `gzcon_write':
>>>>> /home/rolf/Desktop/Rinst/R-3.2.0/src/main/connections.c:5469: undefined
>>>>> reference to `deflate'
>>>>
>>>>
>>>> There were also complaints about undefined references to inflate, crc32,
>>>> deflateEnd, inflateEnd, inflateReset, inflateInit2_, deflateInit2_,
>>>> compress, uncompress, and zlibVersion, many of which were issued repeatedly.
>>>> It finally gave up, saying:
>>>>
>>>>> collect2: error: ld returned 1 exit status
>>>>
>>>>
>>>> A bit of googling informed me (I think?) that a workaround was to
>>>> configure using --without-system-pcre.  This however achieved nothing in my
>>>> case.
>>>>
>>>> Can anyone point me at what I need to do to fix this?  Install or update
>>>> something?
>>>>
>>>> I am running an (elderly, no-longer-supported) Fedora 17 Linux.
>>>>
>>>> Thanks for any assistance.
>>>
>>>
>>> PCRE (regular expressions) won't help you with compression algorithms...
>>> If anything, it is  --without-system-xz, -zlib, -bzlib that would come into
>>> play, but it would be a better idea to ensure that you do have the libraries
>>> and headers installed.
>>>
>>> I'm not completely up to speed on Fedora, but the order of the day is that
>>> you need to install some variation of lzma/zlib/bzlib and their -dev/-devel
>>> header files etc. Check appendix A.1 and A.2 of the R Installation and
>>> Administration manual.
>>>
>>
>>
>> --
>> Technical Editor ANZJS
>> Department of Statistics
>> University of Auckland
>> Phone: +64-9-373-7599 ext. 88276
>> Home phone: +64-9-480-4619
>>
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>
>
>


-- 
Technical Editor ANZJS
Department of Statistics
University of Auckland
Phone: +64-9-373-7599 ext. 88276
Home phone: +64-9-480-4619