Hello, I have installed "blast" on the server and updated datatypes.xml by copying datatypes.xml.sample. This removes the last three errors from stderror.
Still working on: Error running cuffdiff. [12:48:21] Loading reference annotation. Warning: No conditions are replicated, switching to 'blind' dispersion method [12:48:33] Inspecting maps and determining fragment length distributions. terminate called after throwing an instance of 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::thread_resource_error>>' what(): boost::thread_resource_error: Resource temporarily unavailable -Rob On Mon, Jun 24, 2013 at 11:36 AM, Robert Chase <re...@channing.harvard.edu>wrote: > Hello, > > I have reinstalled cufflinks from source and now I get a new error. I am > using the Cuffdiff wrapper (version 0.0.6) and cufflinks-2.1.1. The boxes > come back green but there is no output and there is a message in the > standard error box. > > Error running cuffdiff. [21:34:00] Loading reference annotation. > Warning: No conditions are replicated, switching to 'blind' dispersion method > [21:34:12] Inspecting maps and determining fragment length distributions. > terminate called after throwing an instance of > 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::thread_resource_error> > >' > what(): boost::thread_resource_error: Resource temporarily unavailable > > WARNING:galaxy.datatypes.registry:Error loading datatype with extension > 'blastxml': 'module' object has no attribute 'BlastXml' > WARNING:galaxy.datatypes.registry:Error loading datatype with extension > 'wsf': 'module' object has no attribute 'wsf' > WARNING:galaxy.datatypes.registry:Error appending sniffer for datatype > 'galaxy.datatypes.xml:BlastXml' to sniff_order: 'module' object has no > attribute 'BlastXml' > > > Thankyou, > > -Rob > > > On Tue, Jun 11, 2013 at 5:40 PM, James Taylor <ja...@jamestaylor.org>wrote: > >> > [galaxy@q ~]$ /bin/cuffdiff >> > /bin/cuffdiff: /usr/lib64/libz.so.1: no version information available >> > (required by /bin/cuffdiff) >> > cuffdiff v2.0.2 (3522) >> >> This definitely indicates a problem with your cuffdiff install. Did >> you build cuffdiff on that system or install in some other way? (very >> odd to have it installed in /bin). >> > >
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