pcre problems
On Fri, Mar 1, 2019 at 4:17 AM Martin Maechler
<maechler at stat.math.ethz.ch> wrote:
Dear Robin and Tomas, By changing the CC, I'm hereby trying to move this to R-SIG-Debian (Ubuntu a flavor of Debian) where it belongs ... Martin
robin hankin
on Fri, 1 Mar 2019 21:43:07 +1300 writes:
> Still something wrong. I've uncommented the deb-src lines in
> sources.list as you suggested (and I thought it couldn't hurt to try
> --allow-unauthenticated as well) and:
> root at limpet:/etc/apt# apt-get update --allow-unauthenticated
> Hit:1 http://nz.archive.ubuntu.com/ubuntu bionic InRelease
> Hit:2 http://repo.steampowered.com/steam precise InRelease
> Hit:3 http://nz.archive.ubuntu.com/ubuntu bionic-updates InRelease
> Hit:4 http://nz.archive.ubuntu.com/ubuntu bionic-backports InRelease
> Ign:5 http://cran.rstudio.com/bin/linux/ubuntu bionic/ InRelease
> Err:6 http://cran.rstudio.com/bin/linux/ubuntu bionic/ Release
> 404 Not Found [IP: 13.35.146.80 80]
> Hit:7 https://cloud.r-project.org/bin/linux/ubuntu cosmic-cran35/
> InRelease
> Hit:8 http://ppa.launchpad.net/edd/misc/ubuntu bionic InRelease
> Hit:9 http://security.ubuntu.com/ubuntu bionic-security InRelease
> Hit:10 http://ppa.launchpad.net/marutter/c2d4u/ubuntu bionic InRelease
> Ign:11 http://ppa.launchpad.net/marutter/rdev/ubuntu bionic InRelease
> Hit:12 http://ppa.launchpad.net/marutter/rrutter3.5/ubuntu bionic InRelease
> Hit:13 http://ppa.launchpad.net/teejee2008/ppa/ubuntu bionic InRelease
> Err:14 http://ppa.launchpad.net/marutter/rdev/ubuntu bionic Release
> 404 Not Found [IP: 91.189.95.83 80]
> Ign:15 http://dl.google.com/linux/chrome/deb stable InRelease
> Hit:16 http://dl.google.com/linux/chrome/deb stable Release
> Reading package lists... Done
> E: The repository 'http://cran.rstudio.com/bin/linux/ubuntu bionic/
> Release' does not have a Release file.
> N: Updating from such a repository can't be done securely, and is
> therefore disabled by default.
> N: See apt-secure(8) manpage for repository creation and user
> configuration details.
> E: The repository 'http://ppa.launchpad.net/marutter/rdev/ubuntu
> bionic Release' does not have a Release file.
> N: Updating from such a repository can't be done securely, and is
> therefore disabled by default.
> N: See apt-secure(8) manpage for repository creation and user
> configuration details.
> root at limpet:/etc/apt#
Leaving the rest of the email chain below for reference. I see two issues with the above output and your sources.list file: 1. "http://cran.rstudio.com/bin/linux/ubuntu bionic/" is incorrect. It should be "http://cran.rstudio.com/bin/linux/ubuntu bionic-cran35/" 2. You are mixing Bionic and Cosmic, which we do not recommend. Michael
> On Fri, Mar 1, 2019 at 9:19 PM Tomas Kalibera <tomas.kalibera at gmail.com> wrote:
>>
>> On 3/1/19 9:03 AM, robin hankin wrote:
>> > OK thanks Tomas, but I get
>> >
>> >
>> > OK~ sudo apt-get build-dep r-base
>> > Reading package lists... Done
>> > E: Unable to find a source package for r-base
>> > OK~
>>
>> It seems you need to enable source code repositories on your system
>> (and then run apt-get update).
>> You can enable them in /etc/apt/sources.list, uncomment all lines
>> starting with deb-src.
>>
>> Best
>> Tomas
>>
>> >
>> >
>> > hankin.robin at gmail.com
>> >
>> >
>> > On Fri, Mar 1, 2019 at 8:47 PM Tomas Kalibera <tomas.kalibera at gmail.com> wrote:
>> >> On 3/1/19 7:10 AM, robin hankin wrote:
>> >>> thanks for this guys.
>> >>>
>> >>> I only compiled pcre myself as a last resort, because of the
>> >>> ./configure failure. But AFAICS apt-get reports correct
>> >>> installation:
>> >>>
>> >>> OK~/Downloads/R-devel sudo apt-get install r-base-dev
>> >>> Reading package lists... Done
>> >>> Building dependency tree
>> >>> Reading state information... Done
>> >>> r-base-dev is already the newest version (3.5.2-1cosmic).
>> >>> 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
>> >>> OK~/Downloads/R-devel
>> >> I would just run this
>> >>
>> >> apt-get build-dep r-base
>> >>
>> >> that will install all packages needed to _build_ r-base, so including PCRE.
>> >>
>> >> Best
>> >> Tomas
>> >>
>> >>> config.log gives me:
>> >>>
>> >>> configure:42208: $? = 0
>> >>> configure:42208: result: yes
>> >>> configure:42208: checking for pcre.h
>> >>> configure:42208: result: yes
>> >>> configure:42208: checking pcre/pcre.h usability
>> >>> configure:42208: gcc -c -g -O2 -I/usr/local/include conftest.c >&5
>> >>> conftest.c:289:10: fatal error: pcre/pcre.h: No such file or directory
>> >>> #include <pcre/pcre.h>
>> >>> ^~~~~~~~~~~~~
>> >>> compilation terminated.
>> >>> configure:42208: $? = 1
>> >>> configure: failed program was:
>> >>> | /* confdefs.h */
>> >>> | #define PACKAGE_NAME "R"
>> >>> | #define PACKAGE_TARNAME "R"
>> >>> | #define PACKAGE_VERSION "3
>> >>>
>> >>> and
>> >>>
>> >>> HAVE_UNISTD_H
>> >>> | # include <unistd.h>
>> >>> | #endif
>> >>> | #include <pcre/pcre.h>
>> >>> configure:42208: result: no
>> >>> configure:42208: checking pcre/pcre.h presence
>> >>> configure:42208: gcc -E -I/usr/local/include conftest.c
>> >>> conftest.c:256:10: fatal error: pcre/pcre.h: No such file or directory
>> >>> #include <pcre/pcre.h>
>> >>> ^~~~~~~~~~~~~
>> >>> compilation terminated.
>> >>> configure:42208: $? = 1
>> >>> configure: failed program was:
>> >>> | /* confdefs.h */
>> >>> | #define PACKAGE_NAME "R"
>> >>> | #define PACKAGE_TARNAME "R"
>> >>> | #define PACKAGE_VERSION "3.6.0"
>> >>> | #define PACKAGE_STRING "R 3.6.0"
>> >>> | #define PACKAGE_BUGREPOR
>> >>>
>> >>>
>> >>>
>> >>> hankin.robin at gmail.com
>> >>>
>> >>>
>> >>>
>> >>>
>> >>> On Mon, Feb 25, 2019 at 9:39 PM Tomas Kalibera <tomas.kalibera at gmail.com> wrote:
>> >>>> On 2/25/19 6:25 AM, robin hankin wrote:
>> >>>>> Hi there, ubuntu 18.04.2, trying to compile R-devel 3.6.0, svn 76155.
>> >>>>>
>> >>>>> I am having difficulty compiling R. I think I have pcre installed correctly:
>> >>>> You can use
>> >>>>
>> >>>> apt-get build-dep r-base
>> >>>>
>> >>>> to install binary Ubuntu packages needed to build R from source,
>> >>>> including PCRE, so there should be no need to compile PCRE from source.
>> >>>> If you need for some special reason to compile PCRE from source, please
>> >>>> see R Admin Manual, section A.1 on how to configure PCRE. The manual
>> >>>> also says how to set compilation flags for R to look for headers in
>> >>>> other directories. Sometimes it helps to search the config.log when
>> >>>> configure fails. If still in trouble, please report how you built PCRE
>> >>>> and how you told R where to find it, and the relevant part of
>> >>>> config.log, to maximize chances people could offer useful advice.
>> >>>>
>> >>>> Best,
>> >>>> Tomas
>> >>>>
>> >>>>> OK~/Downloads/R-devel pcretest -C
>> >>>>> PCRE version 8.41 2017-07-05
>> >>>>> Compiled with
>> >>>>> 8-bit support
>> >>>>> UTF-8 support
>> >>>>> No Unicode properties support
>> >>>>> No just-in-time compiler support
>> >>>>> Newline sequence is LF
>> >>>>> \R matches all Unicode newlines
>> >>>>> Internal link size = 2
>> >>>>> POSIX malloc threshold = 10
>> >>>>> Parentheses nest limit = 250
>> >>>>> Default match limit = 10000000
>> >>>>> Default recursion depth limit = 10000000
>> >>>>> Match recursion uses stack
>> >>>>> OK~/Downloads/R-devel
>> >>>>>
>> >>>>>
>> >>>>> But ./configure gives me this:
>> >>>>>
>> >>>>> [snip]
>> >>>>> checking for pcre.h... yes
>> >>>>> checking pcre/pcre.h usability... no
>> >>>>> checking pcre/pcre.h presence... no
>> >>>>> checking for pcre/pcre.h... no
>> >>>>> checking if PCRE version >= 8.20, < 10.0 and has UTF-8 support... no
>> >>>>> checking whether PCRE support suffices... configure: error: pcre >=
>> >>>>> 8.20 library and headers are required
>> >>>>> OK~/Downloads/R-devel
>> >>>>>
>> >>>>> can anyone advise?
>> >>>>>
>> >>>>>
>> >>>>>
>> >>>>>
>> >>>>>
>> >>>>>
>> >>>>> hankin.robin at gmail.com
>> >>>>>
>> >>>>> ______________________________________________
>> >>>>> R-devel at r-project.org mailing list
>> >>>>> https://stat.ethz.ch/mailman/listinfo/r-devel
>>
>>
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