--nate
>
> Best Wishes,
>
> Yan
>
> On Fri, Feb 11, 2011 at 10:19 AM, Yan Luo <
luomails@gmail.com> wrote:
>
> > Dear Nate,
> >
> > I cd "/home/kangtu/Downloads/galaxy-dist/galaxy_env/bin" and run activate
> > and get message:
> >
> > kangtu@dscbc-compute:~/Downloads/galaxy-dist/galaxy_env/bin$ activate
> > The program 'activate' is currently not installed. You can install it by
> > typing:
> > sudo apt-get install lilo
> >
> > Should I first install it?
> >
> > when I check the above folder, I do find the file 'activate'
> >
> > kangtu@dscbc-compute:~/Downloads/galaxy-dist/galaxy_env/bin$ ls
> > activate activate.fish easy_install pip python
> > activate.csh activate_this.py easy_install-2.6 pip-2.6
> > kangtu@dscbc-compute:~/Downloads/galaxy-dist/galaxy_env/bin$
> >
> > Could you please let me know if you have any suggestion?
> >
> > Best WIshes,
> >
> > Yan
> >
> >
> > On Fri, Feb 11, 2011 at 10:05 AM, Nate Coraor <
nate@bx.psu.edu> wrote:
> >
> >> Yan Luo wrote:
> >> > Dear Nate,
> >> >
> >> > I just run the first step and must use sudo to "wget" and it is ok.
> >> > Otherwsie, I can't write (Cannot write to `virtualenv.py.1' (Success).)
> >>
> >> I would strongly advise against using sudo for any part of this, since
> >> this is how permissions get screwed up. If you don't have permission to
> >> write to the directory in which you're downloading virtualenv.py and
> >> setting up the galaxy_env directory, choose another directory in which
> >> your regular unprivileged user can write.
> >>
> >> virtualenv.py already exists where you are downloading it, since wget is
> >> trying to save the file as virtualenv.py.1. You do not need to download
> >> it again.
> >>
> >> > -------------------
> >> >
> >> > kangtu@dscbc-compute:~/Downloads/galaxy-dist$ sudo wget
> >> >
http://bitbucket.org/ianb/virtualenv/raw/tip/virtualenv.py
> >> > [sudo] password for kangtu:
> >> > --2011-02-11 09:36:31--
> >> >
http://bitbucket.org/ianb/virtualenv/raw/tip/virtualenv.py
> >> > Resolving bitbucket.org... 207.223.240.182, 207.223.240.181
> >> > Connecting to
bitbucket.org|207.223.240.182|:80... connected.
> >> > HTTP request sent, awaiting response... 301 Moved Permanently
> >> > Location:
> >>
https://bitbucket.org/ianb/virtualenv/raw/tip/virtualenv.py[following]
> >> > --2011-02-11 09:36:31--
> >> >
https://bitbucket.org/ianb/virtualenv/raw/tip/virtualenv.py
> >> > Connecting to
bitbucket.org|207.223.240.182|:443... connected.
> >> > HTTP request sent, awaiting response... 200 OK
> >> > Length: unspecified [text/x-python]
> >> > Saving to: `virtualenv.py.1'
> >> >
> >> > [ <=> ] 75,592 --.-K/s in
> >> 0.04s
> >> >
> >> > 2011-02-11 09:36:31 (1.74 MB/s) - `virtualenv.py.1' saved [75592]
> >> > -------------------------------------------
> >> >
> >> > When I checked the root folder of "galaxy-dist", and found:
> >> >
> >> > -rw-r--r-- 1 kangtu admin 75592 2011-01-27 02:38 virtualenv.py
> >> > -rw-r--r-- 1 root root 75592 2011-02-11 09:40 virtualenv.py.1
> >> > -rw-r--r-- 1 kangtu admin 69811 2011-01-27 02:38 virtualenv.pyc
> >> >
> >> > Should I chang something for step b "python virtualenv.py
> >> --no-site-packages
> >> > galaxy_env"?
> >> > for example, "python virtualenv.py.1 --no-site-packages galaxy_env", or
> >> > rename "python virtualenv.py.1" as "python virtualenv.py".
> >>
> >> Skip the download and setup steps. Someone already created a
> >> virtualenv. Use the existing one. I am unclear from your previous
> >> emails whether the galaxy_env directory is at:
> >>
> >> /home/kangtu/data/tools/galaxy_env
> >>
> >> or:
> >>
> >> /home/kangtu/data/tools/galaxy-dist/galaxy_env
> >>
> >> Whichever it is, do the following:
> >>
> >> % . /home/kangtu/data/tools/galaxy_env/bin/activate
> >>
> >> or:
> >>
> >> % . /home/kangtu/data/tools/galaxy-dist/galaxy_env/bin/activate
> >>
> >> Then:
> >>
> >> % cd ~/Downloads/galaxy-dist
> >> % ./run.sh
> >>
> >> --nate
> >>
> >> >
> >> > Best Wishes,
> >> >
> >> > Yan
> >>
> >
> >