[Bioc-devel] xps build problem on veracruz2

[cstrato]

R/Bioc is still building on Mavericks, and before was built on Snow 
Leopard (which many people are sill using).

Personally I think that it does not make much difference whether 
Mavericks or El Capitan (or Yosemite) is used to build R/Bioc.

However, Sierra is different, and when the CRAN people are experimenting 
with clang 4.0.0 for producing the Mac binaries, as Herve has mentioned, 
then backwards-compatibility would probably be lost anyhow.

But I understand that this is a decision the CRAN people have to make.

Best regards,
Christian


On 03/24/17 01:10, Dan Tenenbaum wrote:
>
>
> ----- Original Message -----
>> From: "Hervé Pagès" <hpages at fredhutch.org>
>> To: "cstrato" <cstrato at aon.at>, "bioc-devel" <bioc-devel at r-project.org>
>> Sent: Thursday, March 23, 2017 12:14:38 PM
>> Subject: Re: [Bioc-devel] xps build problem on veracruz2
>
>> On 03/23/2017 11:09 AM, cstrato wrote:
>>> Dear Herve,
>>>
>>> Thank you for your explanation.
>>>
>>> The reason that xps does not work with ROOT 6 is that I have tried it
>>> but there seem to be so many changes, that I did not succeed.
>>> Since for xps there is no advantage using ROOT 6 vs ROOT 5, and ROOT 5
>>> was still supported, I have decided to stay with ROOT 5.
>>
>> OK
>>
>>>
>>> BTW, I have also one question:
>>> Why did you decide to set up a new Mac with El Capitan instead of using
>>> the newest OS Sierra? (I have the impression that most Mac users are
>>> either happy to stay with their old OS or they upgrade to the newest one.)
>>
>> Same reason as for the choice of compilers: that's what the R folks
>> decided to use for producing the Mac binaries of R and CRAN packages.
>> We're just following their lead on that.
>>
>
> Also, it's always good not to require users to upgrade if they don't have to. Building on El Capitan means users will not have to upgrade to macOS Sierra if they don't want to. Building on Sierra would mean R and packages would not be backwards-compatible with El Capitan.
>
> But it's a tradeoff that also involves the difficulty of maintaining build machines with old OSes, and wanting to take advantage of newer compiler technology. Otherwise R/Bioc would still be building on Mavericks, or Snow Leopard...
>
> Dan
>
>
>> Cheers,
>> H.
>>
>>>
>>> Best regards,
>>> Christian
>>>
>>>
>>> On 03/23/17 17:47, Hervé Pagès wrote:
>>>> Hi Christian,
>>>>
>>>> The CRAN folks are currently experimenting with clang 4.0.0 for
>>>> producing the Mac binaries of R and CRAN packages so we are using
>>>> the same on veracruz2. This is a version of clang that is ahead of
>>>> what's in XCode 8.x or XCode 7.x. So I guess that means we'll have
>>>> to compile ROOT from source on veracruz2.
>>>>
>>>> BTW any reason not to make xps work with ROOT 6?
>>>>
>>>> Cheers,
>>>> H.
>>>>
>>>> On 03/23/2017 07:28 AM, cstrato wrote:
>>>>> Dear Valerie,
>>>>>
>>>>> I have seen that you have set up a new Mac server, veracruz2, running El
>>>>> Capitan.
>>>>>
>>>>> Although the development version of xps does even run on Mac OS Sierra,
>>>>> one issue still remains the same:
>>>>>
>>>>> You need to install the latest ROOT version 5, since xps does not run
>>>>> with ROOT 6!
>>>>>
>>>>> So you need to install on veracruz2 the same root version that you have
>>>>> installed on toluca2 running Maverics, i.e.
>>>>> root_v5.34.36.macosx64-10.11-clang70.dmg
>>>>>
>>>>> However, if you have installed on El Capitan XCode 8.x instead of XCode
>>>>> 7.x, then you need to compile ROOT from source, i.e.:
>>>>> https://urldefense.proofpoint.com/v2/url?u=https-3A__root.cern.ch_download_root-5Fv5.34.36.source.tar.gz&d=DwICAg&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=q9mk6yIytaNZlSdiLX_dFwchX8Tb7ra6x3WBBNIcs2o&s=Lz7YkqZ3XwjRsYIXVTbSvbDvTM-jTyoWvoVSa1PdBDw&e=
>>>>>
>>>>>
>>>>>
>>>>> The README file of xps does explain how to compile ROOT for Sierra. This
>>>>> should also be valid for El Capitan running XCode 8.x.
>>>>>
>>>>> Thank you in advance.
>>>>> Best regards,
>>>>> Christian
>>>>> _._._._._._._._._._._._._._._._._._
>>>>> C.h.r.i.s.t.i.a.n   S.t.r.a.t.o.w.a
>>>>> V.i.e.n.n.a           A.u.s.t.r.i.a
>>>>> e.m.a.i.l:        cstrato at aon.at
>>>>> _._._._._._._._._._._._._._._._._._
>>>>>
>>>>> _______________________________________________
>>>>> Bioc-devel at r-project.org mailing list
>>>>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwICAg&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=q9mk6yIytaNZlSdiLX_dFwchX8Tb7ra6x3WBBNIcs2o&s=0bNMm-aoHuwWs9yBRjyGHTxT0y3UceNADHgMjtosTWU&e=
>>>>>
>>>>>
>>>>>
>>>>
>>
>> --
>> Hervé Pagès
>>
>> Program in Computational Biology
>> Division of Public Health Sciences
>> Fred Hutchinson Cancer Research Center
>> 1100 Fairview Ave. N, M1-B514
>> P.O. Box 19024
>> Seattle, WA 98109-1024
>>
>> E-mail: hpages at fredhutch.org
>> Phone:  (206) 667-5791
>> Fax:    (206) 667-1319
>>
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIF-g&c=eRAMFD45gAfqt84VtBcfhQ&r=TF6f93hjWmgMzjqP9F3thRifibmFvfjc5Ae-bzNwDGo&m=WB1ofcLb-W4SN6VNAgoSRdgRXQRPaelptAH2g0Ur7q8&s=IDfsJGqV_D7hzqLryd27eoZNIuiAIfSNATUnxMy61oo&e=
>