[Bio-Linux] Bio-Linux Digest, Vol 78, Issue 4
Parham Pourbozorgi
papo0009 at gapps.umu.se
Wed Mar 4 08:39:23 EST 2015
Hi Tim,
Good that you are confirming you couldn't set it up neither because I tried
so many different online tips.
I am moving to Vbox since it is working fine there. Thanks for all the
help any how.
Cheers,
Parham
On Wed, Mar 4, 2015 at 1:00 PM, <bio-linux-request at nebclists.nerc.ac.uk>
wrote:
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> Today's Topics:
>
> 1. VMWare shared folders (Tim Booth)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Tue, 3 Mar 2015 18:51:25 +0000
> From: Tim Booth <tbooth at ceh.ac.uk>
> To: Bio-Linux help and discussion <bio-linux at nebclists.nerc.ac.uk>
> Subject: [Bio-Linux] VMWare shared folders
> Message-ID: <1425408685.9751.22.camel at wllt1771.nerc-wallingford.ac.uk>
> Content-Type: text/plain; charset="UTF-8"
>
> Hi Parham,
>
> In the last day I've gone through and retried the setup on a fresh test
> installation using VMWare Desktop (which I think uses exactly the same
> drivers as the player) and indeed I was unable to get it working.
>
> So I'm sorry my original answers were totally useless and I think you
> are right that support has been discontinued. I came to this page:
>
> https://github.com/rasa/vmware-tools-patches
>
> Which suggested that by installing the 3.16.x kernel package
> "linux-image-virtual-lts-utopic" and applying the patches from that page
> I should be able to get the necessary kernel module compiled, but I've
> had no luck.
>
> Did the articles you read suggest an alternative? I'd imagine that
> sharing the folders in Windows then connecting to them using either
> gvfs-mount or mount.cifs would work, but as all the traffic will need to
> go through the networking layer it won't be as fast as using shared
> folders.
>
> Cheers,
>
> TIM
>
> On Tue, 2015-03-03 at 12:41 +0000, Parham Pourbozorgi wrote:
> > Hi Tim,
> > No worries thanks any way.
> > I tried the commands and here is the output again:
> >
> >
> > sudo mount -t vmhgfs .host:/ /mnt/shared
> > Error: cannot mount filesystem: No such device
> >
> >
> > I assumed vmware-config-tools.pl should be ran with default values. It
> > seems it's not working with VMware. I don't have any problem with
> > VirtualBox. I just prefer VM because it runs biolinux faster than
> > VirtualBox. At least a year ago that was my experience so then I
> > switched to VM. I must add that several places I read that VM has
> > removed this shared folder option from newer version. Could that be
> > the reason?
> >
> >
> >
> >
> > Cheers,
> > Parham
> >
> >
> >
> > Kind regards,
> > Parham Pourbozorogi
> >
> >
> > PhD student,
> > Dept. of medical biochemistry and biophysics,
> > Ume? Unviersity,
> > Ume? - Sweden
> >
> > On Tue, Mar 3, 2015 at 1:00 PM,
> > <bio-linux-request at nebclists.nerc.ac.uk> wrote:
> > Send Bio-Linux mailing list submissions to
> > bio-linux at nebclists.nerc.ac.uk
> >
> > To subscribe or unsubscribe via the World Wide Web, visit
> > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
> > or, via email, send a message with subject or body 'help' to
> > bio-linux-request at nebclists.nerc.ac.uk
> >
> > You can reach the person managing the list at
> > bio-linux-owner at nebclists.nerc.ac.uk
> >
> > When replying, please edit your Subject line so it is more
> > specific
> > than "Re: Contents of Bio-Linux digest..."
> >
> >
> > Today's Topics:
> >
> > 1. Re: Bio-Linux Digest, Vol 78, Issue 1 (Parham
> > Pourbozorgi)
> > 2. VMWare player shared folders (Tim Booth)
> >
> >
> >
> ----------------------------------------------------------------------
> >
> > Message: 1
> > Date: Mon, 2 Mar 2015 15:43:45 +0100
> > From: Parham Pourbozorgi <papo0009 at gapps.umu.se>
> > To: bio-linux at nebclists.nerc.ac.uk
> > Subject: Re: [Bio-Linux] Bio-Linux Digest, Vol 78, Issue 1
> > Message-ID:
> > <CAHhAhSjuPFw54R8YMY+jVCZim7aVkFXL41-mj1fjEoUDq
> > +PUsg at mail.gmail.com>
> > Content-Type: text/plain; charset="utf-8"
> >
> > Hi,
> > Thanks for looking into it. I tried the steps, it seems there
> > is no vboxsf
> > available. This is the output:
> > sudo usermod -aG vboxsf $USER
> > usermod: group 'vboxsf' does not exist
> >
> > I must add that I installed VMware's tools with default
> > values, in case
> > they had to be changed.
> >
> > Cheers,
> > Parham
> >
> > Kind regards,
> > Parham Pourbozorogi
> >
> > PhD student,
> > Dept. of medical biochemistry and biophysics,
> > Ume? Unviersity,
> > Ume? - Sweden
> >
> > On Mon, Mar 2, 2015 at 1:00 PM,
> > <bio-linux-request at nebclists.nerc.ac.uk>
> > wrote:
> >
> > > Send Bio-Linux mailing list submissions to
> > > bio-linux at nebclists.nerc.ac.uk
> > >
> > > To subscribe or unsubscribe via the World Wide Web, visit
> > >
> > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
> > > or, via email, send a message with subject or body 'help' to
> > > bio-linux-request at nebclists.nerc.ac.uk
> > >
> > > You can reach the person managing the list at
> > > bio-linux-owner at nebclists.nerc.ac.uk
> > >
> > > When replying, please edit your Subject line so it is more
> > specific
> > > than "Re: Contents of Bio-Linux digest..."
> > >
> > >
> > > Today's Topics:
> > >
> > > 1. Re: shared folders disappeared after update (Tim
> > Booth)
> > >
> > >
> > >
> >
> ----------------------------------------------------------------------
> > >
> > > Message: 1
> > > Date: Mon, 2 Mar 2015 10:21:46 +0000
> > > From: Tim Booth <tbooth at ceh.ac.uk>
> > > To: Bio-Linux help and discussion
> > <bio-linux at nebclists.nerc.ac.uk>
> > > Cc: Parham Pourbozorgi <papo0009 at gapps.umu.se>
> > > Subject: Re: [Bio-Linux] shared folders disappeared after
> > update
> > > Message-ID:
> > >
> > <1425291706.29012.142.camel at wllt1771.nerc-wallingford.ac.uk>
> > > Content-Type: text/plain; charset="UTF-8"
> > >
> > > Hi Parham,
> > >
> > > Sorry to hear about this. Let's check things through one
> > step at a
> > > time, though I'm sure you've done most of this already:
> > >
> > > 1) In the VM, check that all updates applied successfully.
> > You can do
> > > this in the terminal like so:
> > >
> > > sudo apt-get update
> > > sudo apt-get dist-upgrade
> > >
> > > You should see 0 to install and 0 errors.
> > >
> > > 2) Type 'groups' and see if the list includes the word
> > 'vboxsf'. If
> > > not, run:
> > >
> > > sudo usermod -aG vboxsf $USER
> > >
> > > 3) Shut down the VM
> > >
> > > 4) In the shared folder settings in the VM, remove the
> > shared folder
> > > definition and recreate it from scratch with the options
> > 'auto-mount'
> > > and 'make permanent' selected.
> > >
> > > 5) Boot up the VM
> > >
> > > 6) In the VM, open up a terminal and give the command:
> > >
> > > sudo VBoxControl --nologo sharedfolder list
> > >
> > > What do you see?
> > >
> > > 7) Also, give the command:
> > >
> > > ls -l /media
> > >
> > > Again, what do you see?
> > >
> > > Cheers,
> > >
> > > TIM
> > >
> > > On Fri, 2015-02-27 at 22:00 +0000, Parham Pourbozorgi wrote:
> > > > Hello all,
> > > > I have been using biolinux 8 on VMware player 7.1.0
> > build-2496824.
> > > > Yesterday after a biolinux (or may be Ubuntu) update the
> > shared
> > > > folders between VMware and my host (Windows 8.1)
> > disappeared and no
> > > > matter how many of the online tips I tried and how many
> > times I
> > > > re-installed the biolinux I couldn't figure out a
> > solution. I was
> > > > wondering if you know the cause and you can give any
> > advise.
> > > >
> > > >
> > > > I must add that biolinux is a fantastic job and I really
> > appreciate
> > > > the effort, thanks!
> > > >
> > > >
> > > >
> > > > Cheers,
> > > > Parham
> > >
> > > --
> > > 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://environmentalomics.org/bio-linux
> > > +44 1491 69 2297
> > >
> > >
> > >
> > > ------------------------------
> > >
> > > Subject: Digest Footer
> > >
> > > _______________________________________________
> > > Bio-Linux mailing list
> > > Bio-Linux at nebclists.nerc.ac.uk
> > > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
> > >
> > >
> > > ------------------------------
> > >
> > > End of Bio-Linux Digest, Vol 78, Issue 1
> > > ****************************************
> > >
> > -------------- next part --------------
> > An HTML attachment was scrubbed...
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> http://nebclists.nerc.ac.uk/pipermail/bio-linux/attachments/20150302/bfbf99a3/attachment-0001.html
> >
> >
> > ------------------------------
> >
> > Message: 2
> > Date: Mon, 2 Mar 2015 16:46:53 +0000
> > From: Tim Booth <tbooth at ceh.ac.uk>
> > To: Bio-Linux help and discussion
> > <bio-linux at nebclists.nerc.ac.uk>
> > Subject: [Bio-Linux] VMWare player shared folders
> > Message-ID:
> >
> > <1425314813.29012.158.camel at wllt1771.nerc-wallingford.ac.uk>
> > Content-Type: text/plain; charset="UTF-8"
> >
> > Hi Parham,
> >
> > I do apologise - I didn't read your e-mail properly and sent
> > instructions for VirtualBox rather than VMWare. You can
> > ignore the
> > vboxsf stuff.
> >
> > Given you already installed the VMWare drivers, please try
> > this:
> >
> > sudo apt-get install linux-headers-generic
> >
> > sudo vmware-config-tools.pl
> >
> > sudo mkdir -p /mnt/shared
> >
> > sudo mount -t vmhgfs .host:/ /mnt/shared
> >
> > ls /mnt/*
> >
> > Any joy? Or else what exact error messages do you get?
> >
> > Cheers,
> >
> > TIM
> >
> > On Mon, 2015-03-02 at 14:43 +0000, Parham Pourbozorgi wrote:
> > > Hi,
> > > Thanks for looking into it. I tried the steps, it seems
> > there is no
> > > vboxsf available. This is the output:
> > > sudo usermod -aG vboxsf $USER
> > > usermod: group 'vboxsf' does not exist
> > >
> > >
> > > I must add that I installed VMware's tools with default
> > values, in
> > > case they had to be changed.
> > >
> > >
> > > Cheers,
> > > Parham
> > >
> > > Kind regards,
> > > Parham Pourbozorogi
> > >
> > >
> > > PhD student,
> > > Dept. of medical biochemistry and biophysics,
> > > Ume? Unviersity,
> > > Ume? - Sweden
> > >
> > > On Mon, Mar 2, 2015 at 1:00 PM,
> > > <bio-linux-request at nebclists.nerc.ac.uk> wrote:
> > > Send Bio-Linux mailing list submissions to
> > > bio-linux at nebclists.nerc.ac.uk
> > >
> > > To subscribe or unsubscribe via the World Wide Web,
> > visit
> > >
> > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
> > > or, via email, send a message with subject or body
> > 'help' to
> > > bio-linux-request at nebclists.nerc.ac.uk
> > >
> > > You can reach the person managing the list at
> > > bio-linux-owner at nebclists.nerc.ac.uk
> > >
> > > When replying, please edit your Subject line so it
> > is more
> > > specific
> > > than "Re: Contents of Bio-Linux digest..."
> > >
> > >
> > > Today's Topics:
> > >
> > > 1. Re: shared folders disappeared after update
> > (Tim Booth)
> > >
> > >
> > >
> >
> ----------------------------------------------------------------------
> > >
> > > Message: 1
> > > Date: Mon, 2 Mar 2015 10:21:46 +0000
> > > From: Tim Booth <tbooth at ceh.ac.uk>
> > > To: Bio-Linux help and discussion
> > > <bio-linux at nebclists.nerc.ac.uk>
> > > Cc: Parham Pourbozorgi <papo0009 at gapps.umu.se>
> > > Subject: Re: [Bio-Linux] shared folders disappeared
> > after
> > > update
> > > Message-ID:
> > >
> > >
> > <1425291706.29012.142.camel at wllt1771.nerc-wallingford.ac.uk>
> > > Content-Type: text/plain; charset="UTF-8"
> > >
> > > Hi Parham,
> > >
> > > Sorry to hear about this. Let's check things
> > through one step
> > > at a
> > > time, though I'm sure you've done most of this
> > already:
> > >
> > > 1) In the VM, check that all updates applied
> > successfully.
> > > You can do
> > > this in the terminal like so:
> > >
> > > sudo apt-get update
> > > sudo apt-get dist-upgrade
> > >
> > > You should see 0 to install and 0 errors.
> > >
> > > 2) Type 'groups' and see if the list includes the
> > word
> > > 'vboxsf'. If
> > > not, run:
> > >
> > > sudo usermod -aG vboxsf $USER
> > >
> > > 3) Shut down the VM
> > >
> > > 4) In the shared folder settings in the VM, remove
> > the shared
> > > folder
> > > definition and recreate it from scratch with the
> > options
> > > 'auto-mount'
> > > and 'make permanent' selected.
> > >
> > > 5) Boot up the VM
> > >
> > > 6) In the VM, open up a terminal and give the
> > command:
> > >
> > > sudo VBoxControl --nologo sharedfolder list
> > >
> > > What do you see?
> > >
> > > 7) Also, give the command:
> > >
> > > ls -l /media
> > >
> > > Again, what do you see?
> > >
> > > Cheers,
> > >
> > > TIM
> > >
> > > On Fri, 2015-02-27 at 22:00 +0000, Parham
> > Pourbozorgi wrote:
> > > > Hello all,
> > > > I have been using biolinux 8 on VMware player
> > 7.1.0
> > > build-2496824.
> > > > Yesterday after a biolinux (or may be Ubuntu)
> > update the
> > > shared
> > > > folders between VMware and my host (Windows 8.1)
> > disappeared
> > > and no
> > > > matter how many of the online tips I tried and how
> > many
> > > times I
> > > > re-installed the biolinux I couldn't figure out a
> > solution.
> > > I was
> > > > wondering if you know the cause and you can give
> > any advise.
> > > >
> > > >
> > > > I must add that biolinux is a fantastic job and I
> > really
> > > appreciate
> > > > the effort, thanks!
> > > >
> > > >
> > > >
> > > > Cheers,
> > > > Parham
> > >
> > > --
> > > 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://environmentalomics.org/bio-linux
> > > +44 1491 69 2297
> > >
> > >
> > >
> > > ------------------------------
> > >
> > > Subject: Digest Footer
> > >
> > > _______________________________________________
> > > Bio-Linux mailing list
> > > Bio-Linux at nebclists.nerc.ac.uk
> > >
> > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
> > >
> > >
> > > ------------------------------
> > >
> > > End of Bio-Linux Digest, Vol 78, Issue 1
> > > ****************************************
> > >
> > >
> >
> > --
> > 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://environmentalomics.org/bio-linux
> > +44 1491 69 2297
> >
> >
> >
> > ------------------------------
> >
> > Subject: Digest Footer
> >
> > _______________________________________________
> > Bio-Linux mailing list
> > Bio-Linux at nebclists.nerc.ac.uk
> > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
> >
> >
> > ------------------------------
> >
> > End of Bio-Linux Digest, Vol 78, Issue 2
> > ****************************************
> >
> >
>
> --
> 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://environmentalomics.org/bio-linux
> +44 1491 69 2297
>
>
>
> ------------------------------
>
> Subject: Digest Footer
>
> _______________________________________________
> Bio-Linux mailing list
> Bio-Linux at nebclists.nerc.ac.uk
> http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux
>
>
> ------------------------------
>
> End of Bio-Linux Digest, Vol 78, Issue 4
> ****************************************
>
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