pcre problems

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

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

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

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~

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

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

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