[Bio-Linux] Live Bio-Linux not persistent
Tim Booth
tbooth at ceh.ac.uk
Thu Jun 19 06:10:29 EDT 2014
Hi Mike,
Congratulations on that bit of detective work. I'd not bothered
checking the Grub configuration as it didn't make any difference on our
test machines, or any teaching machines I've used before, but I guess
your machines boot via EFI and therefore do use Grub.
Yes, persistent mode will slow the things down a bit. Unfortunately
there's no avoiding this, and I think that your fix is quite correct.
As I recall you are teaching today, so I hope it goes well and if you
have any urgent issues please do give me a call.
Cheers,
TIM
On Thu, 2014-06-12 at 12:12 +0100, Cox, Michael J wrote:
> Dear All,
>
>
> I think I fixed this, when I checked /boot/grub/grub.cfg there was no
> persistent flag. Adding this to the first menu entry line:
>
>
> linux /casper/vmlinuz.efi file=/cdrom/preseed/ubuntu.seed boot=casper
> persistent quite splash —
>
>
> now renders the sticks persistent. In addition I can now see the data
> and tutorials that Tim loaded for me in /home.
>
>
> It does take a little longer to load and is slow initially, so I have
> some concerns that I have done something less than ideal. Comments
> appreciated.
>
>
> Thanks
>
>
> Mike
>
>
>
> On 12 Jun 2014, at 12:00, <bio-linux-request at nebclists.nerc.ac.uk>
> <bio-linux-request at nebclists.nerc.ac.uk> wrote:
>
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> > 1. Live Bio-Linux not persistent (Cox, Michael J)
> >
> >
> > ----------------------------------------------------------------------
> >
> > Message: 1
> > Date: Thu, 12 Jun 2014 09:13:37 +0000
> > From: "Cox, Michael J" <michael.cox1 at imperial.ac.uk>
> > To: "bio-linux at nebclists.nerc.ac.uk"
> > <bio-linux at nebclists.nerc.ac.uk>
> > Subject: [Bio-Linux] Live Bio-Linux not persistent
> > Message-ID: <B6B32EFF-5AD6-436B-B760-975F4CCA4864 at imperial.ac.uk>
> > Content-Type: text/plain; charset="windows-1252"
> >
> > Hi All,
> >
> > we?re using live USBs for a course next week that Tim kindly cloned
> > after installing a couple of R packages and a test dataset. He?s
> > now on his hols, so I thought I?d check to see whether the rest of
> > the list could help me with an issue that I?m having.
> >
> > On boot, I couldn?t find the data that Tim added. I?ve checked by
> > creating a file and the sticks aren?t persistent and files are
> > removed when the USB stick is. I did find a reference that
> > suggested creating a new user and that user account would be
> > persistent, but no joy, new user and file removed on reboot.
> >
> > The additional R packages that Tim added to the distribution (dev
> > version of PhyloSeq) are present and correct, so that at least has
> > stayed.
> >
> > I have checked in:
> >
> > /syslinux/txt.cfg
> >
> > and this seems correct - the persistent flag is set on the Try
> > Bio-Linux 7 option:
> >
> > default live
> > label live
> > menu label ^Try Bio-Linux 7 without installing
> > kernel /casper/vmlinuz.efi
> > append noprompt cdrom-detect/try-usb=true persistent
> > file=/cdrom/preseed/ubuntu.seed boot=casper initrd=/casper/initrd.lz
> > quiet splash locale=en_GB.UTF-8 --
> > label live-install
> > menu label ^Install Bio-Linux 7
> > kernel /casper/vmlinuz.efi
> > append noprompt cdrom-detect/try-usb=true persistent
> > file=/cdrom/preseed/ubuntu.seed boot=casper only-ubiquity
> > initrd=/casper/initrd.lz quiet splash --
> > label check
> > menu label ^Check stick for defects
> > kernel /casper/vmlinuz.efi
> > append boot=casper noprompt integrity-check
> > initrd=/casper/initrd.lz quiet splash --
> > label memtest
> > menu label Test ^memory
> > kernel /install/mt86plus
> > label hd
> > menu label ^Boot from first hard disk
> > localboot 0x80
> >
> > This post
> > http://ubuntuforums.org/showthread.php?t=2124124&p=12551088#post12551088 suggests editing syslinux.cfg (rather than txt.cfg) to make a Ubuntu stick persistent, which I?ve tried, but it booted up exactly as before and again was stubbornly resistant to retaining files.
> >
> > Can anyone suggest ways to get this working? Given the fact the R
> > packages have remained, some aspect of this seems to be
> > functioning? I could have the attendees download the data and
> > course material, but would much rather they left with a copy of
> > Bio-Linux and all their work and notes in one elegant package.
> >
> > Thanks very much for your help
> >
> > Mike
> >
> >
> > Mike Cox
> >
> > Research Associate
> > Molecular Genetics & Genomics
> >
> > Genomic Medicine
> > National Heart and Lung Institute
> > Guy Scadding Building
> > Royal Brompton Campus
> > London SW3 6LY
> >
> > 0207 594 7974
> >
> > http://www1.imperial.ac.uk/medicine/people/michael.cox1/
> >
> > * New NHLI short course "Principles of Genomic Medicine" *
> > http://www1.imperial.ac.uk/nhli/PGM
> >
> >
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> > End of Bio-Linux Digest, Vol 69, Issue 1
> > ****************************************
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>
--
Tim Booth <tbooth at ceh.ac.uk>
NERC Environmental Bioinformatics Centre
Centre for Ecology and Hydrology
Maclean Bldg, Benson Lane
Crowmarsh Gifford
Wallingford, England
OX10 8BB
http://nebc.nerc.ac.uk
+44 1491 69 2705
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