<div dir="ltr"><div>Dear Tony Travis, <br><br></div><div>Sorry, I was able to edit the file using the following script but, it is still unable to find the biolinux version of skbio. Are there other files that I need to edit? Thank you for your time and help. <br><br></div><div>Sincerely, <br><br></div><div>David Bradshaw<br></div><div><br>microbiology@microbiology-OptiPlex-9020[microbiology] gksudo gedit /etc/apt/sources.list.d/nebc-bio-linux-trusty.list<br><br>** (gedit:25581): WARNING **: Set document metadata failed: Setting attribute metadata::gedit-spell-enabled not supported<br><br>** (gedit:25581): WARNING **: Set document metadata failed: Setting attribute metadata::gedit-encoding not supported<br><br>** (gedit:25581): WARNING **: Set document metadata failed: Setting attribute metadata::gedit-position not supported<br><br>microbiology@microbiology-OptiPlex-9020[microbiology] apt-cache policy python-skbio <br>python-skbio:<br> Installed: 0.4.1-1<br> Candidate: 0.4.1-1<br> Version table:<br> *** 0.4.1-1 500<br> 500 <a href="http://us.archive.ubuntu.com/ubuntu">http://us.archive.ubuntu.com/ubuntu</a> xenial/universe amd64 Packages<br> 100 /var/lib/dpkg/status<br><br>microbiology@microbiology-OptiPlex-9020[microbiology] cat /etc/apt/sources.list.d/nebc-bio-linux-trusty.list <br>deb <a href="http://ppa.launchpad.net/nebc/bio-linux/ubuntu">http://ppa.launchpad.net/nebc/bio-linux/ubuntu</a> trusty main # disabled on upgrade to xenial<br>deb-src <a href="http://ppa.launchpad.net/nebc/bio-linux/ubuntu">http://ppa.launchpad.net/nebc/bio-linux/ubuntu</a> trusty main # disabled on upgrade to xenial<br><br>microbiology@microbiology-OptiPlex-9020[microbiology] sudo apt install python-skbio=0.2.3-obiolinux2 <br>[sudo] password for microbiology: <br>Reading package lists... Done<br>Building dependency tree <br>Reading state information... Done<br>E: Version '0.2.3-obiolinux2' for 'python-skbio' was not found<br>microbiology@microbiology-OptiPlex-9020[microbiology] <br><br></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Tue, Aug 16, 2016 at 6:40 PM, David Bradshaw <span dir="ltr"><<a href="mailto:dbradshaw3366@gmail.com" target="_blank">dbradshaw3366@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div><div><div>Dear Tony Travis, <br><br></div>Thank you for the help. I tried to go to the /etc/apt/sources.list.d/nebc-<wbr>bio-linux-trusty.list location and remove the # from the lines but it would not let me save the changes. Picture below. Thank you for your time and help, sorry that I keep having to ask for more help. <br><br></div>Sincerely, <br><br></div>David Bradshaw<br></div><div class="HOEnZb"><div class="h5"><div class="gmail_extra"><br><div class="gmail_quote">On Tue, Aug 16, 2016 at 6:27 PM, Tony Travis <span dir="ltr"><<a href="mailto:tony.travis@minke-informatics.co.uk" target="_blank">tony.travis@minke-<wbr>informatics.co.uk</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><span>On 15/08/16 15:15, David Bradshaw wrote:<br>
> Dear Tony Travis,<br>
><br>
> I tried following your script above but it does not seem to recognize<br>
> that the biolinux version exists. Please see below. Sorry, I am still a<br>
> bit new to the qiime and linux systems. What would be the next step?<br>
<br>
</span>Hi, David.<br>
<br>
You have to re-enable the Bio-Linux 8 PPA after upgrading:<br>
<br>
> root@beluga:~# cat /etc/apt/sources.list.d/nebc-b<wbr>io-linux-trusty.list<br>
> deb <a href="http://ppa.launchpad.net/nebc/bio-linux/ubuntu" rel="noreferrer" target="_blank">http://ppa.launchpad.net/nebc/<wbr>bio-linux/ubuntu</a> trusty main # disabled on upgrade to xenial<br>
> deb-src <a href="http://ppa.launchpad.net/nebc/bio-linux/ubuntu" rel="noreferrer" target="_blank">http://ppa.launchpad.net/nebc/<wbr>bio-linux/ubuntu</a> trusty main # disabled on upgrade to xenial<br>
<br>
Uncomment the "#deb..." lines that the upgrade script commented out.<br>
<div><div><br>
HTH,<br>
<br>
Tony.<br>
<br>
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