<div dir="ltr">Ok, thanks again.<br></div><div class="gmail_extra"><br><div class="gmail_quote">On Thu, Oct 1, 2015 at 12:47 PM, Tim Booth <span dir="ltr"><<a href="mailto:tbooth@ceh.ac.uk" target="_blank">tbooth@ceh.ac.uk</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi Carlos,<br>
<br>
See for yourself. You can unpack the upgrade script to view it, but<br>
I've also attached an unpacked copy to this mail for you. If you read<br>
from line 154 you can see exactly what is being added. You'll see why I<br>
don't advise people to do this manually as there are many steps.<br>
<br>
Cheers,<br>
<br>
TIM<br>
<div class="HOEnZb"><div class="h5"><br>
On Thu, 2015-10-01 at 12:37 -0300, Carlos Morais wrote:<br>
> Hi Tim,<br>
><br>
><br>
> I've added manually the Biolinux ppa. Adding also C2D4U ppa fixes.<br>
> Thanks a lot.<br>
><br>
> Does the mentioned upgrade script add any other useful repository?<br>
><br>
><br>
> Regards,<br>
><br>
> Carlos<br>
><br>
><br>
> On Thu, Oct 1, 2015 at 7:12 AM, Tim Booth <<a href="mailto:tbooth@ceh.ac.uk">tbooth@ceh.ac.uk</a>> wrote:<br>
> Hi Carlos,<br>
><br>
> You should have the package available. On Bio-Linux 8<br>
> (Trusty) a bunch<br>
> of R packages are provided by the C2D4U PPA repository. So on<br>
> my system<br>
> I can check it like this:<br>
><br>
> tbooth@balisaur[tbooth] apt-cache policy r-cran-ape<br>
> r-cran-ape:<br>
> Installed: 3.3-1cran1ppa0<br>
> Candidate: 3.3-1cran1ppa0<br>
> Version table:<br>
> *** 3.3-1cran1ppa0 0<br>
> 500 <a href="http://ppa.launchpad.net/marutter/c2d4u/ubuntu/" rel="noreferrer" target="_blank">http://ppa.launchpad.net/marutter/c2d4u/ubuntu/</a><br>
> trusty/main amd64 Packages<br>
> 100 /var/lib/dpkg/status<br>
><br>
> If you installed Bio-Linux 8 directly or ran the upgrade8.sh<br>
> script then<br>
> this should have been set up for you, so either something has<br>
> gone wrong<br>
> or you have set up your software sources manually.<br>
><br>
> I'd suggest you either re-run the upgrade script to add the<br>
> repository<br>
> configuration or else see<br>
> <a href="https://launchpad.net/~marutter/+archive/ubuntu/c2d4u" rel="noreferrer" target="_blank">https://launchpad.net/~marutter/+archive/ubuntu/c2d4u</a> and<br>
> follow the<br>
> instructions for manually adding the repository. Note that<br>
> you will<br>
> also need to set up R core updates in order for these packages<br>
> to work<br>
> properly.<br>
><br>
> Cheers,<br>
><br>
> TIM<br>
><br>
> On Wed, 2015-09-30 at 17:31 -0300, Carlos Morais wrote:<br>
> > Hi,<br>
> ><br>
> ><br>
> > Any reason why package r-cran-ape is not present in<br>
> trusty? It is<br>
> > on precise.<br>
> ><br>
> ><br>
> > Regards,<br>
> ><br>
> > Carlos<br>
> ><br>
><br>
> > _______________________________________________<br>
> > Bio-Linux mailing list<br>
> > <a href="mailto:Bio-Linux@nebclists.nerc.ac.uk">Bio-Linux@nebclists.nerc.ac.uk</a><br>
> > <a href="http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux" rel="noreferrer" target="_blank">http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux</a><br>
><br>
> --<br>
> Tim Booth <<a href="mailto:tbooth@ceh.ac.uk">tbooth@ceh.ac.uk</a>><br>
><br>
> Centre for Ecology and Hydrology<br>
> Maclean Bldg, Benson Lane<br>
> Crowmarsh Gifford<br>
> Wallingford, England<br>
> OX10 8BB<br>
><br>
> <a href="http://environmentalomics.org/bio-linux" rel="noreferrer" target="_blank">http://environmentalomics.org/bio-linux</a><br>
> <a href="tel:%2B44%201491%2069%202297" value="+441491692297">+44 1491 69 2297</a><br>
><br>
><br>
> _______________________________________________<br>
> Bio-Linux mailing list<br>
> <a href="mailto:Bio-Linux@nebclists.nerc.ac.uk">Bio-Linux@nebclists.nerc.ac.uk</a><br>
> <a href="http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux" rel="noreferrer" target="_blank">http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux</a><br>
><br>
><br>
> _______________________________________________<br>
> Bio-Linux mailing list<br>
> <a href="mailto:Bio-Linux@nebclists.nerc.ac.uk">Bio-Linux@nebclists.nerc.ac.uk</a><br>
> <a href="http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux" rel="noreferrer" target="_blank">http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux</a><br>
<br>
--<br>
Tim Booth <<a href="mailto:tbooth@ceh.ac.uk">tbooth@ceh.ac.uk</a>><br>
<br>
Centre for Ecology and Hydrology<br>
Maclean Bldg, Benson Lane<br>
Crowmarsh Gifford<br>
Wallingford, England<br>
OX10 8BB<br>
<br>
<a href="http://environmentalomics.org/bio-linux" rel="noreferrer" target="_blank">http://environmentalomics.org/bio-linux</a><br>
<a href="tel:%2B44%201491%2069%202297" value="+441491692297">+44 1491 69 2297</a><br>
<br>
<br>
<br>
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