Hi Kip,
I had exactly the same problem you had, but I finally got it working. So
there is some hope :-) I am running Galaxy behind an Apache with RHEL 6.1.
The default Apache provided by RH was 2.2.15 which gave me exactly the
same error. So I upgraded to 2.2.21 using the src rpms from Fedora16
which did not help. But with being on 2.2.21 I patched the Apache server
with the following file which finally solved the byte range issue:
http://svn.apache.org/viewvc?view=revision&revision=1177080
The bug is described here:
https://issues.apache.org/bugzilla/show_bug.cgi?id=51878
Galt Barber from UCSC Genome Browser already commented on this.
To be able to build Apache on your own you can do something like this:
# rpm -i /root/httpd-2.2.21-1.fc16.src.rpm
# cd /root/rpmbuild/SPECS
# rpmbuild -ba httpd.spec
We edited the httpd.spec file and removed the dependency to
systemd-units so the following should work then.
# rpm -U
/root/rpmbuild/RPMS/x86_64/httpd-2.2.21-1.el6.x86_64.rpm
/root/rpmbuild/RPMS/x86_64/httpd-devel-2.2.21-1.el6.x86_64.rpm
/root/rpmbuild/RPMS/x86_64/httpd-tools-2.2.21-1.el6.x86_64.rpm
/root/rpmbuild/RPMS/x86_64/mod_ssl-2.2.21-1.el6.x86_64.rpm
/root/rpmbuild/RPMS/noarch/httpd-manual-2.2.21-1.el6.noarch.rpm
It might be helpful to work together with a Sysadmin.
Cheers
Manuel
--
Manuel Kohler
Center for Information Sciences and Databases (C-ISD)
Department of Biosystems Science & Engineering (D-BSSE)
ETH Zurich, Mattenstr. 26 (1058), CH-4058 Basel, +41 61 387 3132
Switzerland
On 14. October 2011 6:56 PM, Kip Bodi wrote:
> Hi Brad,
>
> They're binary BAM files. I followed the section below, but perhaps I
> missed something. Thanks for the clarification on the Paste server, and
> I think I'll try nginx next if I can't get forwarding through Apache to
> work.
>
> Cheers,
>
> -Kip
>
> On Thu, Oct 13, 2011 at 1:17 PM, Brad Chapman <chapmanb@50mail.com
> <mailto:chapmanb@50mail.com>> wrote:
>
>
> Kip;
> Are these binary BAM or BigWig type files you are having trouble
> displaying at UCSC? I don't believe the Paste server has support for the
> byte-range requests that UCSC needs, and you need to send files through
> the proxy server. I've done this with nginx so don't have direct Apache
> experience here, but the 'Sending files using Apache' section here
> should get it working:
>
> http://wiki.g2.bx.psu.edu/Admin/Config/Apache%20Proxy
>
> Brad
>
>
> > Perhaps this is a distribution issue. For those who have gotten
> the "Display
> > at UCSC" link to work on a local server or workstation, what linux
> > distribution and version did you use? Has anyone used this
> successfully with
> > Red Hat Enterprise Linux 6.1?
> >
> > Best,
> >
> > -Kip
> >
> > On Fri, Oct 7, 2011 at 6:28 PM, Bodi, Kip <Kip.Bodi@tufts.edu
> 617-636-3763 <tel:617-636-3763>> <mailto:Kip.Bodi@tufts.edu>> wrote:
> >
> > > Hi all,
> > >
> > > I have a local galaxy instance, proxied by Apache, and am
> trying to get the
> > > 'display at UCSC' link to work. I've followed all of the
> instructions and am
> > > nearly there, but now I'm getting this response from UCSC when
> it tries to
> > > load the track:
> > >
> > > "Byte-range request was ignored by server. Expected Partial
> Content 206."
> > > etc.
> > >
> > > I think the error is because the PasteWSGIServer isn't allowing
> byte-range
> > > requests. When I look at the header, "Accept-Ranges: bytes" is
> not present:
> > > [galaxy@galaxy galaxy_dist]$ curl --head localhost
> > > HTTP/1.1 200 OK
> > > Date: Fri, 07 Oct 2011 22:23:49 GMT
> > > Server: PasteWSGIServer/0.5 Python/2.6.6
> > > content-type: text/html; charset=UTF-8
> > > Set-Cookie:
> > >
> galaxysession=c6ca0ddb55be603a4e98b4f13a4db8bfb8635f0aa576697114d40b13a8355efe2cf7a075ef81d769;
> > > expires=Thu, 05-Jan-2012 17:23:49 GMT; Max-Age=7776000; Path=/;
> Version=1
> > > Vary: Accept-Encoding
> > > Connection: close
> > >
> > > Whereas on another server, "Accept-Ranges: bytes" appears in
> the header:
> > > [galaxy@galaxy galaxy_dist]$ curl --head apollo.med.tufts.edu
> <http://apollo.med.tufts.edu><
> > > http://apollo.med.tufts.edu>
> > > HTTP/1.1 403 Forbidden
> > > Date: Fri, 07 Oct 2011 22:22:42 GMT
> > > Server: Apache/2.2.21 (Fedora)
> > > Accept-Ranges: bytes
> > > Content-Length: 4609
> > > Connection: close
> > > Content-Type: text/html; charset=UTF-8
> > >
> > > I'm running RHEL6 with the latest version of galaxy-dist. I've
> tried
> > > manually enabling 'accept-ranges' but haven't had any luck. Any
> suggestions?
> > > Can I enable it somehow in universe_wsgi.ini?
> > >
> > > Best,
> > >
> > > -Kip
>
>
>
>
> --
> Kip Lord Bodi Jr.
> Tufts University School of Medicine
> 136 Harrison Avenue, South Cove 502
> Boston, MA 02118
> kip.bodi@tufts.edu <mailto:kip.bodi@tufts.edu>> ___________________________________________________________
> www.tucf.org <http://www.tucf.org> | genomics.med.tufts.edu
> <http://genomics.med.tufts.edu>
>
>
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