[Bioc-devel] Problems with BiocCredentials

[Saskia Freytag]

Hi,

I am trying to push changes to the development release for my package RUVcorr. 
Unfortunately, when I set it up, I used SVN. Now I am unable to access my 
package. I have tried to log in to the BiocCredentials app, but have also been 
unsuccessful. It does not seem to remember me (I cannot get the password 
reset). Is there anyone who could help me?

Cheers,

Saskia

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Re: [Rd] configure --with-pcre1 fails with latest R 4.0 on Ubuntu 14.04

[Hervé Pagès]

Excellent. Thank you!   H.

On 3/20/20 23:55, Tomas Kalibera wrote:

On 3/18/20 6:11 PM, Hervé Pagès wrote:
Thanks Tomas. Any chance the old version of the error message could be 
restored? It would definitely be more helpful than the current one. 
It's confusing to get an error and be told to use --with-pcre1 when 
you're already using it.


The message now gives the required version and UTF-8 support 
requirement, so one does not have to look that one line up.

Thanks to Brian Ripley,

Tomas




H.

On 3/18/20 01:08, Tomas Kalibera wrote:

On 3/17/20 8:18 PM, Hervé Pagès wrote:
Using --with-pcre1 to configure the latest R 4.0 (revision 77988) on 
an Ubuntu 14.04.5 LTS system gives me the following error:


...
checking if lzma version >= 5.0.3... yes
checking for pcre2-config... no
checking for pcre_fullinfo in -lpcre... yes
checking pcre.h usability... yes
checking pcre.h presence... yes
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 PCRE1 version >= 8.32 and has UTF-8 support... no
checking whether PCRE support suffices... configure: error: pcre2 
library and headers are required, or use --with-pcre1


Maybe the real problem is that the PCRE version on this OS is 8.31?


Yes, R requires PCRE version at least 8.32 as documented in R-Admin, 
and this is since September 2019.



The error message is not particularly helpful.


An earlier version of the message gave the requirement explicitly, 
when people would have been more likely to have that old versions of 
PCRE1.
The few who still have it now need to see also the output line above 
to get the requirement and/or look into the manual.


R 4.0 is still keeping support for PCRE1 (>=8.32), but PCRE2 should 
be used whenever possible.


Best,
Tomas



Thanks,
H.









--
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: hpa...@fredhutch.org
Phone:  (206) 667-5791
Fax:(206) 667-1319

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