[Bio-Linux] Fwd: undo mv command

[Tim Booth]

Hi Tauqeer,

I can't see any actual problems there at all, so I'd just leave it.  I
get way more warnings than that if I run debsums on my own machine.

TIM

On Tue, 2015-04-14 at 00:30 +0100, Tauqeer Alam wrote:
> Thanks Tony and Tim. 
> 
> 
> Yes, I had installed new version of samtools recently (after
> un-installing the older one through Ubuntu Software Center), so I will
> leave those three files in the /usr/local/bin/.
> 
> 
> I first tried Tony's suggestions of using "sudo debsums -ac" command
> to find out if there are any missing files in my "/bin".
> I got the following output. I understand the lines related to Brother
> printer which I once tried to install (un-successfully). I also have
> chromium browser installed. Do I have to install any of these missing
> files and how do I do that?
> 
> 
> :~$ sudo debsums -ac
> debsums: missing file /etc/firefox/profile/localstore.rdf (from
> bio-linux-themes-v8 package)
> debsums: missing file /etc/firefox/profile/bookmarks.html (from
> bio-linux-themes-v8 package)
> debsums: missing file /etc/firefox/profile/prefs.js (from
> bio-linux-themes-v8 package)
> debsums: missing file /etc/default/chromium-browser (from
> chromium-browser package)
> /etc/default/cups
> /etc/grub.d/10_linux
> /usr/local/Brother/Printer/HL2270DW/inf/brHL2270DWrc
> /usr/local/Brother/Printer/HL2270DW/inf/brHL2270DWfunc
> debsums: missing file /usr/share/doc/hl2270dwlpr/copyright (from
> hl2270dwlpr package)
> debsums: missing file /usr/share/doc/hl2270dwlpr/changelog.Debian.gz
> (from hl2270dwlpr package)
> debsums: missing file /usr/share/doc/ia32-libs-multiarch/changelog.gz
> (from ia32-libs-multiarch package)
> /boot/vmlinuz-3.13.0-43-generic
> /etc/NetworkManager/NetworkManager.conf
> 
> 
> I really appreciate your help.
> 
> 
> Best
> 
> 
> Tauqeer
> 
> 
> 
> 
> 
> 
> 
> On Mon, Apr 13, 2015 at 10:28 AM, Tony Travis
> <tony.travis at minke-informatics.co.uk> wrote:
>         On 13/04/15 14:12, Tim Booth wrote:
>         > [...]
>         > As for the files you listed, /usr/bin/formatrpsdb is part of
>         the BLAST
>         > package, so reinstall 'blast2' just to be sure.  I don't
>         recognise the
>         > others, and I'd not expect any .jar file to be living in
>         either /usr/bin
>         > or /usr/local/bin.
>         > [...]
>         
>         Hi, Tim.
>         
>         These are from Samtools.
>         
>         seq_cache_populate.pl:
>         
>         >
>         https://github.com/samtools/samtools/blob/b7ac1e2819ab85d5950eb2ce02434aa422fe39ed/misc/seq_cache_populate.pl
>         
>         htsjdk-1.119.jar:
>         
>         > https://github.com/samtools/htsjdk/tree/1.119
>         
>         [A version of Samtools could have been installed manually]
>         
>         HTH,
>         
>           Tony.
>         
>         --
>         Minke Informatics Limited, Registered in Scotland - Company
>         No. SC419028
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> 
> 
> 
> 
> -- 
> *********************************************
> Md Tauqeer Alam, Ph.D
> Division of Infectious Diseases
> Emory University School of Medicine
> 615 Michael Street, Atlanta, GA 30322, USA
> tauqeer9 at gmail.com
> 

-- 
Tim Booth <tbooth at ceh.ac.uk>
NERC Environmental Bioinformatics Centre 

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