[R-SIG-Mac] Problem with Devel version (R 3.6) for Mac OS X
Pages, Herve
hp@ge@ @end|ng |rom |redhutch@org
Wed Apr 17 09:57:56 CEST 2019
Thanks! H.
On 4/15/19 19:15, Simon Urbanek wrote:
> Thanks - there was a bug in the sync script that synchronizes binaries from the build machines to the webserver (created when we stopped syncing mavericks binaries) so that the binaries were not correctly synced with the web server. Hence a stale .pkg and tar balls were on the webserver. It should be fixed now.
>
> Thanks,
> Simon
>
>
>> On Apr 15, 2019, at 15:39, peter dalgaard <pdalgd using gmail.com> wrote:
>>
>> I can confirm this. This time, also the tarball seems out of sync. Simon?
>>
>> -pd
>>
>>> On 15 Apr 2019, at 21:21 , Pages, Herve <hpages using fredhutch.org> wrote:
>>>
>>> I have a similar problem. Today https://urldefense.proofpoint.com/v2/url?u=https-3A__mac.r-2Dproject.org_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O8J-HYpPitWLoxGDvjcufgtTqIsXsaAXrIZQUS5wRjA&s=fDm3RwOEEK-_iSChqplUgpNmwp97v7xzTqwSZB-kUkA&e= says:
>>>
>>> R-3.6-branch
>>> 3.6.0 beta
>>> (2019/04/14, r76394)
>>>
>>> but after downloading and installing it I got:
>>>
>>> R version 3.6.0 alpha (2019-04-09 r76363)
>>>
>>> Thanks,
>>> H.
>>>
>>> On 4/11/19 08:11, Bryan Hanson wrote:
>>>> Sorry if I was not clear. I downloaded R-3.6-branch-el-capitan-signed.pkg from https://urldefense.proofpoint.com/v2/url?u=https-3A__mac.r-2Dproject.org_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=tOYTB-iEp3DlgJ-5SEny_fPYOJHf_rO6qqg9TtJuIqk&e=<https://urldefense.proofpoint.com/v2/url?u=https-3A__mac.r-2Dproject.org_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=tOYTB-iEp3DlgJ-5SEny_fPYOJHf_rO6qqg9TtJuIqk&e=> (redirects from r.research.att.com <https://urldefense.proofpoint.com/v2/url?u=http-3A__r.research.att.com_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=ehDMrFC-4v3rt9_SEm-qgPJvcGrOE-QzaN7v9dUoa78&e=>), which is the binary + GUI with installer. Once it installed, the start up message said it was r76245, but the web site said r76363.
>>>>
>>>> Bryan
>>>>
>>>>> On Apr 11, 2019, at 10:41 AM, peter dalgaard <pdalgd using gmail.com> wrote:
>>>>>
>>>>> Nit: 3.6.x is not the devel version at this point (even if unreleased). Dunno why there is no actual R-devel (3.7.x) binaries.
>>>>>
>>>>> However, the tarball does have (in Rversion.h)
>>>>>
>>>>> #define R_SVN_REVISION 76363
>>>>>
>>>>> and SVN-REVISION likewise
>>>>>
>>>>> are you seeing something different with the .pkg version?
>>>>>
>>>>> -pd
>>>>>
>>>>>
>>>>>
>>>>>> On 11 Apr 2019, at 16:09 , Bryan Hanson <hanson using depauw.edu> wrote:
>>>>>>
>>>>>> Thanks Simon for getting that build running again. I’m not sure if it matters, but the website says the current version is r76363 but what was downloaded was r76245.
>>>>>>
>>>>>> Bryan
>>>>>>
>>>>>>> On Apr 11, 2019, at 8:30 AM, Simon Urbanek <Simon.Urbanek using r-project.org> wrote:
>>>>>>>
>>>>>>> Elizabeth,
>>>>>>>
>>>>>>> yes, if the status say FAILED then you cannot install that R version since it doesn't work. However, the current nightly build shows OK so you please try that one.
>>>>>>>
>>>>>>> Cheers,
>>>>>>> Simon
>>>>>>>
>>>>>>>
>>>>>>>> On Apr 8, 2019, at 7:38 PM, Elizabeth Purdom <epurdom using stat.berkeley.edu> wrote:
>>>>>>>>
>>>>>>>> Hello,
>>>>>>>>
>>>>>>>> I am wanting to download the development version for R. I have Mac OS X 11.6 and I usually go to https://urldefense.proofpoint.com/v2/url?u=http-3A__r.research.att.com_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=ehDMrFC-4v3rt9_SEm-qgPJvcGrOE-QzaN7v9dUoa78&e=<https://urldefense.proofpoint.com/v2/url?u=http-3A__r.research.att.com_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=ehDMrFC-4v3rt9_SEm-qgPJvcGrOE-QzaN7v9dUoa78&e=> and download a dmg from there. However, the devel version is listed as 3.5.2 (2018/12/20, r75870), not 3.6. When I downloaded it anyway, I couldn’t use the development version of bioconductor because I didn’t have the right R.
>>>>>>>>
>>>>>>>> Also, the R.app for that dmg did not work (only the command line worked), with a message that I should check to make sure I have the right OS (see full report below). The website just says el-capitan, which I do have. (the log for the development version also says make FAILED).
>>>>>>>>
>>>>>>>> I feel like somehow I’m getting a non-updated version of a mirror or something.
>>>>>>>>
>>>>>>>> Thanks for any help,
>>>>>>>> Elizabeth Purdom
>>>>>>>>
>>>>>>>> -------------
>>>>>>>> Associate Professor
>>>>>>>> Department of Statistics, UC Berkeley
>>>>>>>>
>>>>>>>> (510) 642-6154 (o) | (510) 642-7892 (f) | epurdom using stat.berkeley.edu
>>>>>>>> Mailing: 367 Evans Hall, Berkeley, CA 94720-3860
>>>>>>>> Office: 433 Evans Hall
>>>>>>>>
>>>>>>>>
>>>>>>>> System Software Overview:
>>>>>>>>
>>>>>>>> System Version: OS X 10.11.6 (15G22010)
>>>>>>>> Kernel Version: Darwin 15.6.0
>>>>>>>>
>>>>>>>>
>>>>>>>> Error message:
>>>>>>>>
>>>>>>>> Process: R [56142]
>>>>>>>> Path: /Applications/R.app/Contents/MacOS/R
>>>>>>>> Identifier: org.R-project.R
>>>>>>>> Version: ???
>>>>>>>> Code Type: X86-64 (Native)
>>>>>>>> Parent Process: ??? [1]
>>>>>>>> Responsible: R [56142]
>>>>>>>> User ID: 501
>>>>>>>>
>>>>>>>> Date/Time: 2019-04-08 16:30:33.337 -0700
>>>>>>>> OS Version: Mac OS X 10.11.6 (15G22010)
>>>>>>>> Report Version: 11
>>>>>>>> Anonymous UUID: 8A5D3691-2F85-AD45-A9AA-66C6B7146343
>>>>>>>>
>>>>>>>> Sleep/Wake UUID: 182C0109-41E6-4708-A6E8-2A8153BE1F27
>>>>>>>>
>>>>>>>> Time Awake Since Boot: 450000 seconds
>>>>>>>> Time Since Wake: 260 seconds
>>>>>>>>
>>>>>>>> System Integrity Protection: enabled
>>>>>>>>
>>>>>>>> Crashed Thread: 0
>>>>>>>>
>>>>>>>> Exception Type: EXC_BREAKPOINT (SIGTRAP)
>>>>>>>> Exception Codes: 0x0000000000000002, 0x0000000000000000
>>>>>>>> Exception Note: EXC_CORPSE_NOTIFY
>>>>>>>>
>>>>>>>> Application Specific Information:
>>>>>>>> dyld: launch, loading dependent libraries
>>>>>>>>
>>>>>>>> Dyld Error Message:
>>>>>>>> Library not loaded: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libR.dylib
>>>>>>>> Referenced from: /Applications/R.app/Contents/MacOS/R
>>>>>>>> Reason: image not found
>>>>>>>>
>>>>>>>> Binary Images:
>>>>>>>> 0x7fff63820000 - 0x7fff63857a47 dyld (360.22) <6B9CD3BA-2D60-3629-A0CB-AB810F55E8DD> /usr/lib/dyld
>>>>>>>>
>>>>>>>> Model: MacBookAir7,2, BootROM MBA71.0178.B00, 2 processors, Intel Core i7, 2.2 GHz, 8 GB, SMC 2.27f2
>>>>>>>> Graphics: Intel HD Graphics 6000, Intel HD Graphics 6000, Built-In
>>>>>>>> Memory Module: BANK 0/DIMM0, 4 GB, DDR3, 1600 MHz, 0x80AD, 0x483943434E4E4E384A544D4C41522D4E544D
>>>>>>>> Memory Module: BANK 1/DIMM0, 4 GB, DDR3, 1600 MHz, 0x80AD, 0x483943434E4E4E384A544D4C41522D4E544D
>>>>>>>> AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x117), Broadcom BCM43xx 1.0 (7.21.95.178.1a2)
>>>>>>>> Bluetooth: Version 4.4.6f4, 3 services, 19 devices, 1 incoming serial ports
>>>>>>>> Network Service: AirPort, AirPort, en0
>>>>>>>> Serial ATA Device: APPLE SSD SM0512G, 500.28 GB
>>>>>>>> USB Device: USB 3.0 Bus
>>>>>>>> USB Device: BRCM20702 Hub
>>>>>>>> USB Device: Bluetooth USB Host Controller
>>>>>>>> Thunderbolt Bus: MacBook Air, Apple Inc., 27.2
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
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>>>>>>>>
>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> R-SIG-Mac mailing list
>>>>>>>> R-SIG-Mac using r-project.org
>>>>>>>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_r-2Dsig-2Dmac&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=f23BOLsDc4HNbEjiAY1Jq5OzpgOZzIwAVJG22ELA7hg&e=
>>>>>>> _______________________________________________
>>>>>>> R-SIG-Mac mailing list
>>>>>>> R-SIG-Mac using r-project.org
>>>>>>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_r-2Dsig-2Dmac&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=f23BOLsDc4HNbEjiAY1Jq5OzpgOZzIwAVJG22ELA7hg&e=
>>>>>> _______________________________________________
>>>>>> R-SIG-Mac mailing list
>>>>>> R-SIG-Mac using r-project.org
>>>>>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_r-2Dsig-2Dmac&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=f23BOLsDc4HNbEjiAY1Jq5OzpgOZzIwAVJG22ELA7hg&e=
>>>>> --
>>>>> Peter Dalgaard, Professor,
>>>>> Center for Statistics, Copenhagen Business School
>>>>> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
>>>>> Phone: (+45)38153501
>>>>> Office: A 4.23
>>>>> Email: pd.mes using cbs.dk Priv: PDalgd using gmail.com
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>> [[alternative HTML version deleted]]
>>>>
>>>> _______________________________________________
>>>> R-SIG-Mac mailing list
>>>> R-SIG-Mac using r-project.org
>>>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_r-2Dsig-2Dmac&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=oFNo_QwM9UeW-_-oCb3ONvUkqd9XfbLSErM0_0cPZfs&s=f23BOLsDc4HNbEjiAY1Jq5OzpgOZzIwAVJG22ELA7hg&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 using fredhutch.org
>>> Phone: (206) 667-5791
>>> Fax: (206) 667-1319
>> --
>> Peter Dalgaard, Professor,
>> Center for Statistics, Copenhagen Business School
>> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
>> Phone: (+45)38153501
>> Office: A 4.23
>> Email: pd.mes using cbs.dk Priv: PDalgd using gmail.com
>>
>> _______________________________________________
>> R-SIG-Mac mailing list
>> R-SIG-Mac using r-project.org
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_r-2Dsig-2Dmac&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O8J-HYpPitWLoxGDvjcufgtTqIsXsaAXrIZQUS5wRjA&s=UIfd0YDZAOOgjH1l5vx5VTpVKGv9NfYPiSpRYK3gMfc&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 using fredhutch.org
Phone: (206) 667-5791
Fax: (206) 667-1319
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