From h@nk|n@rob|n @end|ng |rom gm@||@com  Fri Mar  1 09:43:07 2019
From: h@nk|n@rob|n @end|ng |rom gm@||@com (robin hankin)
Date: Fri, 1 Mar 2019 21:43:07 +1300
Subject: [Rd] pcre problems
In-Reply-To: <cdbe3889-53df-be5b-3e33-86487070623e@gmail.com>
References: <CAHHjBM7CJa6un7Up6nM4NHZjn17MdXFjRPxkYvkv+V2F6d4hDA@mail.gmail.com>
 <2a6d5ab9-ccfd-c522-5718-baf270e098b5@gmail.com>
 <CAHHjBM5hQ0bmFNaO3QOOO7napLDM5n+5PvJxgG275K07JwL9tg@mail.gmail.com>
 <db7ce85b-50a9-1745-10f9-b88b2252a150@gmail.com>
 <CAHHjBM4OoWRukaS_u=F6ecVmWi3Kqz=8QRA4nNGCtzSOJHOxOg@mail.gmail.com>
 <cdbe3889-53df-be5b-3e33-86487070623e@gmail.com>
Message-ID: <CAHHjBM71_c8Gi+OcJVnhxO8JLNceGY5fgNoWVT9dtxEm_gCDVQ@mail.gmail.com>

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#



hankin.robin at gmail.com



hankin.robin at gmail.com




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
>
>



[Rd] pcre problems
robin hankin